analysis of sequence from tem16.fa
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
>gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
MVKCYHKKYRSATRDVIFRLQFHTGAVQGYGLVFGKEDLDNASKDDRFPDYGKVELVFSATPEKIQGSEHLYNDHGVIVD
YNTTDPLIRWDSYENLSADGEVLHTQGPVDGSLYAKVRKKSSSDPGIPGGPQAIPATNSPDHSDHTLSVSSDSGHSTASA
RTDKTEERLAPGTRRGLSAQEKAELDQLLSGFGLEDPGSSLKEMTDARSKYSGTRHVVPAQVHVNGDAALKDRETDILDD
EMPHHDLHSVDSLGTLSSSEGPQSAHLGPFTCHKSSQNSLLSDGFGSNVGEDPQGTLVPDLGLGMDGPYERERTFGSREP
KQPQPLLRKPSVSAQMQAYGQSSYSTQTWVRQQQMVVAHQYSFAPDGEARLVSRCPADNPGLVQAQPRVPLTPTRGTSSR
VAVQRGVGSGPHPPDTQQPSPSKAFKPRFPGDQVVNGAGPELSTGPSPGSPTLDIDQSIEQLNRLILELDPTFEPIPTHM
NALGSQANGSVSPDSVGGGLRASSRLPDTGEGPSRATGRQGSSAEQPLGGRLRKLSLGQYDNDAGGQLPFSKCAWGKAGV
DYAPNLPPFPSPADVKETMTPGYPQDLDIIDGRILSSKESMCSTPAFPVSPETPYVKTALRHPPFSPPEPPLSSPASQHK
GGREPRSCPETLTHAVGMSESPIGPKSTMLRADASSTPSFQQAFASSCTISSNGPGQRRESSSSAERQWVESSPKPMVSL
LGSGRPTGSPLSAEFSGTRKDSPVLSCFPPSELQAPFHSHELSLAEPPDSLAPPSSQAFLGFGTAPVGSGLPPEEDLGAL
LANSHGASPTPSIPLTATGAADNGFLSHNFLTVAPGHSSHHSPGLQGQGVTLPGQPPLPEKKRASEGDRSLGSVSPSSSG
FSSPHSGSTISIPFPNVLPDFSKASEAASPLPDSPGDKLVIVKFVQDTSKFWYKADISREQAIAMLKDKEPGSFIVRDSH
SFRGAYGLAMKVATPPPSVLQLNKKAGDLANELVRHFLIECTPKGVRLKGCSNEPYFGSLTALVCQHSITPLALPCKLLI
PERDPLEEIAESSPQTAANSAAELLKQGAACNVWYLNSVEMESLTGHQAIQKALSITLVQEPPPVSTVVHFKVSAQGITL
TDNQRKLFFRRHYPVNSVIFCALDPQDRKWIKDGPSSKVFGFVARKQGSATDNVCHLFAEHDPEQPASAIVNFVSKVMIG
SPKKV
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
sec.str. with predator
> gi|15987493|gb|AAL11993.1|AF378756_1
. . . . .
1 MVKCYHKKYRSATRDVIFRLQFHTGAVQGYGLVFGKEDLDNASKDDRFPD 50
___________HHHHHH__HHHHHEEEE__EEEEE_______________
. . . . .
51 YGKVELVFSATPEKIQGSEHLYNDHGVIVDYNTTDPLIRWDSYENLSADG 100
__EEEEEE__________________EEEE______EEE___________
. . . . .
101 EVLHTQGPVDGSLYAKVRKKSSSDPGIPGGPQAIPATNSPDHSDHTLSVS 150
EEEEE__________HHHHH__________________________EEEE
. . . . .
151 SDSGHSTASARTDKTEERLAPGTRRGLSAQEKAELDQLLSGFGLEDPGSS 200
_______________EEE_______HHHHHHHHHHHHHHH__________
. . . . .
201 LKEMTDARSKYSGTRHVVPAQVHVNGDAALKDRETDILDDEMPHHDLHSV 250
HHHHHHHHHH__________EEE____HHHHHHHH_______________
. . . . .
251 DSLGTLSSSEGPQSAHLGPFTCHKSSQNSLLSDGFGSNVGEDPQGTLVPD 300
__________________________________________________
. . . . .
301 LGLGMDGPYERERTFGSREPKQPQPLLRKPSVSAQMQAYGQSSYSTQTWV 350
________________________________HHHHHHH_______HHHH
. . . . .
351 RQQQMVVAHQYSFAPDGEARLVSRCPADNPGLVQAQPRVPLTPTRGTSSR 400
HHHHHHHHHHH________EEEE________EEE________________
. . . . .
401 VAVQRGVGSGPHPPDTQQPSPSKAFKPRFPGDQVVNGAGPELSTGPSPGS 450
EEEEEE____________________________________________
. . . . .
451 PTLDIDQSIEQLNRLILELDPTFEPIPTHMNALGSQANGSVSPDSVGGGL 500
___HHHHHHHHHHHHHHH________________________________
. . . . .
501 RASSRLPDTGEGPSRATGRQGSSAEQPLGGRLRKLSLGQYDNDAGGQLPF 550
__________________________________________________
. . . . .
551 SKCAWGKAGVDYAPNLPPFPSPADVKETMTPGYPQDLDIIDGRILSSKES 600
___________________________________________EEE____
. . . . .
601 MCSTPAFPVSPETPYVKTALRHPPFSPPEPPLSSPASQHKGGREPRSCPE 650
______________EEEE________________________________
. . . . .
651 TLTHAVGMSESPIGPKSTMLRADASSTPSFQQAFASSCTISSNGPGQRRE 700
___EEE___________HHHHHH______HHHHHHH___________EEE
. . . . .
701 SSSSAERQWVESSPKPMVSLLGSGRPTGSPLSAEFSGTRKDSPVLSCFPP 750
____HHHHHHH_____EEEE______________________________
. . . . .
751 SELQAPFHSHELSLAEPPDSLAPPSSQAFLGFGTAPVGSGLPPEEDLGAL 800
___________EEEE___________EEEE_______________HHHHH
. . . . .
801 LANSHGASPTPSIPLTATGAADNGFLSHNFLTVAPGHSSHHSPGLQGQGV 850
HHH__________EEEE________________________________E
. . . . .
851 TLPGQPPLPEKKRASEGDRSLGSVSPSSSGFSSPHSGSTISIPFPNVLPD 900
EE____________________________________EEEEE_______
. . . . .
901 FSKASEAASPLPDSPGDKLVIVKFVQDTSKFWYKADISREQAIAMLKDKE 950
HHHHHHH__________EEEEEEEE_____EEE___HHHHHHHHHHHH__
. . . . .
951 PGSFIVRDSHSFRGAYGLAMKVATPPPSVLQLNKKAGDLANELVRHFLIE 1000
__EEEEE____________EEEE_____HHHHH___HHHHHHHHHHHHEE
. . . . .
1001 CTPKGVRLKGCSNEPYFGSLTALVCQHSITPLALPCKLLIPERDPLEEIA 1050
E____EEEE_________HHHHHHH__________EEEEEE____HHHHH
. . . . .
1051 ESSPQTAANSAAELLKQGAACNVWYLNSVEMESLTGHQAIQKALSITLVQ 1100
H____HHHHHHHHHHHH___EEEEEE_________HHHHHHHHHHHH___
. . . . .
1101 EPPPVSTVVHFKVSAQGITLTDNQRKLFFRRHYPVNSVIFCALDPQDRKW 1150
_____EEEEEEEE__________HHHHHHH______EEEEEE______EE
. . . . .
1151 IKDGPSSKVFGFVARKQGSATDNVCHLFAEHDPEQPASAIVNFVSKVMIG 1200
EE_______EEEEE__________EEEEE________EEEHHHHHHH___
1201 SPKKV 1205
_____
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
method : 1
alpha-contents : 11.3 %
beta-contents : 3.4 %
coil-contents : 85.4 %
class : irregular
method : 2
alpha-contents : 0.0 %
beta-contents : 0.5 %
coil-contents : 99.5 %
class : irregular
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
GPI: learning from metazoa
-18.02 -5.20 -2.80 -0.25 -4.00 0.00 0.00 0.00 -0.15 -2.17 -0.58 0.00 -12.00 0.00 0.00 0.00 -45.17
0.56 0.00 0.00 0.00 0.00 0.00 -16.00 -0.53 -0.36 -2.68 -0.58 -12.00 0.00 0.00 0.00 0.00 -31.59
ID: gi|15987493|gb|AAL11993.1|AF378756_1 AC: xxx Len: 1200 1:I 1187 Sc: -31.59 Pv: 8.232018e-02 NO_GPI_SITE
GPI: learning from protozoa
-13.82 -0.26 -0.42 -0.20 -4.00 0.00 -12.00 -2.74 -0.03 -2.46 -3.20 -12.00 -12.00 0.00 0.00 0.00 -63.13
-6.84 0.00 0.00 -0.01 0.00 0.00 -16.00 -1.18 -0.04 -2.46 -3.20 -12.00 -12.00 0.00 0.00 0.00 -53.73
ID: gi|15987493|gb|AAL11993.1|AF378756_1 AC: xxx Len: 1200 1:I 1187 Sc: -53.73 Pv: 1.678742e-01 NO_GPI_SITE
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
# SignalP euk predictions
# name Cmax pos ? Ymax pos ? Smax pos ? Smean ?
gi|15987493 0.270 68 N 0.137 1036 N 0.346 1027 N 0.056 N
# SignalP gram- predictions
# name Cmax pos ? Ymax pos ? Smax pos ? Smean ?
gi|15987493 0.460 808 N 0.193 1034 N 0.906 1134 Y 0.117 N
# SignalP gram+ predictions
# name Cmax pos ? Ymax pos ? Smax pos ? Smean ?
gi|15987493 0.552 161 Y 0.346 905 Y 0.961 5 Y 0.152 N
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
low complexity regions: SEG 12 2.2 2.5
>gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
1-124 MVKCYHKKYRSATRDVIFRLQFHTGAVQGY
GLVFGKEDLDNASKDDRFPDYGKVELVFSA
TPEKIQGSEHLYNDHGVIVDYNTTDPLIRW
DSYENLSADGEVLHTQGPVDGSLYAKVRKK
SSSD
pgipggpqaipa 125-136
137-622 TNSPDHSDHTLSVSSDSGHSTASARTDKTE
ERLAPGTRRGLSAQEKAELDQLLSGFGLED
PGSSLKEMTDARSKYSGTRHVVPAQVHVNG
DAALKDRETDILDDEMPHHDLHSVDSLGTL
SSSEGPQSAHLGPFTCHKSSQNSLLSDGFG
SNVGEDPQGTLVPDLGLGMDGPYERERTFG
SREPKQPQPLLRKPSVSAQMQAYGQSSYST
QTWVRQQQMVVAHQYSFAPDGEARLVSRCP
ADNPGLVQAQPRVPLTPTRGTSSRVAVQRG
VGSGPHPPDTQQPSPSKAFKPRFPGDQVVN
GAGPELSTGPSPGSPTLDIDQSIEQLNRLI
LELDPTFEPIPTHMNALGSQANGSVSPDSV
GGGLRASSRLPDTGEGPSRATGRQGSSAEQ
PLGGRLRKLSLGQYDNDAGGQLPFSKCAWG
KAGVDYAPNLPPFPSPADVKETMTPGYPQD
LDIIDGRILSSKESMCSTPAFPVSPETPYV
KTALRH
ppfsppepplsspas 623-637
638-700 QHKGGREPRSCPETLTHAVGMSESPIGPKS
TMLRADASSTPSFQQAFASSCTISSNGPGQ
RRE
ssss 701-704
705-869 AERQWVESSPKPMVSLLGSGRPTGSPLSAE
FSGTRKDSPVLSCFPPSELQAPFHSHELSL
AEPPDSLAPPSSQAFLGFGTAPVGSGLPPE
EDLGALLANSHGASPTPSIPLTATGAADNG
FLSHNFLTVAPGHSSHHSPGLQGQGVTLPG
QPPLPEKKRASEGDR
slgsvspsssgfssphsgstisip 870-893
894-1205 FPNVLPDFSKASEAASPLPDSPGDKLVIVK
FVQDTSKFWYKADISREQAIAMLKDKEPGS
FIVRDSHSFRGAYGLAMKVATPPPSVLQLN
KKAGDLANELVRHFLIECTPKGVRLKGCSN
EPYFGSLTALVCQHSITPLALPCKLLIPER
DPLEEIAESSPQTAANSAAELLKQGAACNV
WYLNSVEMESLTGHQAIQKALSITLVQEPP
PVSTVVHFKVSAQGITLTDNQRKLFFRRHY
PVNSVIFCALDPQDRKWIKDGPSSKVFGFV
ARKQGSATDNVCHLFAEHDPEQPASAIVNF
VSKVMIGSPKKV
low complexity regions: SEG 25 3.0 3.3
>gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
1-135 MVKCYHKKYRSATRDVIFRLQFHTGAVQGY
GLVFGKEDLDNASKDDRFPDYGKVELVFSA
TPEKIQGSEHLYNDHGVIVDYNTTDPLIRW
DSYENLSADGEVLHTQGPVDGSLYAKVRKK
SSSDPGIPGGPQAIP
atnspdhsdhtlsvssdsghstasa 136-160
161-330 RTDKTEERLAPGTRRGLSAQEKAELDQLLS
GFGLEDPGSSLKEMTDARSKYSGTRHVVPA
QVHVNGDAALKDRETDILDDEMPHHDLHSV
DSLGTLSSSEGPQSAHLGPFTCHKSSQNSL
LSDGFGSNVGEDPQGTLVPDLGLGMDGPYE
RERTFGSREPKQPQPLLRKP
svsaqmqaygqssystqtwvrqqqmvvahq 331-362
ys
363-379 FAPDGEARLVSRCPADN
pglvqaqprvpltptrgtssrvavqrgvgs 380-422
gphppdtqqpsps
423-602 KAFKPRFPGDQVVNGAGPELSTGPSPGSPT
LDIDQSIEQLNRLILELDPTFEPIPTHMNA
LGSQANGSVSPDSVGGGLRASSRLPDTGEG
PSRATGRQGSSAEQPLGGRLRKLSLGQYDN
DAGGQLPFSKCAWGKAGVDYAPNLPPFPSP
ADVKETMTPGYPQDLDIIDGRILSSKESMC
stpafpvspetpyvktalrhppfsppeppl 603-649
sspasqhkggreprscp
650-741 ETLTHAVGMSESPIGPKSTMLRADASSTPS
FQQAFASSCTISSNGPGQRRESSSSAERQW
VESSPKPMVSLLGSGRPTGSPLSAEFSGTR
KD
spvlscfppselqapfhshelslaeppdsl 742-827
appssqaflgfgtapvgsglppeedlgall
anshgasptpsipltatgaadngfls
828-834 HNFLTVA
pghsshhspglqgqgvtlpgqpplpekkra 835-895
segdrslgsvspsssgfssphsgstisipf
p
896-1205 NVLPDFSKASEAASPLPDSPGDKLVIVKFV
QDTSKFWYKADISREQAIAMLKDKEPGSFI
VRDSHSFRGAYGLAMKVATPPPSVLQLNKK
AGDLANELVRHFLIECTPKGVRLKGCSNEP
YFGSLTALVCQHSITPLALPCKLLIPERDP
LEEIAESSPQTAANSAAELLKQGAACNVWY
LNSVEMESLTGHQAIQKALSITLVQEPPPV
STVVHFKVSAQGITLTDNQRKLFFRRHYPV
NSVIFCALDPQDRKWIKDGPSSKVFGFVAR
KQGSATDNVCHLFAEHDPEQPASAIVNFVS
KVMIGSPKKV
low complexity regions: SEG 45 3.4 3.75
>gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
1-104 MVKCYHKKYRSATRDVIFRLQFHTGAVQGY
GLVFGKEDLDNASKDDRFPDYGKVELVFSA
TPEKIQGSEHLYNDHGVIVDYNTTDPLIRW
DSYENLSADGEVLH
tqgpvdgslyakvrkksssdpgipggpqai 105-217
patnspdhsdhtlsvssdsghstasartdk
teerlapgtrrglsaqekaeldqllsgfgl
edpgsslkemtdarskysgtrhv
218-363 VPAQVHVNGDAALKDRETDILDDEMPHHDL
HSVDSLGTLSSSEGPQSAHLGPFTCHKSSQ
NSLLSDGFGSNVGEDPQGTLVPDLGLGMDG
PYERERTFGSREPKQPQPLLRKPSVSAQMQ
AYGQSSYSTQTWVRQQQMVVAHQYSF
apdgearlvsrcpadnpglvqaqprvpltp 364-454
trgtssrvavqrgvgsgphppdtqqpspsk
afkprfpgdqvvngagpelstgpspgsptl
d
455-481 IDQSIEQLNRLILELDPTFEPIPTHMN
algsqangsvspdsvggglrassrlpdtge 482-574
gpsratgrqgssaeqplggrlrklslgqyd
ndaggqlpfskcawgkagvdyapnlppfps
pad
575-658 VKETMTPGYPQDLDIIDGRILSSKESMCST
PAFPVSPETPYVKTALRHPPFSPPEPPLSS
PASQHKGGREPRSCPETLTHAVGM
sespigpkstmlradasstpsfqqafassc 659-916
tissngpgqrressssaerqwvesspkpmv
sllgsgrptgsplsaefsgtrkdspvlscf
ppselqapfhshelslaeppdslappssqa
flgfgtapvgsglppeedlgallanshgas
ptpsipltatgaadngflshnfltvapghs
shhspglqgqgvtlpgqpplpekkrasegd
rslgsvspsssgfssphsgstisipfpnvl
pdfskaseaasplpdspg
917-1205 DKLVIVKFVQDTSKFWYKADISREQAIAML
KDKEPGSFIVRDSHSFRGAYGLAMKVATPP
PSVLQLNKKAGDLANELVRHFLIECTPKGV
RLKGCSNEPYFGSLTALVCQHSITPLALPC
KLLIPERDPLEEIAESSPQTAANSAAELLK
QGAACNVWYLNSVEMESLTGHQAIQKALSI
TLVQEPPPVSTVVHFKVSAQGITLTDNQRK
LFFRRHYPVNSVIFCALDPQDRKWIKDGPS
SKVFGFVARKQGSATDNVCHLFAEHDPEQP
ASAIVNFVSKVMIGSPKKV
low complexity regions: XNU
# Score cutoff = 21, Search from offsets 1 to 4
# both members of each repeat flagged
# lambda = 0.347, K = 0.200, H = 0.664
>gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
MVKCYHKKYRSATRDVIFRLQFHTGAVQGYGLVFGKEDLDNASKDDRFPDYGKVELVFSA
TPEKIQGSEHLYNDHGVIVDYNTTDPLIRWDSYENLSADGEVLHTQGPVDGSLYAKVRKK
SSSDpgipggpqaipatnspdhsdhtlsvssdsghstasartdkteERLAPGTRRGLSAQ
EKAELDQLLSGFGLEDPGSSLKEMTDARSKYSGTRHVVPAQVHVNGDAALKDRETDILDD
EMPHhdlhsvdslgtlsssegpqsahLGPFTCHKSSQNSLLSDGFGSNVGEDPQGTLVPD
LGLGMDGPYERERTFGSREPKQPQPLLRKPSVSAQMQAYGQSSYSTQTWVRQQQMVVAHQ
YSFAPDGEARLVSRCPADNPGLVQAQPRVPLTPTRGTSSRVAVQRGVGSGPHPPDTQQPS
PSKAFKPRFPGDQVVNGAGPELSTGPSPGSPTLDIDQSIEQLNRLILELDPTFEPIPTHM
NALGSQANGSVSPDSVGGGLRASSRLPDTGEGPSRATGRQGSSAEQPLGGRLRKLSLGQY
DNDAGGQLPFSKCAWGKAGVDYAPNLPPFPSPADVKETMTPGYPQDLDIIDGRILSSKES
MCSTPAFPVSPETPYVKTALRHPPFSPPEPPLSSPASQHKGGREPRSCPETLTHAVGMSE
SPIGPKSTMLRADASSTPSFQQAFASSCTISSNGPGQRRESSSSAERQWVESSPKPMVSL
LGSGRPTGSPLSAEFSGTRKDSPVLSCFPPSELQAPFHSHELSLAEPPDSLAPPSSQAFL
GFGTAPVGSGLPPEEDLGALLANSHGASPTPSIPLTATGAADNGFLSHNFLTVAPGHSSH
HSPGLQGQGVTLPGQPPLPEKKRASEGDRSLGSVSPSSSGFSSPHSGSTISIPFPNVLPD
FSKASEAASPLPDSPGDKLVIVKFVQDTSKFWYKADISREQAIAMLKDKEPGSFIVRDSH
SFRGAYGLAMKVATPPPSVLQLNKKAGDLANELVRHFLIECTPKGVRLKGCSNEPYFGSL
TALVCQHSITPLALPCKLLIPERDPLEEIAESSPQTAANSAAELLKQGAACNVWYLNSVE
MESLTGHQAIQKALSITLVQEPPPVSTVVHFKVSAQGITLTDNQRKLFFRRHYPVNSVIF
CALDPQDRKWIKDGPSSKVFGFVARKQGSATDNVCHLFAEHDPEQPASAIVNFVSKVMIG
SPKKV
1 - 124 MVKCYHKKYR SATRDVIFRL QFHTGAVQGY GLVFGKEDLD NASKDDRFPD YGKVELVFSA
TPEKIQGSEH LYNDHGVIVD YNTTDPLIRW DSYENLSADG EVLHTQGPVD GSLYAKVRKK
SSSD
125 - 166 pgipgg pqaipatnsp dhsdhtlsvs sdsghstasa rtdkte
167 - 244 ERLA PGTRRGLSAQ EKAELDQLLS GFGLEDPGSS LKEMTDARSK YSGTRHVVPA QVHVNG
DAAL KDRETDILDD EMPH
245 - 266 hdlhsv dslgtlssse gpqsah
267 - 1205 LGPF TCHKSSQNSL LSDGFGSNVG EDPQGTLVPD LGLGMDGPYE RERTFGSREP KQPQPL
LRKP SVSAQMQAYG QSSYSTQTWV RQQQMVVAHQ YSFAPDGEAR LVSRCPADNP GLVQAQ
PRVP LTPTRGTSSR VAVQRGVGSG PHPPDTQQPS PSKAFKPRFP GDQVVNGAGP ELSTGP
SPGS PTLDIDQSIE QLNRLILELD PTFEPIPTHM NALGSQANGS VSPDSVGGGL RASSRL
PDTG EGPSRATGRQ GSSAEQPLGG RLRKLSLGQY DNDAGGQLPF SKCAWGKAGV DYAPNL
PPFP SPADVKETMT PGYPQDLDII DGRILSSKES MCSTPAFPVS PETPYVKTAL RHPPFS
PPEP PLSSPASQHK GGREPRSCPE TLTHAVGMSE SPIGPKSTML RADASSTPSF QQAFAS
SCTI SSNGPGQRRE SSSSAERQWV ESSPKPMVSL LGSGRPTGSP LSAEFSGTRK DSPVLS
CFPP SELQAPFHSH ELSLAEPPDS LAPPSSQAFL GFGTAPVGSG LPPEEDLGAL LANSHG
ASPT PSIPLTATGA ADNGFLSHNF LTVAPGHSSH HSPGLQGQGV TLPGQPPLPE KKRASE
GDRS LGSVSPSSSG FSSPHSGSTI SIPFPNVLPD FSKASEAASP LPDSPGDKLV IVKFVQ
DTSK FWYKADISRE QAIAMLKDKE PGSFIVRDSH SFRGAYGLAM KVATPPPSVL QLNKKA
GDLA NELVRHFLIE CTPKGVRLKG CSNEPYFGSL TALVCQHSIT PLALPCKLLI PERDPL
EEIA ESSPQTAANS AAELLKQGAA CNVWYLNSVE MESLTGHQAI QKALSITLVQ EPPPVS
TVVH FKVSAQGITL TDNQRKLFFR RHYPVNSVIF CALDPQDRKW IKDGPSSKVF GFVARK
QGSA TDNVCHLFAE HDPEQPASAI VNFVSKVMIG SPKKV
low complexity regions: DUST
>gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
MVKCYHKKYRSATRDVIFRLQFHTGAVQGYGLVFGKEDLDNASKDDRFPDYGKVELVFSA
TPEKIQGSEHLYNDHGVIVDYNTTDPLIRWDSYENLSADGEVLHTQGPVDGSLYAKVRKK
SSSDPGIPGGPQAIPATNSPDHSDHTLSVSSDSGHSTASARTDKTEERLAPGTRRGLSAQ
EKAELDQLLSGFGLEDPGSSLKEMTDARSKYSGTRHVVPAQVHVNGDAALKDRETDILDD
EMPHHDLHSVDSLGTLSSSEGPQSAHLGPFTCHKSSQNSLLSDGFGSNVGEDPQGTLVPD
LGLGMDGPYERERTFGSREPKQPQPLLRKPSVSAQMQAYGQSSYSTQTWVRQQQMVVAHQ
YSFAPDGEARLVSRCPADNPGLVQAQPRVPLTPTRGTSSRVAVQRGVGSGPHPPDTQQPS
PSKAFKPRFPGDQVVNGAGPELSTGPSPGSPTLDIDQSIEQLNRLILELDPTFEPIPTHM
NALGSQANGSVSPDSVGGGLRASSRLPDTGEGPSRATGRQGSSAEQPLGGRLRKLSLGQY
DNDAGGQLPFSKCAWGKAGVDYAPNLPPFPSPADVKETMTPGYPQDLDIIDGRILSSKES
MCSTPAFPVSPETPYVKTALRHPPFSPPEPPLSSPASQHKGGREPRSCPETLTHAVGMSE
SPIGPKSTMLRADASSTPSFQQAFASSCTISSNGPGQRRESSSSAERQWVESSPKPMVSL
LGSGRPTGSPLSAEFSGTRKDSPVLSCFPPSELQAPFHSHELSLAEPPDSLAPPSSQAFL
GFGTAPVGSGLPPEEDLGALLANSHGASPTPSIPLTATGAADNGFLSHNFLTVAPGHSSH
HSPGLQGQGVTLPGQPPLPEKKRASEGDRSLGSVSPSSSGFSSPHSGSTISIPFPNVLPD
FSKASEAASPLPDSPGDKLVIVKFVQDTSKFWYKADISREQAIAMLKDKEPGSFIVRDSH
SFRGAYGLAMKVATPPPSVLQLNKKAGDLANELVRHFLIECTPKGVRLKGCSNEPYFGSL
TALVCQHSITPLALPCKLLIPERDPLEEIAESSPQTAANSAAELLKQGAACNVWYLNSVE
MESLTGHQAIQKALSITLVQEPPPVSTVVHFKVSAQGITLTDNQRKLFFRRHYPVNSVIF
CALDPQDRKWIKDGPSSKVFGFVARKQGSATDNVCHLFAEHDPEQPASAIVNFVSKVMIG
SPKKV
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
coiled coil prediction for gi|15987493|gb|AAL11993.1|AF378756_1
sequence: 1200 amino acids, 0 residue(s) in coiled coil state
. | . | . | . | . | . 60
MVKCYHKKYR SATRDVIFRL QFHTGAVQGY GLVFGKEDLD NASKDDRFPD YGKVELVFSA
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 120
TPEKIQGSEH LYNDHGVIVD YNTTDPLIRW DSYENLSADG EVLHTQGPVD GSLYAKVRKK
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 180
SSSDPGIPGG PQAIPATNSP DHSDHTLSVS SDSGHSTASA RTDKTEERLA PGTRRGLSAQ
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 240
EKAELDQLLS GFGLEDPGSS LKEMTDARSK YSGTRHVVPA QVHVNGDAAL KDRETDILDD
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 300
EMPHHDLHSV DSLGTLSSSE GPQSAHLGPF TCHKSSQNSL LSDGFGSNVG EDPQGTLVPD
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 360
LGLGMDGPYE RERTFGSREP KQPQPLLRKP SVSAQMQAYG QSSYSTQTWV RQQQMVVAHQ
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 420
YSFAPDGEAR LVSRCPADNP GLVQAQPRVP LTPTRGTSSR VAVQRGVGSG PHPPDTQQPS
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 480
PSKAFKPRFP GDQVVNGAGP ELSTGPSPGS PTLDIDQSIE QLNRLILELD PTFEPIPTHM
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~222244444 4444444444 ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 540
NALGSQANGS VSPDSVGGGL RASSRLPDTG EGPSRATGRQ GSSAEQPLGG RLRKLSLGQY
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 600
DNDAGGQLPF SKCAWGKAGV DYAPNLPPFP SPADVKETMT PGYPQDLDII DGRILSSKES
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 660
MCSTPAFPVS PETPYVKTAL RHPPFSPPEP PLSSPASQHK GGREPRSCPE TLTHAVGMSE
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 720
SPIGPKSTML RADASSTPSF QQAFASSCTI SSNGPGQRRE SSSSAERQWV ESSPKPMVSL
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 780
LGSGRPTGSP LSAEFSGTRK DSPVLSCFPP SELQAPFHSH ELSLAEPPDS LAPPSSQAFL
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 840
GFGTAPVGSG LPPEEDLGAL LANSHGASPT PSIPLTATGA ADNGFLSHNF LTVAPGHSSH
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 900
HSPGLQGQGV TLPGQPPLPE KKRASEGDRS LGSVSPSSSG FSSPHSGSTI SIPFPNVLPD
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 960
FSKASEAASP LPDSPGDKLV IVKFVQDTSK FWYKADISRE QAIAMLKDKE PGSFIVRDSH
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 1020
SFRGAYGLAM KVATPPPSVL QLNKKAGDLA NELVRHFLIE CTPKGVRLKG CSNEPYFGSL
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~2 3333333333 33332~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 1080
TALVCQHSIT PLALPCKLLI PERDPLEEIA ESSPQTAANS AAELLKQGAA CNVWYLNSVE
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 1140
MESLTGHQAI QKALSITLVQ EPPPVSTVVH FKVSAQGITL TDNQRKLFFR RHYPVNSVIF
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 1200
CALDPQDRKW IKDGPSSKVF GFVARKQGSA TDNVCHLFAE HDPEQPASAI VNFVSKVMIG
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
prediction of transmembrane regions with toppred2
***********************************
*TOPPREDM with eukaryotic function*
***********************************
tem16.fa.___inter___ is a single sequence
Using hydrophobicity file: /bio_software/2D/toppredm/lib/Engelman-Steitz.scale
Using cyt/ext file: /bio_software/2D/toppredm/lib/Cyt-Ext.prok
Using sequence file: tem16.fa.___inter___
(1 sequences)
MVKCYHKKYRSATRDVIFRLQFHTGAVQGYGLVFGKEDLDNASKDDRFPD
YGKVELVFSATPEKIQGSEHLYNDHGVIVDYNTTDPLIRWDSYENLSADG
EVLHTQGPVDGSLYAKVRKKSSSDPGIPGGPQAIPATNSPDHSDHTLSVS
SDSGHSTASARTDKTEERLAPGTRRGLSAQEKAELDQLLSGFGLEDPGSS
LKEMTDARSKYSGTRHVVPAQVHVNGDAALKDRETDILDDEMPHHDLHSV
DSLGTLSSSEGPQSAHLGPFTCHKSSQNSLLSDGFGSNVGEDPQGTLVPD
LGLGMDGPYERERTFGSREPKQPQPLLRKPSVSAQMQAYGQSSYSTQTWV
RQQQMVVAHQYSFAPDGEARLVSRCPADNPGLVQAQPRVPLTPTRGTSSR
VAVQRGVGSGPHPPDTQQPSPSKAFKPRFPGDQVVNGAGPELSTGPSPGS
PTLDIDQSIEQLNRLILELDPTFEPIPTHMNALGSQANGSVSPDSVGGGL
RASSRLPDTGEGPSRATGRQGSSAEQPLGGRLRKLSLGQYDNDAGGQLPF
SKCAWGKAGVDYAPNLPPFPSPADVKETMTPGYPQDLDIIDGRILSSKES
MCSTPAFPVSPETPYVKTALRHPPFSPPEPPLSSPASQHKGGREPRSCPE
TLTHAVGMSESPIGPKSTMLRADASSTPSFQQAFASSCTISSNGPGQRRE
SSSSAERQWVESSPKPMVSLLGSGRPTGSPLSAEFSGTRKDSPVLSCFPP
SELQAPFHSHELSLAEPPDSLAPPSSQAFLGFGTAPVGSGLPPEEDLGAL
LANSHGASPTPSIPLTATGAADNGFLSHNFLTVAPGHSSHHSPGLQGQGV
TLPGQPPLPEKKRASEGDRSLGSVSPSSSGFSSPHSGSTISIPFPNVLPD
FSKASEAASPLPDSPGDKLVIVKFVQDTSKFWYKADISREQAIAMLKDKE
PGSFIVRDSHSFRGAYGLAMKVATPPPSVLQLNKKAGDLANELVRHFLIE
CTPKGVRLKGCSNEPYFGSLTALVCQHSITPLALPCKLLIPERDPLEEIA
ESSPQTAANSAAELLKQGAACNVWYLNSVEMESLTGHQAIQKALSITLVQ
EPPPVSTVVHFKVSAQGITLTDNQRKLFFRRHYPVNSVIFCALDPQDRKW
IKDGPSSKVFGFVARKQGSATDNVCHLFAEHDPEQPASAIVNFVSKVMIG
SPKKV
(p)rokaryotic or (e)ukaryotic: e
Charge-pair energy: 0
Length of full window (odd number!): 21
Length of core window (odd number!): 11
Number of residues to add to each end of helix: 1
Critical length: 60
Upper cutoff for candidates: 1
Lower cutoff for candidates: 0.6
Total of 8 structures are to be tested
Candidate membrane-spanning segments:
Helix Begin End Score Certainity
1 674 694 0.666 Putative
2 773 793 1.228 Certain
3 801 821 0.715 Putative
4 875 895 0.881 Putative
5 1016 1036 1.083 Certain
----------------------------------------------------------------------
Structure 1
Transmembrane segments included in this structure:
Segment 1 2 3 4 5
Loop length 673 78 7 53 120 169
K+R profile + 0.00 +
+ 4.00 +
CYT-EXT prof 0.95 - 0.97
0.67 - 1.16
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: -4.00
Tm probability: 0.03
-> Orientation: N-out
Charge-difference over N-terminal Tm (+-15 residues): -1.00
(NEG-POS)/(NEG+POS): 0.1096
NEG: 81.0000
POS: 65.0000
-> Orientation: N-out
CYT-EXT difference: 0.09
-> Orientation: N-out
----------------------------------------------------------------------
Structure 2
Transmembrane segments included in this structure:
Segment 2 3 4 5
Loop length 772 7 53 120 169
K+R profile + 4.00 +
0.00 +
CYT-EXT prof 0.94 - 1.16
- 0.97
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 4.00
Tm probability: 0.20
-> Orientation: N-in
Charge-difference over N-terminal Tm (+-15 residues): 0.00
(NEG-POS)/(NEG+POS): 0.1111
NEG: 90.0000
POS: 72.0000
-> Orientation: undecided
CYT-EXT difference: 1.13
-> Orientation: N-out
----------------------------------------------------------------------
Structure 3
Transmembrane segments included in this structure:
Segment 1 2 4 5
Loop length 673 78 81 120 169
K+R profile + + +
+ +
CYT-EXT prof 0.95 0.79 1.16
0.67 0.97
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 0.12
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): -1.00
(NEG-POS)/(NEG+POS): 0.1096
NEG: 81.0000
POS: 65.0000
-> Orientation: N-out
CYT-EXT difference: 1.26
-> Orientation: N-out
----------------------------------------------------------------------
Structure 4
Transmembrane segments included in this structure:
Segment 2 4 5
Loop length 772 81 120 169
K+R profile + +
+ +
CYT-EXT prof 0.94 0.97
0.79 1.16
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 0.70
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): 0.00
(NEG-POS)/(NEG+POS): 0.1111
NEG: 90.0000
POS: 72.0000
-> Orientation: undecided
CYT-EXT difference: -0.05
-> Orientation: N-in
----------------------------------------------------------------------
Structure 5
Transmembrane segments included in this structure:
Segment 1 2 3 5
Loop length 673 78 7 194 169
K+R profile + 0.00 +
+ +
CYT-EXT prof 0.95 - 1.16
0.67 1.26
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 0.05
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): -1.00
(NEG-POS)/(NEG+POS): 0.1096
NEG: 81.0000
POS: 65.0000
-> Orientation: N-out
CYT-EXT difference: 0.19
-> Orientation: N-out
----------------------------------------------------------------------
Structure 6
Transmembrane segments included in this structure:
Segment 2 3 5
Loop length 772 7 194 169
K+R profile + +
0.00 +
CYT-EXT prof 0.94 1.26
- 1.16
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 0.29
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): 0.00
(NEG-POS)/(NEG+POS): 0.1111
NEG: 90.0000
POS: 72.0000
-> Orientation: undecided
CYT-EXT difference: 1.03
-> Orientation: N-out
----------------------------------------------------------------------
Structure 7
Transmembrane segments included in this structure:
Segment 1 2 5
Loop length 673 78 222 169
K+R profile + +
+ +
CYT-EXT prof 0.95 1.13
0.67 1.16
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 0.16
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): -1.00
(NEG-POS)/(NEG+POS): 0.1096
NEG: 81.0000
POS: 65.0000
-> Orientation: N-out
CYT-EXT difference: 0.25
-> Orientation: N-out
----------------------------------------------------------------------
Structure 8
Transmembrane segments included in this structure:
Segment 2 5
Loop length 772 222 169
K+R profile + +
+
CYT-EXT prof 0.94 1.16
1.13
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 1.00
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): 0.00
(NEG-POS)/(NEG+POS): 0.1111
NEG: 90.0000
POS: 72.0000
-> Orientation: undecided
CYT-EXT difference: 0.97
-> Orientation: N-out
----------------------------------------------------------------------
"tem16" 1205
674 694 #f 0.665625
773 793 #t 1.22812
801 821 #f 0.714583
875 895 #f 0.88125
1016 1036 #t 1.08333
************************************
*TOPPREDM with prokaryotic function*
************************************
tem16.fa.___inter___ is a single sequence
Using hydrophobicity file: /bio_software/2D/toppredm/lib/Engelman-Steitz.scale
Using cyt/ext file: /bio_software/2D/toppredm/lib/Cyt-Ext.prok
Using sequence file: tem16.fa.___inter___
(1 sequences)
MVKCYHKKYRSATRDVIFRLQFHTGAVQGYGLVFGKEDLDNASKDDRFPD
YGKVELVFSATPEKIQGSEHLYNDHGVIVDYNTTDPLIRWDSYENLSADG
EVLHTQGPVDGSLYAKVRKKSSSDPGIPGGPQAIPATNSPDHSDHTLSVS
SDSGHSTASARTDKTEERLAPGTRRGLSAQEKAELDQLLSGFGLEDPGSS
LKEMTDARSKYSGTRHVVPAQVHVNGDAALKDRETDILDDEMPHHDLHSV
DSLGTLSSSEGPQSAHLGPFTCHKSSQNSLLSDGFGSNVGEDPQGTLVPD
LGLGMDGPYERERTFGSREPKQPQPLLRKPSVSAQMQAYGQSSYSTQTWV
RQQQMVVAHQYSFAPDGEARLVSRCPADNPGLVQAQPRVPLTPTRGTSSR
VAVQRGVGSGPHPPDTQQPSPSKAFKPRFPGDQVVNGAGPELSTGPSPGS
PTLDIDQSIEQLNRLILELDPTFEPIPTHMNALGSQANGSVSPDSVGGGL
RASSRLPDTGEGPSRATGRQGSSAEQPLGGRLRKLSLGQYDNDAGGQLPF
SKCAWGKAGVDYAPNLPPFPSPADVKETMTPGYPQDLDIIDGRILSSKES
MCSTPAFPVSPETPYVKTALRHPPFSPPEPPLSSPASQHKGGREPRSCPE
TLTHAVGMSESPIGPKSTMLRADASSTPSFQQAFASSCTISSNGPGQRRE
SSSSAERQWVESSPKPMVSLLGSGRPTGSPLSAEFSGTRKDSPVLSCFPP
SELQAPFHSHELSLAEPPDSLAPPSSQAFLGFGTAPVGSGLPPEEDLGAL
LANSHGASPTPSIPLTATGAADNGFLSHNFLTVAPGHSSHHSPGLQGQGV
TLPGQPPLPEKKRASEGDRSLGSVSPSSSGFSSPHSGSTISIPFPNVLPD
FSKASEAASPLPDSPGDKLVIVKFVQDTSKFWYKADISREQAIAMLKDKE
PGSFIVRDSHSFRGAYGLAMKVATPPPSVLQLNKKAGDLANELVRHFLIE
CTPKGVRLKGCSNEPYFGSLTALVCQHSITPLALPCKLLIPERDPLEEIA
ESSPQTAANSAAELLKQGAACNVWYLNSVEMESLTGHQAIQKALSITLVQ
EPPPVSTVVHFKVSAQGITLTDNQRKLFFRRHYPVNSVIFCALDPQDRKW
IKDGPSSKVFGFVARKQGSATDNVCHLFAEHDPEQPASAIVNFVSKVMIG
SPKKV
(p)rokaryotic or (e)ukaryotic: p
Charge-pair energy: 0
Length of full window (odd number!): 21
Length of core window (odd number!): 11
Number of residues to add to each end of helix: 1
Critical length: 60
Upper cutoff for candidates: 1
Lower cutoff for candidates: 0.6
Total of 8 structures are to be tested
Candidate membrane-spanning segments:
Helix Begin End Score Certainity
1 674 694 0.666 Putative
2 773 793 1.228 Certain
3 801 821 0.715 Putative
4 875 895 0.881 Putative
5 1016 1036 1.083 Certain
----------------------------------------------------------------------
Structure 1
Transmembrane segments included in this structure:
Segment 1 2 3 4 5
Loop length 673 78 7 53 120 169
K+R profile + 0.00 +
+ 4.00 +
CYT-EXT prof 0.95 - 0.97
0.67 - 1.16
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: -4.00
Tm probability: 0.03
-> Orientation: N-out
Charge-difference over N-terminal Tm (+-15 residues): -1.00
(NEG-POS)/(NEG+POS): 0.1096
NEG: 81.0000
POS: 65.0000
-> Orientation: N-out
CYT-EXT difference: 0.09
-> Orientation: N-out
----------------------------------------------------------------------
Structure 2
Transmembrane segments included in this structure:
Segment 2 3 4 5
Loop length 772 7 53 120 169
K+R profile + 4.00 +
0.00 +
CYT-EXT prof 0.94 - 1.16
- 0.97
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 4.00
Tm probability: 0.20
-> Orientation: N-in
Charge-difference over N-terminal Tm (+-15 residues): 0.00
(NEG-POS)/(NEG+POS): 0.1111
NEG: 90.0000
POS: 72.0000
-> Orientation: undecided
CYT-EXT difference: 1.13
-> Orientation: N-out
----------------------------------------------------------------------
Structure 3
Transmembrane segments included in this structure:
Segment 1 2 4 5
Loop length 673 78 81 120 169
K+R profile + + +
+ +
CYT-EXT prof 0.95 0.79 1.16
0.67 0.97
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 0.12
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): -1.00
(NEG-POS)/(NEG+POS): 0.1096
NEG: 81.0000
POS: 65.0000
-> Orientation: N-out
CYT-EXT difference: 1.26
-> Orientation: N-out
----------------------------------------------------------------------
Structure 4
Transmembrane segments included in this structure:
Segment 2 4 5
Loop length 772 81 120 169
K+R profile + +
+ +
CYT-EXT prof 0.94 0.97
0.79 1.16
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 0.70
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): 0.00
(NEG-POS)/(NEG+POS): 0.1111
NEG: 90.0000
POS: 72.0000
-> Orientation: undecided
CYT-EXT difference: -0.05
-> Orientation: N-in
----------------------------------------------------------------------
Structure 5
Transmembrane segments included in this structure:
Segment 1 2 3 5
Loop length 673 78 7 194 169
K+R profile + 0.00 +
+ +
CYT-EXT prof 0.95 - 1.16
0.67 1.26
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 0.05
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): -1.00
(NEG-POS)/(NEG+POS): 0.1096
NEG: 81.0000
POS: 65.0000
-> Orientation: N-out
CYT-EXT difference: 0.19
-> Orientation: N-out
----------------------------------------------------------------------
Structure 6
Transmembrane segments included in this structure:
Segment 2 3 5
Loop length 772 7 194 169
K+R profile + +
0.00 +
CYT-EXT prof 0.94 1.26
- 1.16
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 0.29
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): 0.00
(NEG-POS)/(NEG+POS): 0.1111
NEG: 90.0000
POS: 72.0000
-> Orientation: undecided
CYT-EXT difference: 1.03
-> Orientation: N-out
----------------------------------------------------------------------
Structure 7
Transmembrane segments included in this structure:
Segment 1 2 5
Loop length 673 78 222 169
K+R profile + +
+ +
CYT-EXT prof 0.95 1.13
0.67 1.16
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 0.16
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): -1.00
(NEG-POS)/(NEG+POS): 0.1096
NEG: 81.0000
POS: 65.0000
-> Orientation: N-out
CYT-EXT difference: 0.25
-> Orientation: N-out
----------------------------------------------------------------------
Structure 8
Transmembrane segments included in this structure:
Segment 2 5
Loop length 772 222 169
K+R profile + +
+
CYT-EXT prof 0.94 1.16
1.13
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 1.00
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): 0.00
(NEG-POS)/(NEG+POS): 0.1111
NEG: 90.0000
POS: 72.0000
-> Orientation: undecided
CYT-EXT difference: 0.97
-> Orientation: N-out
----------------------------------------------------------------------
"tem16" 1205
674 694 #f 0.665625
773 793 #t 1.22812
801 821 #f 0.714583
875 895 #f 0.88125
1016 1036 #t 1.08333
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
SAPS. Version of April 11, 1996.
Date run: Wed Nov 14 12:20:46 2001
File: /people/maria/tem16.fa.___saps___
ID gi|15987493|gb|AAL11993.1|AF378756_1
DE tumor endothelial marker 6 [Homo sapiens]
number of residues: 1205; molecular weight: 128.4 kdal
1 MVKCYHKKYR SATRDVIFRL QFHTGAVQGY GLVFGKEDLD NASKDDRFPD YGKVELVFSA
61 TPEKIQGSEH LYNDHGVIVD YNTTDPLIRW DSYENLSADG EVLHTQGPVD GSLYAKVRKK
121 SSSDPGIPGG PQAIPATNSP DHSDHTLSVS SDSGHSTASA RTDKTEERLA PGTRRGLSAQ
181 EKAELDQLLS GFGLEDPGSS LKEMTDARSK YSGTRHVVPA QVHVNGDAAL KDRETDILDD
241 EMPHHDLHSV DSLGTLSSSE GPQSAHLGPF TCHKSSQNSL LSDGFGSNVG EDPQGTLVPD
301 LGLGMDGPYE RERTFGSREP KQPQPLLRKP SVSAQMQAYG QSSYSTQTWV RQQQMVVAHQ
361 YSFAPDGEAR LVSRCPADNP GLVQAQPRVP LTPTRGTSSR VAVQRGVGSG PHPPDTQQPS
421 PSKAFKPRFP GDQVVNGAGP ELSTGPSPGS PTLDIDQSIE QLNRLILELD PTFEPIPTHM
481 NALGSQANGS VSPDSVGGGL RASSRLPDTG EGPSRATGRQ GSSAEQPLGG RLRKLSLGQY
541 DNDAGGQLPF SKCAWGKAGV DYAPNLPPFP SPADVKETMT PGYPQDLDII DGRILSSKES
601 MCSTPAFPVS PETPYVKTAL RHPPFSPPEP PLSSPASQHK GGREPRSCPE TLTHAVGMSE
661 SPIGPKSTML RADASSTPSF QQAFASSCTI SSNGPGQRRE SSSSAERQWV ESSPKPMVSL
721 LGSGRPTGSP LSAEFSGTRK DSPVLSCFPP SELQAPFHSH ELSLAEPPDS LAPPSSQAFL
781 GFGTAPVGSG LPPEEDLGAL LANSHGASPT PSIPLTATGA ADNGFLSHNF LTVAPGHSSH
841 HSPGLQGQGV TLPGQPPLPE KKRASEGDRS LGSVSPSSSG FSSPHSGSTI SIPFPNVLPD
901 FSKASEAASP LPDSPGDKLV IVKFVQDTSK FWYKADISRE QAIAMLKDKE PGSFIVRDSH
961 SFRGAYGLAM KVATPPPSVL QLNKKAGDLA NELVRHFLIE CTPKGVRLKG CSNEPYFGSL
1021 TALVCQHSIT PLALPCKLLI PERDPLEEIA ESSPQTAANS AAELLKQGAA CNVWYLNSVE
1081 MESLTGHQAI QKALSITLVQ EPPPVSTVVH FKVSAQGITL TDNQRKLFFR RHYPVNSVIF
1141 CALDPQDRKW IKDGPSSKVF GFVARKQGSA TDNVCHLFAE HDPEQPASAI VNFVSKVMIG
1201 SPKKV
--------------------------------------------------------------------------------
COMPOSITIONAL ANALYSIS (extremes relative to: swp23s)
A : 90( 7.5%); C : 15( 1.2%); D : 68( 5.6%); E : 60( 5.0%); F : 43( 3.6%)
G :104( 8.6%); H : 37( 3.1%); I : 34( 2.8%); K : 56( 4.6%); L :102( 8.5%)
M : 16( 1.3%); N : 30( 2.5%); P+ :123(10.2%); Q : 59( 4.9%); R : 55( 4.6%)
S+ :151(12.5%); T : 62( 5.1%); V : 71( 5.9%); W : 7( 0.6%); Y : 22( 1.8%)
KR : 111 ( 9.2%); ED : 128 ( 10.6%); AGP : 317 ( 26.3%);
KRED : 239 ( 19.8%); KR-ED : -17 ( -1.4%); FIKMNY : 201 ( 16.7%);
LVIFM : 266 ( 22.1%); ST : 213 ( 17.7%).
--------------------------------------------------------------------------------
CHARGE DISTRIBUTIONAL ANALYSIS
1 00+000++0+ 000+-000+0 0000000000 00000+--0- 000+--+00- 00+0-00000
61 00-+0000-0 000-00000- 0000-000+0 -00-0000-0 -00000000- 00000+0+++
121 000-000000 0000000000 -00-000000 0-00000000 +0-+0--+00 000++00000
181 -+0-0-0000 0000--0000 0+-00-0+0+ 0000+00000 000000-000 +-+-0-00--
241 -0000-0000 -00000000- 0000000000 000+000000 00-0000000 --0000000-
301 00000-000- +-+0000+-0 +000000++0 0000000000 0000000000 +000000000
361 00000-0-0+ 000+000-00 0000000+00 0000+0000+ 0000+00000 0000-00000
421 00+00+0+00 0-00000000 -000000000 000-0-000- 000+000-0- 000-000000
481 0000000000 000-000000 +000+00-00 -000+000+0 0000-00000 +0++000000
541 -0-0000000 0+0000+000 -000000000 000-0+-000 00000-0-00 -0+0000+-0
601 0000000000 0-0000+000 +0000000-0 000000000+ 00+-0+000- 000000000-
661 00000+0000 +0-0000000 0000000000 0000000++- 00000-+000 -000+00000
721 0000+00000 000-0000++ -000000000 0-00000000 -0000-00-0 0000000000
781 0000000000 000---0000 0000000000 0000000000 0-00000000 0000000000
841 0000000000 000000000- +++00-0-+0 0000000000 0000000000 000000000-
901 00+00-0000 00-000-+00 00+000-00+ 000+0-00+- 000000+-+- 000000+-00
961 00+0000000 +000000000 000++00-00 0-00+0000- 000+00+0+0 000-000000
1021 0000000000 000000+000 0-+-00--00 -000000000 00-00+0000 000000000-
1081 0-00000000 0+00000000 -000000000 0+00000000 0-00++000+ +000000000
1141 000-00-++0 0+-0000+00 0000++0000 0-0000000- 0-0-000000 00000+0000
1201 00++0
A. CHARGE CLUSTERS.
Positive charge clusters (cmin = 9/30 or 12/45 or 15/60): none
Negative charge clusters (cmin = 10/30 or 14/45 or 17/60): none
Mixed charge clusters (cmin = 15/30 or 20/45 or 25/60): none
B. HIGH SCORING (UN)CHARGED SEGMENTS.
There are no high scoring positive charge segments.
There are no high scoring negative charge segments.
There are no high scoring mixed charge segments.
________________________________
High scoring uncharged segments:
score= 1.00 frequency= 0.802 ( LAGSVTIPNFQYHMCW )
score= 0.00 frequency= 0.000 ( BZX )
score= -8.00 frequency= 0.198 ( KEDR )
Expected score/letter: -0.785
M_0.01= 54.79; M_0.05= 45.08
1) From 797 to 859: length= 63, score=54.00 *
797 LGALLANSHG ASPTPSIPLT ATGAADNGFL SHNFLTVAPG HSSHHSPGLQ
847 GQGVTLPGQP PLP
L: 9(14.3%); A: 7(11.1%); G: 9(14.3%); S: 7(11.1%);
P: 9(14.3%);
C. CHARGE RUNS AND PATTERNS.
pattern (+)| (-)| (*)| (0)| (+0)| (-0)| (*0)|(+00)|(-00)|(*00)| (H.)|(H..)|
lmin0 5 | 5 | 7 | 46 | 10 | 10 | 13 | 12 | 13 | 16 | 8 | 10 |
lmin1 6 | 7 | 9 | 55 | 12 | 12 | 16 | 15 | 15 | 19 | 9 | 12 |
lmin2 7 | 8 | 10 | 61 | 13 | 14 | 18 | 16 | 17 | 22 | 11 | 14 |
(Significance level: 0.010000; Minimal displayed length: 6)
(0) 62(1,0,0); at 797- 859: see sequence above
(3. quartile)
L: 9 (14.3%); A: 7 (11.1%); G: 9 (14.3%); S: 7 (11.1%);
P: 9 (14.3%); ST: 12 (19.0%);
Run count statistics:
+ runs >= 3: 2, at 118; 861;
- runs >= 3: 2, at 239; 794;
* runs >= 5: 0
0 runs >= 30: 2, at 823; 870;
--------------------------------------------------------------------------------
DISTRIBUTION OF OTHER AMINO ACID TYPES
1. HIGH SCORING SEGMENTS.
There are no high scoring hydrophobic segments.
There are no high scoring transmembrane segments.
2. SPACINGS OF C.
H2N-3-C-267-C-102-C-177-C-48-C-45-C-39-C-58-C-253-C-9-C-13-C-10-C-34-C-69-C-33-C-30-COOH
2*. SPACINGS OF C and H. (additional deluxe function for ALEX)
H2N-3-C-1-H-16-H-46-H-4-H-28-H-37-H-2-H-9-H-60-H-6-H-20-H-H-2-H-17-H-5-C-H-85-H-15-C-36-H-66-H-73-C-48-C-19-H-16-H-8-C-5-H-33-C-58-C-10-H-1-H-44-H-22-H-8-H-2-H-H-43-H-74-H-35-H-4-C-9-C-13-C-1-H-8-C-34-C-15-H-22-H-21-H-8-C-33-C-H-4-H-24-COOH
--------------------------------------------------------------------------------
REPETITIVE STRUCTURES.
A. SEPARATED, TANDEM, AND PERIODIC REPEATS: amino acid alphabet.
Repeat core block length: 5
Aligned matching blocks:
[ 489- 493] GSVSP
[ 872- 876] GSVSP
B. SEPARATED AND TANDEM REPEATS: 11-letter reduced alphabet.
(i= LVIF; += KR; -= ED; s= AG; o= ST; n= NQ; a= YW; p= P; h= H; m= M; c= C)
Repeat core block length: 9
--------------------------------------------------------------------------------
MULTIPLETS.
A. AMINO ACID ALPHABET.
1. Total number of amino acid multiplets: 77 (Expected range: 50--102)
2. Histogram of spacings between consecutive amino acid multiplets:
(1-5) 28 (6-10) 15 (11-20) 18 (>=21) 17
3. Clusters of amino acid multiplets (cmin = 11/30 or 14/45 or 17/60): none
B. CHARGE ALPHABET.
1. Total number of charge multiplets: 22 (Expected range: 7-- 36)
14 +plets (f+: 9.2%), 8 -plets (f-: 10.6%)
Total number of charge altplets: 27 (Critical number: 40)
2. Histogram of spacings between consecutive charge multiplets:
(1-5) 2 (6-10) 3 (11-20) 3 (>=21) 15
--------------------------------------------------------------------------------
PERIODICITY ANALYSIS.
A. AMINO ACID ALPHABET (core: 4; !-core: 5)
Location Period Element Copies Core Errors
150- 161 3 S.. 4 4 0
335- 358 6 Q..... 4 4 0
605- 616 3 P.. 4 4 0
623- 638 4 P... 4 4 0
701- 704 1 S 4 4 0
753- 788 9 L........ 4 4 0
873- 880 2 S. 4 4 0
873- 892 5 S.... 4 4 0
B. CHARGE ALPHABET ({+= KR; -= ED; 0}; core: 5; !-core: 6)
and HYDROPHOBICITY ALPHABET ({*= KRED; i= LVIF; 0}; core: 6; !-core: 9)
Location Period Element Copies Core Errors
735- 788 9 i000.000. 6 6 /0/1/2/0/./1/1/2/./
--------------------------------------------------------------------------------
SPACING ANALYSIS.
Location (Quartile) Spacing Rank P-value Interpretation
740- 861 (3.) +( 121)+ 1 of 112 0.0005 large maximal spacing
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
Start with Pfam (from /data/patterns/pfam)
hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /data/patterns/pfam/Pfam
Sequence file: tem16.fa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
SH2 SH2 domain 40.5 9e-13 1
MR_MLE Mandelate racemase / muconate lactonizin -0.6 66 1
Peptidase_M7 Streptomyces extracellular neutral prote -33.7 51 1
Keratin_B2 Keratin, high sulfur B2 protein -97.6 75 1
Peptidase_A4 Peptidase A4 family -127.7 7.3 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
MR_MLE 1/1 213 237 .. 1 29 [. -0.6 66
Peptidase_A4 1/1 77 262 .. 1 230 [] -127.7 7.3
Keratin_B2 1/1 644 751 .. 1 177 [] -97.6 75
Peptidase_M7 1/1 667 804 .. 1 133 [] -33.7 51
SH2 1/1 932 1027 .. 1 79 [] 40.5 9e-13
Alignments of top-scoring domains:
MR_MLE: domain 1 of 1, from 213 to 237: score -0.6, E = 66
*->rvRdgipiAytlasGtdvdelLDDtardi<-*
R ++ A+ ++ G d +L D++ di
gi|1598749 213 GTRHVV-PAQVHVNG---DAALKDRETDI 237
Peptidase_A4: domain 1 of 1, from 77 to 262: score -127.7, E = 7.3
*->veysSNWAGAVlIGsGydkVTGtfvVPspsapSgGSSGyGGGyGyWk
v ++ N + y+ ++ V +p GS y k
gi|1598749 77 VIVDYNTTDPLIRWDSYENLSADGEVLHTQGPVDGSL-------YAK 116
nkrqteeYaASAWVGIDGDTCqtAILQTGvDFYaeggsvsYDAWYEWYPd
++++ S GI G AI T Pd
gi|1598749 117 VRKKS-----SSDPGIPG--GPQAIPAT------NS------------PD 141
yAYDFSGisISeGDsIkvTVtATSktSGsAtlENlTtGqkVThsFSgees
++ +s+S Ds T++A +++ t E l G+ + S++e
gi|1598749 142 HSDH--TLSVSS-DSGHSTASARTDK----TEERLAPGTR--RGLSAQEK 182
geLCetNAEWIVEDFEeCnssGsseLVpFAd....FgPtVtFtdasaTss
+eL + + ED Gss L d +++++ t a + +
gi|1598749 183 AELDQLLSGFGLED------PGSS-LKEMTDarskYSGTRHVVPAQVHVN 225
GetVsldD..AtivDIeqngevLTecSVSGtTtVTveYV<-*
G l D++ i D e +L ++ Gt + e
gi|1598749 226 G-DAALKDreTDILDDEMPHHDLHSVDSLGTL-SSSEGP 262
Keratin_B2: domain 1 of 1, from 644 to 751: score -97.6, E = 75
*->qtScCGfptCStlgtrPsCGsscCQPsCCeSCCQpsCcqpSCCqPtc
+ C + g s P + + +
gi|1598749 644 EPRSCPETLTHAVGM----SESPIGP-------KSTMLRAD----AS 675
sqtscCqPtcfqssCCrPsCcqTSCCqPtCcqsssCqtgCgigGsiGyGQ
s+ s+ q +f ssC+ +s + + sss +
gi|1598749 676 STPSFQQ--AFASSCTISSNGP-----GQRRESSSSAERQ---------- 708
eGsSGAvScrirWCRPdCrvegtClPpCCvvsCtaPTCCqpvsaQasCCR
ve++ +P + +PT p sa+ s R
gi|1598749 709 ------------------WVESSPKPMVSLLGSGRPT-GSPLSAEFSGTR 739
PsCqPyCgqsCCRPaCccsvtCtrTccePc<-*
s P+ +c++ P+
gi|1598749 740 -------KDS---PVLSCFP--------PS 751
Peptidase_M7: domain 1 of 1, from 667 to 804: score -33.7, E = 51
*->avtvtYdasnAPsFrsqiarsaqiWnssvsnvrLqegssgaDFtYrE
+ das+ PsF++ a+s i ss + +e+ss a+ + E
gi|1598749 667 STMLRADASSTPSFQQAFASSCTI--SSNGPGQRRESSSSAERQWVE 711
Gn...........DsRGsYAstdgHGrGYiFLDYrqnqqYdstRvtaHEt
+++ + +++ + Gs s + G D + a
gi|1598749 712 SSpkpmvsllgsgRPTGSPLSAEFSGTRK---DSPVLSCFPPSELQAPFH 758
GHvLGL...PDhYsGPCseLmsGGGPGPsCtnayPnsaERsRvnqLWAnG
H L L ++PD P s+ G G P P+ +L An
gi|1598749 759 SHELSLaepPDSLAPPSSQAFLGFGTAPVGSGLPPEED----LGALLANS 804
<-*
gi|1598749 - -
SH2: domain 1 of 1, from 932 to 1027: score 40.5, E = 9e-13
*->WyhGkIsRkeAErlLlnpggkdGtFLvReSestpGdYtLSVrddgp.
Wy +IsR++A +L+ +++G+F+vR+S s G Y L + p+
gi|1598749 932 WYKADISREQAIAMLKD--KEPGSFIVRDSHSFRGAYGLAMKVATPp 976
................rVkHyrIqsldng..gyyitggvkFssLpeLveh
++ + +++ ++ ++ V+H+ I +++ g + ++ +++F+sL Lv
gi|1598749 977 psvlqlnkkagdlaneLVRHFLIECTPKGvrLKGCSNEPYFGSLTALVCQ 1026
Y<-*
+
gi|1598749 1027 H 1027
//
Start with PfamFrag (from /data/patterns/pfam)
hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /data/patterns/pfam/PfamFrag
Sequence file: tem16.fa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
SH2 SH2 domain 40.5 9e-13 1
FA_desaturase Fatty acid desaturase 3.3 4.7 1
Ndr Ndr family 2.2 6.9 1
Peptidase_M7 Streptomyces extracellular neutral pr 1.2 30 1
DUF63 Membrane protein of unknown function -0.2 62 1
3A 3A/RNA2 movement protein family -0.3 88 1
MR_MLE Mandelate racemase / muconate lactoni -0.6 66 1
Thymidylate_kin Thymidylate kinase -0.6 61 1
Prismane Prismane -1.4 33 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
FA_desaturase 1/1 63 88 .. 325 350 .] 3.3 4.7
MR_MLE 1/1 213 237 .. 1 29 [. -0.6 66
Thymidylate_kin 1/1 452 466 .. 183 197 .] -0.6 61
3A 1/1 468 498 .. 262 295 .] -0.3 88
Peptidase_M7 1/1 667 690 .. 1 24 [. 1.2 30
Prismane 1/1 793 802 .. 556 565 .] -1.4 33
DUF63 1/1 822 836 .. 74 90 .. -0.2 62
Ndr 1/1 845 886 .. 299 339 .] 2.2 6.9
SH2 1/1 932 1027 .. 1 79 [] 40.5 9e-13
Alignments of top-scoring domains:
FA_desaturase: domain 1 of 1, from 63 to 88: score 3.3, E = 4.7
*->eraqkrahlvsdtgdivsyifdrkvk<-*
e++q+ hl+ d g+iv y ++ ++
gi|1598749 63 EKIQGSEHLYNDHGVIVDYNTTDPLI 88
MR_MLE: domain 1 of 1, from 213 to 237: score -0.6, E = 66
*->rvRdgipiAytlasGtdvdelLDDtardi<-*
R ++ A+ ++ G d +L D++ di
gi|1598749 213 GTRHVV-PAQVHVNG---DAALKDRETDI 237
Thymidylate_kin: domain 1 of 1, from 452 to 466: score -0.6, E = 61
*->vidAsnsieevheeI<-*
++d ++sie++ + I
gi|1598749 452 TLDIDQSIEQLNRLI 466
3A: domain 1 of 1, from 468 to 498: score -0.3, E = 88
*->krepsleessesPiavgestssrsksvtasvvaG<-*
+ +p+ e+ P++ + +s++ sv++ +v G
gi|1598749 468 ELDPTFEPI---PTHMNALGSQANGSVSPDSVGG 498
Peptidase_M7: domain 1 of 1, from 667 to 690: score 1.2, E = 30
*->avtvtYdasnAPsFrsqiarsaqi<-*
+ das+ PsF++ a+s i
gi|1598749 667 STMLRADASSTPSFQQAFASSCTI 690
Prismane: domain 1 of 1, from 793 to 802: score -1.4, E = 33
*->peeDlkalLg<-*
peeDl alL+
gi|1598749 793 PEEDLGALLA 802
DUF63: domain 1 of 1, from 822 to 836: score -0.2, E = 62
*->DaGvlprPisyltvTPG<-*
D+G+l ++ltv PG
gi|1598749 822 DNGFLSH--NFLTVAPG 836
Ndr: domain 1 of 1, from 845 to 886: score 2.2, E = 6.9
*->lqGmGylpsvrmprlpRsrtasless.tssssvdGsrlrsrs<-*
lqG+G+ + + p +++r++ + s +s s ++ ++++++s
gi|1598749 845 LQGQGVTLPGQPPLPEKKRASEGDRSlGSVSPSSSGFSSPHS 886
SH2: domain 1 of 1, from 932 to 1027: score 40.5, E = 9e-13
*->WyhGkIsRkeAErlLlnpggkdGtFLvReSestpGdYtLSVrddgp.
Wy +IsR++A +L+ +++G+F+vR+S s G Y L + p+
gi|1598749 932 WYKADISREQAIAMLKD--KEPGSFIVRDSHSFRGAYGLAMKVATPp 976
................rVkHyrIqsldng..gyyitggvkFssLpeLveh
++ + +++ ++ ++ V+H+ I +++ g + ++ +++F+sL Lv
gi|1598749 977 psvlqlnkkagdlaneLVRHFLIECTPKGvrLKGCSNEPYFGSLTALVCQ 1026
Y<-*
+
gi|1598749 1027 H 1027
//
Start with Repeat Library (from /data/patterns/repeats-Miguel-Andrade/hmm)
hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /data/patterns/repeats-Miguel-Andrade/hmm/repeats.hmm-lib
Sequence file: tem16.fa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
[no hits above thresholds]
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
[no hits above thresholds]
Alignments of top-scoring domains:
[no hits above thresholds]
//
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
Start with Prosite
---------------------------------------------------------
| ppsearch (c) 1994 EMBL Data Library |
| based on MacPattern (c) 1990-1994 R. Fuchs |
---------------------------------------------------------
PROSITE pattern search started: Wed Nov 14 12:23:50 2001
Sequence file: tem16.fa
----------------------------------------
Sequence gi|15987493|gb|AAL11993.1|AF378756_1 (1205 residues):
Matching pattern PS00001 ASN_GLYCOSYLATION:
41: NASK
82: NTTD
95: NLSA
488: NGSV
Total matches: 4
Matching pattern PS00004 CAMP_PHOSPHO_SITE:
118: RKKS
119: KKSS
328: RKPS
533: RKLS
698: RRES
739: RKDS
862: KRAS
Total matches: 7
Matching pattern PS00005 PKC_PHOSPHO_SITE:
159: SAR
162: TDK
173: TRR
200: SLK
398: SSR
503: SSR
517: TGR
596: SSK
713: SPK
723: SGR
738: TRK
928: TSK
961: SFR
1002: TPK
1156: SSK
1201: SPK
Total matches: 16
Matching pattern PS00006 CK2_PHOSPHO_SITE:
43: SKDD
121: SSSD
178: SAQE
200: SLKE
257: SSSE
522: SSAE
571: SPAD
596: SSKE
626: SPPE
647: SCPE
703: SSAE
738: TRKD
763: SLAE
865: SEGD
914: SPGD
1060: SAAE
1119: TLTD
1169: SATD
Total matches: 18
Matching pattern PS00008 MYRISTYL:
25: GAVQGY
31: GLVFGK
111: GSLYAK
129: GGPQAI
172: GTRRGL
254: GTLSSS
286: GSNVGE
381: GLVQAQ
484: GSQANG
498: GGLRAS
499: GLRASS
538: GQYDND
728: GSPLSA
798: GALLAN
819: GAADNG
847: GQGVTL
887: GSTISI
1018: GSLTAL
1068: GAACNV
1117: GITLTD
Total matches: 20
Matching pattern PS00343 GRAM_POS_ANCHORING:
506: LPDTGE
Total matches: 1
Total no of hits in this sequence: 66
========================================
1314 pattern(s) searched in 1 sequence(s), 1205 residues.
Total no of hits in all sequences: 66.
Search time: 00:00 min
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
Start with Profile Search
L=0 16.1287 1061 pos. 932 - 1042 PS50001|SH2 Src homology 2 (SH2) domain profile.
#
# P 1 WYHGKISREEAERLLRNKGBEGTFLVRESESSPGDYTLSVRXDG---------------- -49
# S 932 WYKADISREQAIAMLKDK-EPGSFIVRDSHSFRGAYGLAMKVATpppsvlqlnkkagdla -216
#
# P 44 --QVKHYRIQKTDNG-KYYISER-XRFNSLPELIEHYQQNSXGLCXRLRYPV -1
# S 991 neLVRHFLIECTPKGvRLKGCSNePYFGSLTALVCQHSITPLALPCKLLIPE -164
#
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
Start with motif search against own library
***** bioMotif : Version V41a DB, 1999 Nov 11 *****
SeqTyp=2 : PROTEIN search;
>APC D-Box is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>ER-GOLGI-traffic signal is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>INTRA-SIGNAL-M minimal SH3 binding is the MOTIF name
>gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens] ;LENGTH=1205; DIRECT_SEQUENCE
n 23 solutions
m %_PXXP 125-128
f
m %_PXXP 128-131
f
m %_PXXP 320-323
f
m %_PXXP 387-390
f
m %_PXXP 390-393
f
m %_PXXP 411-414
f
m %_PXXP 427-430
f
m %_PXXP 448-451
f
m %_PXXP 564-567
f
m %_PXXP 567-570
f
m %_PXXP 581-584
f
m %_PXXP 605-608
f
m %_PXXP 608-611
f
m %_PXXP 611-614
f
m %_PXXP 624-627
f
m %_PXXP 627-630
f
m %_PXXP 628-631
f
m %_PXXP 662-665
f
m %_PXXP 811-814
f
m %_PXXP 853-856
f
m %_PXXP 856-859
f
m %_PXXP 912-915
f
m %_PXXP 1183-1186
f
>STATISTICS Total : 23 solutions in 1 sequences, 1205 units; out of 1 sequences, 1205 units
>INTRA-SIGNAL-M deubiquitinating enzyme SH3 domain binding motif (Kato, 2000) is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>INTRA-SIGNAL-M minimal class I consensus-SH3 binding motif is the MOTIF name
>gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens] ;LENGTH=1205; DIRECT_SEQUENCE
n 2 solutions
m %_R 318-318 %_XPXXP 319-323
f
m %_R 388-388 %_XPXXP 389-393
f
>STATISTICS Total : 2 solutions in 1 sequences, 1205 units; out of 1 sequences, 1205 units
>INTRA-SIGNAL-M minimal class II consensus-SH3 binding motif is the MOTIF name
>gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens] ;LENGTH=1205; DIRECT_SEQUENCE
n 1 solutions
m %_XPXXPXR 389-395
f
>STATISTICS Total : 1 solutions in 1 sequences, 1205 units; out of 1 sequences, 1205 units
>INTRA-SIGNAL-M exact 14-3-3 binding consensus (Muslin 1996 Cell 84 889) is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>INTRA-SIGNAL-M 14-3-3 binding motif in RAF and others (Muslin 1996 Cell 84 889) is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>INTRA-SIGNAL-M WW domain binding motif in formins (Bedford 1997) is the MOTIF name
>gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens] ;LENGTH=1205; DIRECT_SEQUENCE
n 1 solutions
m %_PPLP 856-859
f
>STATISTICS Total : 1 solutions in 1 sequences, 1205 units; out of 1 sequences, 1205 units
>INTRA-SIGNAL-M PY motif for WW domain is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>TM-CYTOPLASMIC-M di-hydrophobic endocytosis motifs for internalized transmembrane proteins is the MOTIF name
>gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens] ;LENGTH=1205; DIRECT_SEQUENCE
n 3 solutions
m %_E 184-184 %_XXXL 185-188 %_L 189-189
f
m %_D 378-378 %_XXXL 379-382 %_V 383-383
f
m %_D 796-796 %_XXXL 797-800 %_L 801-801
f
>STATISTICS Total : 3 solutions in 1 sequences, 1205 units; out of 1 sequences, 1205 units
>TM-CYTOPLASMIC-M tyrosine-based endocytosis motif for internalized transmembrane proteins is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>TM-EXTRACELL-M Endocytosis signal for internalized transmembrane proteins is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>EXTRACELL-M minimal furin protease cleavage site motif is the MOTIF name
>gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens] ;LENGTH=1205; DIRECT_SEQUENCE
n 1 solutions
m %_RXXR 643-646
f
>STATISTICS Total : 1 solutions in 1 sequences, 1205 units; out of 1 sequences, 1205 units
>EXTRACELL-M extended furin protease cleavage site motif is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>EXTRACELL-M zinc binding motif in MMPs is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>EXTRACELL-M g alpha binding go loco is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS PDX-1 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS QKI-5 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS HCDA experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS SV40 LrgT experimentally determined is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS H2B experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS v-Rel experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Amida experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Amida experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS RanBP3 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Pho4p experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS DNAhelicaseQ1 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS LEF-1 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS TCF-1 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR p53-NLS1 NLS experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS hum-Ku70 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS GAL4 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS act/inh betaA experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS BDV-P experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS BDV-P experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS BDV-P experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS TR2 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS THOV NP experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS polyomaVP1 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS HIV-1 Tat experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS HIV-1 Rev experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Rex experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS SRY experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS SRY experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS SOX9 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS SOX9 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS NS5A experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS DNAse EBV experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS DNAse EBV experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS adenovE1a experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS ystDNApolalpha experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS hVDR experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS CPV capsid experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS hGlu.cort.experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS cFOS experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS cJUN experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS hDNApolalpha experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS hDNAtopoII experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS hDNAtopoII experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS hBLM experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS hARNT experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS influenzaNP experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS influenzaNP experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS p54 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS hProTalpha experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Tst1/Oct6 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS protHsc9 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS protHsci experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS protHsc3 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Ta alpha experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Pax-QNR experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Hunt.Dis.pro experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS MyoD experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS MyoD experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS opaque2 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS CTP experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS HCV experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS HCV experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS p110RB1 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS VirD2-Nterm experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS VirD2-Cterm experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Nucloplasmin experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Nucleolin experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS ICP-8 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Nab2 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS M9 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS lscMyc experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS humKprotein experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS FluA experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Mat-alpha experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS polyoma Lrg-T experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS polyoma Lrg-T experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS SV40 VP1 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS SV40 VP2 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS polyoma VP2 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS c-myb experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS N-myc experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS p53 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS c-erb-A experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS yeast SKI3 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS L29 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS L29 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS Max experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS L3 experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>NUCLEAR NLS dyskerin experimentally determined NLS is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>PDZ domain binding motif science 278_2075_pawson is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
>WW domain binding motif science 278_2075_pawson is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1205 units
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~ ~~~
Start with HMM-search search against own library
hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /data/patterns/own/own-hmm.lib
Sequence file: tem16.fa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
[no hits above thresholds]
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
[no hits above thresholds]
Alignments of top-scoring domains:
[no hits above thresholds]
//
hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /data/patterns/own/own-hmm-f.lib
Sequence file: tem16.fa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
kreil-Nterm 1.0 44 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
kreil-Nterm 1/1 1121 1134 .. 172 191 .] 1.0 44
Alignments of top-scoring domains:
kreil-Nterm: domain 1 of 1, from 1121 to 1134: score 1.0, E = 44
*->fanqdtdytPLPIfFRhyri<-*
+ nq+ + +fFR+++
gi|1598749 1121 TDNQR-K-----LFFRRHYP 1134
//
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
L. Aravind's signalling DB+ PSSM from other authors
IMPALA version 1.1 [20-December-1999]
Reference: Alejandro A. Schaffer, Yuri I. Wolf, Chris P. Ponting,
Eugene V. Koonin, L. Aravind, Stephen F. Altschul (1999),
"IMPALA: Matching a Protein Sequence Against a Collection of
"PSI-BLAST-Constructed Position-Specific Score Matrices",
Bioinformatics 15:1000-1011.
Query= gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6
[Homo sapiens]
(1205 letters)
Searching..................................done
Results from profile search
Score E
Sequences producing significant alignments: (bits) Value
PTB Phospho-Tyrosine Binding domain 82 4e-18
SH2 Src Homology domain 2 64 9e-13
INSL Insulinase like Metallo protease domain 25 0.42
CNMP Cyclic nucleotide binding domain 25 0.62
DHHC Novel zinc finger domain with DHHC signature 24 1.7
PH Pleckstrin homology domain (lipid and protein interactio... 23 1.8
DSP Dual specificity protein phosphatase 23 1.8
ACTIN Actin ATPase/ Cytoskeletal ATPase domain 23 1.9
UBHYD Ubiquitin C-terminal hydrolase domain 23 2.8
AP2 A plant specific DNA binding domain (Apetala 2 like) 22 3.5
SNARE Alpha helical domains which are involved in vesicle fu... 21 6.4
HSF Heat Shock Factor Domain (Winged helix type DNA binding ... 21 6.5
CBS cystathionine beta -synthase domain (A predicted ligand... 21 6.5
BROMO Bromodomain (A chromatin associated domain) 21 7.7
FHA Forkhead Associated domain (Phosphoserine/threonine bind... 21 9.8
>PTB Phospho-Tyrosine Binding domain
Length = 138
Score = 82.1 bits (201), Expect = 4e-18
Identities = 24/137 (17%), Positives = 24/137 (17%), Gaps = 24/137 (17%)
Query: 1072 NVWYLNSVEMESLTGHQAIQKALSITLV---------QEPPPVSTVVHFKVSAQGITLTD 1122
Sbjct: 8 VARFLGCVETPKANGSDVAREAIHAIRFQRDLKRSEQTRETAKLQKVEIRISIDNVIIAD 67
Query: 1123 -NQRKLFFRRHYPVNSVIFCALDPQDRKWIKDGPSSKVFGFVARKQGSATDNVCHLFAEH 1181
Sbjct: 68 IKTKAPMY--TFPLGRISFCADDKDDK---------RMFSFIARAEGASGKPSCYAF--- 113
Query: 1182 DPEQPASAIVNFVSKVM 1198
Sbjct: 114 TSEKLAEDITLTIGEAF 130
>SH2 Src Homology domain 2
Length = 119
Score = 64.2 bits (155), Expect = 9e-13
Identities = 20/118 (16%), Positives = 20/118 (16%), Gaps = 17/118 (14%)
Query: 932 WYKADISREQAIAMLKDK--EPGSFIVRDSHSFRGAYGLAMKVATPPPSVLQLNKKAGDL 989
Sbjct: 7 WFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRD-------------YDPM 53
Query: 990 ANELVRHFLIECTPKGVRLKGCSNEPYFGSLTALVCQHSITPLALPCKLLIPERDPLE 1047
Sbjct: 54 HGDVIKHYKIRSLDNGGYY--ISPRITFPCISDMIKHYQKQSDGLCRRLEKACISPKP 109
>INSL Insulinase like Metallo protease domain
Length = 433
Score = 25.3 bits (55), Expect = 0.42
Identities = 18/168 (10%), Positives = 18/168 (10%), Gaps = 39/168 (23%)
Query: 1 MVKCYHKKYRSATRDVIFRLQFHTGAVQGYGLVFGKEDLDNASK--DDRFPDY---GKVE 55
Sbjct: 189 KLLKFYKSFYQPRNMAVV--------------IVGKVNPKEVEEEVMKTFGKEEGRPVPK 234
Query: 56 LVFSATPEKIQGSEHLYNDHG-----VIVDYNTTDPLIRWDSYENLSADGEVLHT--QGP 108
Sbjct: 235 VQIPTEPEQIGIRFKKLKDPRIEKAYWIIGWRVPA----IGKTDYKGLL--VFSEILCGG 288
Query: 109 VDGSLYAKVRKK-------SSSDPGIPGGPQAIPATNSPDHSDHTLSV 149
Sbjct: 289 RISVFYRELREKGLVYSYSCGDMGRPRDNIFIITATFPPENYEKVKKR 336
>CNMP Cyclic nucleotide binding domain
Length = 118
Score = 24.8 bits (54), Expect = 0.62
Identities = 4/42 (9%), Positives = 4/42 (9%), Gaps = 2/42 (4%)
Query: 1016 YFGSLTALVCQ-HSITPLAL-PCKLLIPERDPLEEIAESSPQ 1055
Sbjct: 67 MAGEIGVVFNIPQPFTVRTRRLSQVIRIGHHKFKEMVQSDND 108
>DHHC Novel zinc finger domain with DHHC signature
Length = 217
Score = 23.6 bits (50), Expect = 1.7
Identities = 16/48 (33%), Positives = 16/48 (33%), Gaps = 3/48 (6%)
Query: 598 KESMCSTPAFPVSPETPYVKTALRHPPFSPPEPPLSSPASQHKGGREP 645
Sbjct: 3 KMNICNKPSNKTAPEKS-VWTAPAQP--SGPSPELQGQRSRRNGWSWP 47
>PH Pleckstrin homology domain (lipid and protein interaction domain)
Length = 138
Score = 23.5 bits (50), Expect = 1.8
Identities = 19/126 (15%), Positives = 19/126 (15%), Gaps = 17/126 (13%)
Query: 1041 PERDPLEEIAESSPQTAANSAAELLKQGAACNVW-----YLNSVEMESLTGHQAIQKALS 1095
Sbjct: 1 PEDDG-NDLTHTFFNPDREG--WLLKLGGRVKTWKRRWFILTDNCLYYFEYTTDKEPRGI 57
Query: 1096 ITL----VQEPPPVSTVVHFKV---SAQGITLTDNQRKLFFRRHYP-VNSVIFCALDPQD 1147
Sbjct: 58 IPLENLSIREVDDPRKPNCFELYIPNNKGQLIKACKTEADGRVVEGNHMVYRISAPTQEE 117
Query: 1148 RK-WIK 1152
Sbjct: 118 KDEWIK 123
>DSP Dual specificity protein phosphatase
Length = 185
Score = 23.4 bits (50), Expect = 1.8
Identities = 7/23 (30%), Positives = 7/23 (30%)
Query: 594 ILSSKESMCSTPAFPVSPETPYV 616
Sbjct: 15 LLSDGSGCYSLPSQPCNEVTPRI 37
>ACTIN Actin ATPase/ Cytoskeletal ATPase domain
Length = 376
Score = 23.3 bits (50), Expect = 1.9
Identities = 22/94 (23%), Positives = 22/94 (23%), Gaps = 11/94 (11%)
Query: 74 DHGVIVDYNTTDPLIRWDSYENL---SADGEVLHTQGPVDGSLYAKVRKKSSS----DPG 126
Sbjct: 74 EHGIVSNWDDMEKIWHHTFYNELRVVSEEPXVLSXEAP----LNPKVNRESAQIMFETFN 129
Query: 127 IPGGPQAIPATNSPDHSDHTLSVSSDSGHSTASA 160
Sbjct: 130 VPAMYVAIQAVLSLYASGRTTGIVLDSGDGVSHT 163
>UBHYD Ubiquitin C-terminal hydrolase domain
Length = 884
Score = 22.7 bits (48), Expect = 2.8
Identities = 11/47 (23%), Positives = 11/47 (23%), Gaps = 9/47 (19%)
Query: 928 TSKFWYKAD------ISREQAIAMLKDKEPGSFIVRDSHSFRGAYGL 968
Sbjct: 255 GDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTN---AYML 298
>AP2 A plant specific DNA binding domain (Apetala 2 like)
Length = 218
Score = 22.4 bits (47), Expect = 3.5
Identities = 17/103 (16%), Positives = 17/103 (16%), Gaps = 14/103 (13%)
Query: 483 LGSQANGSVSPDSVGGGLRASSRLPDTGEGPS--------RATGRQGSSAEQPLGGRLRK 534
Sbjct: 2 IASESTKSWEASAVRQENEEEKKKPVKDSGKHPVYRGVRKRNWGKWVSEIREPRKK--SR 59
Query: 535 LSLGQYDNDAGGQLPFSKCA---WG-KAGVDYAPNLPPFPSPA 573
Sbjct: 60 IWLGTFPSPEMAARAHDVAALSIKGASAILNFPDLAGSFPRPS 102
>SNARE Alpha helical domains which are involved in vesicle fusion
Length = 254
Score = 21.4 bits (45), Expect = 6.4
Identities = 3/25 (12%), Positives = 3/25 (12%)
Query: 256 LSSSEGPQSAHLGPFTCHKSSQNSL 280
Sbjct: 44 LAQFPDRCTLKTGRHNINFISSLGV 68
>HSF Heat Shock Factor Domain (Winged helix type DNA binding domain)
Length = 112
Score = 21.4 bits (45), Expect = 6.5
Identities = 5/18 (27%), Positives = 5/18 (27%)
Query: 78 IVDYNTTDPLIRWDSYEN 95
Sbjct: 11 LVDDHRTDDVVSWNEEGT 28
>CBS cystathionine beta -synthase domain (A predicted ligand binding domain)
Length = 214
Score = 21.5 bits (45), Expect = 6.5
Identities = 11/39 (28%), Positives = 11/39 (28%)
Query: 920 VIVKFVQDTSKFWYKADISREQAIAMLKDKEPGSFIVRD 958
Sbjct: 1 MKVRDLMDKNFAKIYVDETVEDAINLLKKKKRFSAPIVD 39
>BROMO Bromodomain (A chromatin associated domain)
Length = 94
Score = 21.3 bits (45), Expect = 7.7
Identities = 7/37 (18%), Positives = 7/37 (18%), Gaps = 8/37 (21%)
Query: 568 PFPSPADVKETMTPGY------PQDLDIIDGRILSSK 598
Sbjct: 22 IFSEPVPLSE--VPDYLDHIKKPMDFFTMKQNLEAYR 56
>FHA Forkhead Associated domain (Phosphoserine/threonine binding domain)
Length = 89
Score = 21.0 bits (44), Expect = 9.8
Identities = 11/30 (36%), Positives = 11/30 (36%), Gaps = 2/30 (6%)
Query: 937 ISREQAIAMLKDKEPGSFIVRDSHSFRGAY 966
Sbjct: 46 ISRNHAI--LQATEEDTFLLIDLGSRNGTF 73
Underlying Matrix: BLOSUM62
Number of sequences tested against query: 105
Number of sequences better than 10.0: 15
Number of calls to ALIGN: 15
Length of query: 1205
Total length of test sequences: 20182
Effective length of test sequences: 16136.0
Effective search space size: 18820320.7
Initial X dropoff for ALIGN: 25.0 bits
Y. Wolf's SCOP PSSM
IMPALA version 1.1 [20-December-1999]
Reference: Alejandro A. Schaffer, Yuri I. Wolf, Chris P. Ponting,
Eugene V. Koonin, L. Aravind, Stephen F. Altschul (1999),
"IMPALA: Matching a Protein Sequence Against a Collection of
"PSI-BLAST-Constructed Position-Specific Score Matrices",
Bioinformatics 15:1000-1011.
Query= gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6
[Homo sapiens]
(1205 letters)
Searching.................................................done
Results from profile search
Score E
Sequences producing significant alignments: (bits) Value
gi|642068 [217..364] Double-stranded beta-helix 28 0.84
gi|84873 [335..1022] P-loop containing nucleotide triphospha... 27 1.9
gi|2120618 [16..149] Double-stranded beta-helix 27 2.1
gi|1172934 [123..294] ATP-grasp 27 2.1
gi|65848 [1..155] Cupredoxins 27 2.2
gi|951110 [5..279] ConA-like lectins/glucanases 27 2.3
gi|68234 [34..414] Citrate synthase 26 3.8
gi|2500693 [47..427] Periplasmic binding protein-like II 26 4.7
gi|120356 [34..141] Double-stranded beta-helix 26 4.9
gi|1078939 [54..180] C-type lectin-like 25 7.5
gi|153548 [125..455] beta-Lactamase/D-ala carboxypeptidase 25 8.0
gi|117484 [2..138] Double-stranded beta-helix 25 8.6
gi|1361422 [77..475] Periplasmic binding protein-like II 25 8.6
>gi|642068 [217..364] Double-stranded beta-helix
Length = 148
Score = 28.0 bits (62), Expect = 0.84
Identities = 8/54 (14%), Positives = 8/54 (14%), Gaps = 3/54 (5%)
Query: 1016 YFGSLTALVCQH-SITPLAL-PCKLLIPERDPLEEIAESSPQTAANSAAELLKQ 1067
Sbjct: 94 YFGELALLTNKPRAASVYAVEDVDCLLD-VNAFERLLGPCMDIMKRNIEHYEQE 146
>gi|84873 [335..1022] P-loop containing nucleotide triphosphate hydrolases
Length = 688
Score = 26.8 bits (59), Expect = 1.9
Identities = 6/64 (9%), Positives = 6/64 (9%)
Query: 274 KSSQNSLLSDGFGSNVGEDPQGTLVPDLGLGMDGPYERERTFGSREPKQPQPLLRKPSVS 333
Sbjct: 512 RSSLDESIMLMFTNQLTKAGNLTMPFEAVQHKDESERKSYALNTLSAGCISQVNNLRTLA 571
Query: 334 AQMQ 337
Sbjct: 572 ANFR 575
>gi|2120618 [16..149] Double-stranded beta-helix
Length = 134
Score = 26.9 bits (59), Expect = 2.1
Identities = 8/55 (14%), Positives = 8/55 (14%), Gaps = 3/55 (5%)
Query: 1016 YFGSLTAL--VCQHSITPLAL-PCKLLIPERDPLEEIAESSPQTAANSAAELLKQ 1067
Sbjct: 68 TFAEAMMFMDTPNYVATAQAVVPSQLFRFSNKAYLRQLQDNTPLALALLAKLSTR 122
>gi|1172934 [123..294] ATP-grasp
Length = 172
Score = 26.9 bits (59), Expect = 2.1
Identities = 13/133 (9%), Positives = 13/133 (9%), Gaps = 18/133 (13%)
Query: 885 HSGSTISIPFPNVLPDFSKASEAASPLPDSPGDKLVIVKFVQDTSKFWYKADISREQAIA 944
Sbjct: 29 NGSQGIGVILAEKPQSAVSIMEAFK----QTNISMLQQDFIEEAGNADIRCFVIGDQVVA 84
Query: 945 MLKDKEPGSFIVRDSHSFRGAYGLAMKVATPPPSVLQLNKKAGDLANELVRHFLIECTPK 1004
Sbjct: 85 TMQRIGQNGEFRANCH---------RGGKTEKI---TLSDEEKQIAIQATKAI--GLDVA 130
Query: 1005 GVRLKGCSNEPYF 1017
Sbjct: 131 GVDLIRSKKGLLV 143
>gi|65848 [1..155] Cupredoxins
Length = 155
Score = 26.7 bits (58), Expect = 2.2
Identities = 23/87 (26%), Positives = 23/87 (26%), Gaps = 10/87 (11%)
Query: 858 LPEKKRASEGDRSLGSVSPSSSGFSSPHSGSTISIPFPNVLPDFSKAS----EAASPLPD 913
Sbjct: 12 LPQVKAMLEKD------TGKVSGDTVTYSGKTVHVVAAAVLPGFPFPSFEVHDKKNPTLE 65
Query: 914 SPGDKLVIVKFVQDTSKFWYKADISRE 940
Sbjct: 66 IPAGATVDVTFINTNKGFGHSFDITKK 92
>gi|951110 [5..279] ConA-like lectins/glucanases
Length = 275
Score = 26.8 bits (59), Expect = 2.3
Identities = 14/85 (16%), Positives = 14/85 (16%), Gaps = 9/85 (10%)
Query: 90 WDSYENLSADGEVLHT-------QGPVDGSLYAKVRKKSSSDPGIPGGPQAI--PATNSP 140
Sbjct: 83 WEKSTNRLTNFQAQFSFVIKSPIDNGADGIAFFIAAPDSEIPKNSAGGTLGLFDPSTAQN 142
Query: 141 DHSDHTLSVSSDSGHSTASARTDKT 165
Sbjct: 143 PSANQVLAVEFDTFYAQDSNGWDPN 167
Score = 26.4 bits (58), Expect = 2.8
Identities = 22/121 (18%), Positives = 22/121 (18%), Gaps = 17/121 (14%)
Query: 881 FSSPHSGSTISIPFPNVLPDFSK---ASEAASPLPDSPGDKLVIVKFVQDTSKFWYKADI 937
Sbjct: 17 LNKAHSLDSLSFSYNNFEQDDERNLILQGDATFSASK---GIQLTKVDDNGTPAKSTVGR 73
Query: 938 SREQAIAMLKDKEPG---------SFIVRDSHSFRGAYGLAMKVATPPPSVLQLNKKAGD 988
Sbjct: 74 VLHSTQVRLWEKSTNRLTNFQAQFSFVIK-SPIDNGADGIAFFIA-APDSEIPKNSAGGT 131
Query: 989 L 989
Sbjct: 132 L 132
>gi|68234 [34..414] Citrate synthase
Length = 381
Score = 26.0 bits (57), Expect = 3.8
Identities = 5/22 (22%), Positives = 5/22 (22%)
Query: 142 HSDHTLSVSSDSGHSTASARTD 163
Sbjct: 194 HADHEQNASTSTVRLAGSSGAN 215
>gi|2500693 [47..427] Periplasmic binding protein-like II
Length = 381
Score = 25.7 bits (56), Expect = 4.7
Identities = 10/109 (9%), Positives = 10/109 (9%), Gaps = 23/109 (21%)
Query: 896 NVLPDFSKASEAASPLPDSPGDKLVIVKFVQDTSKFWYKADISREQAIAMLK----DKEP 951
Sbjct: 274 AAYGNPQYFKPVTSMFGNTA-------AVTNDENTGWFKPGGDPEKAKQLFKEAGYAGEK 326
Query: 952 GSFIVRDSHSFR-----------GAYGLAMKVATPPPSVLQLNKKAGDL 989
Sbjct: 327 IVILQATDWAEQSNASQVVAAKLREIGVNAELAPSDWGG-LVSRRSKRD 374
>gi|120356 [34..141] Double-stranded beta-helix
Length = 108
Score = 25.6 bits (56), Expect = 4.9
Identities = 13/97 (13%), Positives = 13/97 (13%), Gaps = 19/97 (19%)
Query: 985 KAGDLANELVRHFLIEC--------TPKG----VRLKGCSNEPYFGSLTAL-VCQHSITP 1031
Sbjct: 6 ISPDTAAHL---LVVAHGKLKTYQLATNGKEQLLRVDGVGD--YEGEAGLLNIANPNVYT 60
Query: 1032 LAL-PCKLLIPERDPLEEIAESSPQTAANSAAELLKQ 1067
Sbjct: 61 ETLTAATVCTISATDFQQLLLKQPQISLQLLTENARK 97
>gi|1078939 [54..180] C-type lectin-like
Length = 127
Score = 24.8 bits (53), Expect = 7.5
Identities = 3/41 (7%), Positives = 3/41 (7%), Gaps = 1/41 (2%)
Query: 1127 LFFRRHYPVNSVIFCALDPQDRKWIKDGPSSKVFGFVARKQ 1167
Sbjct: 87 PRWSPGQPDGQGECLAVYTHSGFL-DDKQCETQYNYICKTK 126
>gi|153548 [125..455] beta-Lactamase/D-ala carboxypeptidase
Length = 331
Score = 24.9 bits (54), Expect = 8.0
Identities = 15/67 (22%), Positives = 15/67 (22%), Gaps = 8/67 (11%)
Query: 679 SFQQAFASSCTISS-----NGPGQRRESSSSAERQWVESSPKPMVSLL---GSGRPTGSP 730
Sbjct: 117 TGVQALEYSSNAYMVQTALGLMGQTYQPNMFVGTSNLESAMEKLRSTFGEYGLGAATGID 176
Query: 731 LSAEFSG 737
Sbjct: 177 LPDESTG 183
>gi|117484 [2..138] Double-stranded beta-helix
Length = 137
Score = 24.9 bits (54), Expect = 8.6
Identities = 7/62 (11%), Positives = 7/62 (11%), Gaps = 3/62 (4%)
Query: 1016 YFGSLTAL--VCQHSITPLAL-PCKLLIPERDPLEEIAESSPQTAANSAAELLKQGAACN 1072
Sbjct: 69 FIGELGLFEEGQERSAWVRAKTACEVAEISYKKFRQLIQVNPDILMRLSAQMARRLQVTS 128
Query: 1073 VW 1074
Sbjct: 129 EK 130
>gi|1361422 [77..475] Periplasmic binding protein-like II
Length = 399
Score = 24.5 bits (53), Expect = 8.6
Identities = 9/75 (12%), Positives = 9/75 (12%), Gaps = 4/75 (5%)
Query: 915 PGDKLVIVKFVQDTSKFWYKADISREQAIAMLKDKEPGSFIVRDSHSFRGAYGLAMKVAT 974
Sbjct: 142 RGELAVLEPN----PHWDPETDPVRVQRASRIEVHLGKDPHEVDRMLLAGEAHVDLAGFG 197
Query: 975 PPPSVLQLNKKAGDL 989
Sbjct: 198 VQPAAQERILAEPEL 212
Underlying Matrix: BLOSUM62
Number of sequences tested against query: 1187
Number of sequences better than 10.0: 13
Number of calls to ALIGN: 14
Length of query: 1205
Total length of test sequences: 256703
Effective length of test sequences: 202633.0
Effective search space size: 235012464.0
Initial X dropoff for ALIGN: 25.0 bits
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
calculation of internal repeats with prospero
***** PROSPERO v1.3 Wed Nov 14 12:24:46 2001 *****
Copyright 2000, Richard Mott, Wellcome Trust Centre for Human Genetics, University of Oxford
For help see http://www.well.ox.ac.uk/ariadne For usage use -help
using gap penalty 11+1k
using matrix BLOSUM62
printing all alignments with eval < 0.100000
using sequence1 gi|15987493|gb|AAL11993.1|AF378756_1
using self-comparison
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
TIGRFAM
hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /data/patterns/tigrfam/tigrfam.hmm
Sequence file: tem16.fa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
[no hits above thresholds]
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
[no hits above thresholds]
Alignments of top-scoring domains:
[no hits above thresholds]
//
hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /data/patterns/tigrfam/tigrfam.hmm-f
Sequence file: tem16.fa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
TIGR00041 DTMP_kinase: thymidylate kinase 2.4 12 1
TIGR01006 8a0302s01: capsular polysaccharide transloc 0.2 35 1
TIGR00748 fabH_rel: condensing enzyme, putative, FabH -0.4 39 1
TIGR00704 NaPi_cotrn_rel: Na/Pi cotransporter II-rela -0.5 40 1
TIGR00687 pyridox_kin: pyridoxal kinase -0.8 85 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
TIGR00748 1/1 109 123 .. 333 347 .] -0.4 39
TIGR00041 1/1 452 466 .. 196 211 .] 2.4 12
TIGR01006 1/1 703 723 .. 166 186 .. 0.2 35
TIGR00704 1/1 1016 1043 .. 295 322 .] -0.5 40
TIGR00687 1/1 1041 1087 .. 1 47 [. -0.8 85
Alignments of top-scoring domains:
TIGR00748: domain 1 of 1, from 109 to 123: score -0.4, E = 39
*->iDYAlYAKfrkKlki<-*
+D lYAK+rkK
gi|1598749 109 VDGSLYAKVRKKSSS 123
TIGR00041: domain 1 of 1, from 452 to 466: score 2.4, E = 12
*->viDatnsgveeveqdI<-*
++D+++s +e++ + I
gi|1598749 452 TLDIDQS-IEQLNRLI 466
TIGR01006: domain 1 of 1, from 703 to 723: score 0.2, E = 35
*->eeAkpattpsSPkiklnlliG<-*
+ A + + sSPk++++ll++
gi|1598749 703 SSAERQWVESSPKPMVSLLGS 723
TIGR00704: domain 1 of 1, from 1016 to 1043: score -0.5, E = 40
*->lfnlvncllflPftdplarfvewlirpk<-*
+f +++l+ + pla +++li+++
gi|1598749 1016 YFGSLTALVCQHSITPLALPCKLLIPER 1043
TIGR00687: domain 1 of 1, from 1041 to 1087: score -0.8, E = 85
*->lpknvlsiqshvvyGhaGnkaatfPlqrlGfevwalntvqfsnhtgy
++ l + + a n+aa++ q +vw ln+v++ + tg+
gi|1598749 1041 PERDPLEEIAESSPQTAANSAAELLKQGAACNVWYLNSVEMESLTGH 1087
<-*
gi|1598749 - -
//
SMART
hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /data/patterns/iprscan/data/smart.HMMs
Sequence file: tem16.fa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
PTB Phosphotyrosine-binding domain, phosphotyros 92.1 1.1e-23 1
SH2 Src homology 2 domains 77.9 2.2e-19 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
SH2 1/1 930 1033 .. 1 87 [] 77.9 2.2e-19
PTB 1/1 1066 1203 .. 1 156 [] 92.1 1.1e-23
Alignments of top-scoring domains:
SH2: domain 1 of 1, from 930 to 1033: score 77.9, E = 2.2e-19
*->epWYHGkisReeAEklLkneggpdGtFLvRdSesspgdyvLSvrvk.
WY +isRe+A ++Lk +++G+F+vRdS s++g+y L ++v +
gi|1598749 930 KFWYKADISREQAIAMLKD--KEPGSFIVRDSHSFRGAYGLAMKVAt 974
.................gkvkHyrIrrtddgkfylggt.prrkFpsL.eL
++++ + +++ ++ ++ v+H++I++t+ ++++l g++++++F sL+ L
gi|1598749 975 pppsvlqlnkkagdlanELVRHFLIECTP-KGVRLKGCsNEPYFGSLtAL 1023
vehYqknslg<-*
v ++ ++l
gi|1598749 1024 VCQHSITPLA 1033
PTB: domain 1 of 1, from 1066 to 1203: score 92.1, E = 1.1e-23
*->segvsfeVkYLGsvevpearkSlapgkglqvlqeairklr..sekkk
+g++++V+YL sve+++ + g q++q+a++ ++ +
gi|1598749 1066 KQGAACNVWYLNSVEMESLT-------GHQAIQKALSITLvqEPPPV 1105
pqkvilsvSsdgvklidektk.qvlaehplrrIsfcaadpq.r.wnt.Gg
+ v+++vS +g++l+d+++k ++++++p+++++fca dpq+r+w ++G
gi|1598749 1106 STVVHFKVSAQGITLTDNQRKlFFRRHYPVNSVIFCALDPQdRkWIKdGP 1155
dgstdddrvFgyiardpgssgSnrgtsrfaCHVFrcekaaaedialaigq
++vFg++ar++gs ++ + CH+F +++ ++++++
gi|1598749 1156 -----SSKVFGFVARKQGS------ATDNVCHLFAEHDPE---QPASAIV 1191
aFqvayelklkarse<-*
+F +++ + ++
gi|1598749 1192 NF---VSKVMIGSPK 1203
//
COG
hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /data/patterns/cogs/cogs.hmm
Sequence file: tem16.fa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
COG3193 -82.9 82 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
COG3193 1/1 324 472 .. 1 181 [] -82.9 82
Alignments of top-scoring domains:
COG3193: domain 1 of 1, from 324 to 472: score -82.9, E = 82
*->vlKffFtPlLvlIaLGLSlaLvmktlAletyyvLslelAlriiaaAi
+PlL + m++ y + s ++ + ++
gi|1598749 324 ------QPLLRKPSV----SAQMQA-----YGQSSYSTQTWVRQQQM 355
aeaQrqgyaP......VtiAVVDagGhlLAliRmDdaaphtiqiafeKAr
+a + + aP+++ + V+ +D G+++A R +p+t+ + r
gi|1598749 356 VVAHQYSFAPdgearlVSRCPADNPGLVQAQPR----VPLTPTRGTS-SR 400
sAvllrtnitldrssgalaamanpGpslisafvp.lpllplTGlsLfpGG
Av + sg + ++ + af p+ p+++ G
gi|1598749 401 VAVQRG------VGSGPHPPDTQQPSPS-KAFKPrFPGDQV-----VNGA 438
VpiivdGaqvVGAVGVS.GataGaqDeqcAikGveavklrld<-*
+p ++ G S+G++ ++D+++ ++ + l++
gi|1598749 439 GPELSTG--------PSpGSPTLDIDQSIEQLNRLILELDPT 472
//
hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /data/patterns/cogs/cogs.hmm-f
Sequence file: tem16.fa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: gi|15987493|gb|AAL11993.1|AF378756_1 tumor endothelial marker 6 [Homo sapiens]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
COG2229 1.0 46 1
COG1776 0.9 41 1
COG0131 -0.2 50 1
COG2175 -0.6 58 1
COG0647 -0.8 74 1
COG1967 -0.9 98 1
COG2189 -0.9 30 1
COG1507 -1.0 93 1
COG0358 -1.4 93 1
COG1222 -2.1 79 1
COG1372 -2.5 96 1
COG2225 -2.7 93 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
COG2189 1/1 219 231 .. 901 913 .] -0.9 30
COG0647 1/1 238 260 .. 286 308 .] -0.8 74
COG1507 1/1 352 390 .. 1 43 [. -1.0 93
COG1776 1/1 468 487 .. 229 248 .] 0.9 41
COG2175 1/1 505 526 .. 314 335 .] -0.6 58
COG1222 1/1 658 681 .. 1 24 [. -2.1 79
COG1372 1/1 823 829 .. 554 560 .] -2.5 96
COG1967 1/1 822 836 .. 108 124 .. -0.9 98
COG2225 1/1 982 998 .. 159 175 .. -2.7 93
COG0131 1/1 984 998 .. 128 144 .. -0.2 50
COG0358 1/1 1113 1141 .. 300 328 .. -1.4 93
COG2229 1/1 1159 1187 .. 166 195 .] 1.0 46
Alignments of top-scoring domains:
COG2189: domain 1 of 1, from 219 to 231: score -0.9, E = 30
*->PDEiYinGDkaVs<-*
P +++nGD+a++
gi|1598749 219 PAQVHVNGDAALK 231
COG0647: domain 1 of 1, from 238 to 260: score -0.8, E = 74
*->lDalkPdyvldSlkelvkllkel<-*
lD ++P++ l+S+ l +l ++
gi|1598749 238 LDDEMPHHDLHSVDSLGTLSSSE 260
COG1507: domain 1 of 1, from 352 to 390: score -1.0, E = 93
*->mGDPRDEKvVtrQLGRkirnvlkiayrcpyGePvVVkeaPRlk<-*
vV Q ++ + + + rcp P+ V+ PR++
gi|1598749 352 ----QQQMVVAHQYSFAPDGEARLVSRCPADNPGLVQAQPRVP 390
COG1776: domain 1 of 1, from 468 to 487: score 0.9, E = 41
*->llipdpesfskllnkLgaql<-*
+l+p++e +++++n+Lg q+
gi|1598749 468 ELDPTFEPIPTHMNALGSQA 487
COG2175: domain 1 of 1, from 505 to 526: score -0.6, E = 58
*->RvtilgdrPfrnpgllsdqiel<-*
R+++ g++P r+ g+++ +e+
gi|1598749 505 RLPDTGEGPSRATGRQGSSAEQ 526
COG1222: domain 1 of 1, from 658 to 681: score -2.1, E = 79
*->mseeadlemaelgevdsqtkpske<-*
mse++ ++ ++ d++++ps++
gi|1598749 658 MSESPIGPKSTMLRADASSTPSFQ 681
COG1372: domain 1 of 1, from 823 to 829: score -2.5, E = 96
*->NgivvhN<-*
Ng+++hN
gi|1598749 823 NGFLSHN 829
COG1967: domain 1 of 1, from 822 to 836: score -0.9, E = 98
*->DaGvltPprtyltvTPG<-*
D+G+l ++ltv PG
gi|1598749 822 DNGFL--SHNFLTVAPG 836
COG2225: domain 1 of 1, from 982 to 998: score -2.7, E = 93
*->ltpeAlefviqLhrrFl<-*
l+++A++++ +L+r+Fl
gi|1598749 982 LNKKAGDLANELVRHFL 998
COG0131: domain 1 of 1, from 984 to 998: score -0.2, E = 50
*->ekvgvGdlstelieHFf<-*
+k +Gdl el++HF+
gi|1598749 984 KK--AGDLANELVRHFL 998
COG0358: domain 1 of 1, from 1113 to 1141: score -1.4, E = 93
*->VAvlGTalteehlkLlkrfk.ygtkkiilc<-*
V ++G +lt+ + kL++r +y ++++i+c
gi|1598749 1113 VSAQGITLTDNQRKLFFR-RhYPVNSVIFC 1141
COG2229: domain 1 of 1, from 1159 to 1187: score 1.0, E = 46
*->vigvsareedsvkdaLdaLLelklksetea<-*
v+g+ ar+ +s++d + +L ++e +a
gi|1598749 1159 VFGFVARKQGSATDNVCHLFA-EHDPEQPA 1187
//