analysis of sequence from tem11
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
>Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR (ENTACTIN)
MLASSSRIRAAWTRALLLPLLLAGPVGCLSRQELFPFGPGQGDLELEDGDDFVSPALELSGALRFYDRSD
IDAVYVTTNGIIATSEPPAKESHPGLFPPTFGAVAPFLADLDTTDGLGKVYYREDLSPSITQRAAECVHR
GFPEISFQPSSAVVVTWESVAPYQGPSRDPDQKGKRNTFQAVLASSDSSSYAIFLYPEDGLQFHTTFSKK
ENNQVPAVVAFSQGSVGFLWKSNGAYNIFANDRESIENLAKSSNSGQQGVWVFEIGSPATTNGVVPADVI
LGTEDGAEYDDEDEDYDLATTRLGLEDVGTTPFSYKALRRGGADTYSVPSVLSPRRAATERPLGPPTERT
RSFQLAVETFHQQHPQVIDVDEVEETGVVFSYNTDSRQTCANNRHQCSVHAECRDYATGFCCSCVAGYTG
NGRQCVAEGSPQRVNGKVKGRIFVGSSQVPIVFENTDLHSYVVMNHGRSYTAISTIPETVGYSLLPLAPV
GGIIGWMFAVEQDGFKNGFSITGGEFTRQAEVTFVGHPGNLVIKQRFSGIDEHGHLTIDTELEGRVPQIP
FGSSVHIEPYTELYHYSTSVITSSSTREYTVTEPERDGASPSRIYTYQWRQTITFQECVHDDSRPALPST
QQLSVDSVFVLYNQEEKILRYAFSNSIGPVREGSPDALQNPCYIGTHGCDTNAACRPGPRTQFTCECSIG
FRGDGRTCYDIDECSEQPSVCGSHTICNNHPGTFRCECVEGYQFSDEGTCVAVVDQRPINYCETGLHNCD
IPQRAQCIYTGGSSYTCSCLPGFSGDGQACQDVDECQPSRCHPDAFCYNTPGSFTCQCKPGYQGDGFRCV
PGEVEKTRCQHEREHILGAAGATDPQRPIPPGLFVPECDAHGHYAPTQCHGSTGYCWCVDRDGREVEGTR
TRPGMTPPCLSTVAPPIHQGPAVPTAVIPLPPGTHLLFAQTGKIERLPLEGNTMRKTEAKAFLHVPAKVI
IGLAFDCVDKMVYWTDITEPSIGRASLHGGEPTTIIRQDLGSPEGIAVDHLGRNIFWTDSNLDRIEVAKL
DGTQRRVLFETDLVNPRGIVTDSVRGNLYWTDWNRDNPKIETSYMDGTNRRILVQDDLGLPNGLHFDAFS
SQLCWVDAGTNRAECLNPSQPSRRKALEGLQYPFAVTSYGKNLYFTDWKMNSVVALDLAISKETDAFQPH
KQTRLYGITTALSQCPQGHNYCSVNNGGCTHLCLATPGSRTCRCPDNTLGVDCIERK
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
sec.str. with predator
> Tem11gi|128199|sp|P14543|NIDO_HUMAN
. . . . .
1 MLASSSRIRAAWTRALLLPLLLAGPVGCLSRQELFPFGPGQGDLELEDGD 50
___HHHHHHHHHHHHHHHHEEE_____________________EEE____
. . . . .
51 DFVSPALELSGALRFYDRSDIDAVYVTTNGIIATSEPPAKESHPGLFPPT 100
____HHHHHHHHEEEE______EEEEE_______________________
. . . . .
101 FGAVAPFLADLDTTDGLGKVYYREDLSPSITQRAAECVHRGFPEISFQPS 150
_EEEEEE___________EEEEEE______HHHHHHHHHH___EEE____
. . . . .
151 SAVVVTWESVAPYQGPSRDPDQKGKRNTFQAVLASSDSSSYAIFLYPEDG 200
_EEEEEE__________________HHHHHHHHH______EEEEEE____
. . . . .
201 LQFHTTFSKKENNQVPAVVAFSQGSVGFLWKSNGAYNIFANDRESIENLA 250
EEEE____________EEEEE_____EEEEE____EEEE_____HHHHHH
. . . . .
251 KSSNSGQQGVWVFEIGSPATTNGVVPADVILGTEDGAEYDDEDEDYDLAT 300
________EEEEEE_________EEE_EEEEE__________________
. . . . .
301 TRLGLEDVGTTPFSYKALRRGGADTYSVPSVLSPRRAATERPLGPPTERT 350
______________HHHHH______EEE_____HHHHHH_________HH
. . . . .
351 RSFQLAVETFHQQHPQVIDVDEVEETGVVFSYNTDSRQTCANNRHQCSVH 400
HHHHHHHHHHHH____EEEEE_______EEE______________EEEE_
. . . . .
401 AECRDYATGFCCSCVAGYTGNGRQCVAEGSPQRVNGKVKGRIFVGSSQVP 450
__________EEEEE_______EEEEEE__________EEEEEE_____E
. . . . .
451 IVFENTDLHSYVVMNHGRSYTAISTIPETVGYSLLPLAPVGGIIGWMFAV 500
EEE______EEEEE_____EEEE_____EEEEE__________HHHHHEE
. . . . .
501 EQDGFKNGFSITGGEFTRQAEVTFVGHPGNLVIKQRFSGIDEHGHLTIDT 550
EE__________________EEEEE_____EEEEE____________HHH
. . . . .
551 ELEGRVPQIPFGSSVHIEPYTELYHYSTSVITSSSTREYTVTEPERDGAS 600
HH___________EEEE___EEEEEEE_________EEEEEE________
. . . . .
601 PSRIYTYQWRQTITFQECVHDDSRPALPSTQQLSVDSVFVLYNQEEKILR 650
__EEEEEHHHHHHHH_____________________EEEEEE_HHHHHHH
. . . . .
651 YAFSNSIGPVREGSPDALQNPCYIGTHGCDTNAACRPGPRTQFTCECSIG 700
HHH_______________________________________________
. . . . .
701 FRGDGRTCYDIDECSEQPSVCGSHTICNNHPGTFRCECVEGYQFSDEGTC 750
__________________________________EEEEE_________EE
. . . . .
751 VAVVDQRPINYCETGLHNCDIPQRAQCIYTGGSSYTCSCLPGFSGDGQAC 800
EEEEE_____EEE____________EEEE______EEE____________
. . . . .
801 QDVDECQPSRCHPDAFCYNTPGSFTCQCKPGYQGDGFRCVPGEVEKTRCQ 850
________________________EEE________________HHHHHHH
. . . . .
851 HEREHILGAAGATDPQRPIPPGLFVPECDAHGHYAPTQCHGSTGYCWCVD 900
HHHHHHH______________________________________EEEE_
. . . . .
901 RDGREVEGTRTRPGMTPPCLSTVAPPIHQGPAVPTAVIPLPPGTHLLFAQ 950
___________________EEE____________EEEE_____EEEEEE_
. . . . .
951 TGKIERLPLEGNTMRKTEAKAFLHVPAKVIIGLAFDCVDKMVYWTDITEP 1000
____EEE______HHHHHHHHHH___EEEEEEEEE____EEEEE______
. . . . .
1001 SIGRASLHGGEPTTIIRQDLGSPEGIAVDHLGRNIFWTDSNLDRIEVAKL 1050
_____________EEEEE________EEEE___EEEE______EEEEEE_
. . . . .
1051 DGTQRRVLFETDLVNPRGIVTDSVRGNLYWTDWNRDNPKIETSYMDGTNR 1100
_____EEEEE_____________________________EEEEE_____E
. . . . .
1101 RILVQDDLGLPNGLHFDAFSSQLCWVDAGTNRAECLNPSQPSRRKALEGL 1150
EEEEE_________________EEEE________________HHHHHHH_
. . . . .
1151 QYPFAVTSYGKNLYFTDWKMNSVVALDLAISKETDAFQPHKQTRLYGITT 1200
____EEE______________HHHHHHHHHHHH________EEEEEEEEE
. . . .
1201 ALSQCPQGHNYCSVNNGGCTHLCLATPGSRTCRCPDNTLGVDCIERK 1247
EE_________________EEEEE______________EEEEEE___
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
method : 1
alpha-contents : 0.0 %
beta-contents : 28.8 %
coil-contents : 71.2 %
class : beta
method : 2
alpha-contents : 0.0 %
beta-contents : 23.9 %
coil-contents : 76.1 %
class : beta
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
GPI: learning from metazoa
-18.80 -0.56 -0.78 0.00 -4.00 0.00 -4.00 0.00 -2.15 -5.26 -3.96 0.00 -12.00 -16.00 -12.00 0.00 -79.53
-22.69 -1.76 -0.04 -0.55 -4.00 0.00 0.00 0.00 -1.14 -4.93 -3.96 0.00 -12.00 -12.00 -12.00 0.00 -75.08
ID: Tem11gi|128199|sp|P14543|NIDO_HUMAN AC: xxx Len: 1190 1:I 1159 Sc: -75.08 Pv: 6.759856e-01 NO_GPI_SITE
GPI: learning from protozoa
-17.25 -10.05 -4.27 -3.98 -4.00 0.00 0.00 0.00 -1.33 -3.18 -13.20 0.00 -12.00 -8.00 -12.00 0.00 -89.27
-30.32 -2.01 -0.39 0.00 -4.00 0.00 0.00 0.00 -1.83 -3.59 -13.20 0.00 -12.00 -8.00 -12.00 0.00 -87.34
ID: Tem11gi|128199|sp|P14543|NIDO_HUMAN AC: xxx Len: 1190 1:I 1161 Sc: -87.34 Pv: 6.457286e-01 NO_GPI_SITE
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
# SignalP euk predictions
# name Cmax pos ? Ymax pos ? Smax pos ? Smean ?
Tem11gi|128 0.586 29 Y 0.694 29 Y 0.975 17 Y 0.885 Y
# SignalP gram- predictions
# name Cmax pos ? Ymax pos ? Smax pos ? Smean ?
Tem11gi|128 0.509 800 Y 0.333 29 N 0.996 9 Y 0.774 Y
# SignalP gram+ predictions
# name Cmax pos ? Ymax pos ? Smax pos ? Smean ?
Tem11gi|128 0.649 338 Y 0.411 32 Y 0.990 15 Y 0.865 Y
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
low complexity regions: SEG 12 2.2 2.5
>Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR (ENTACTIN)
1-15 MLASSSRIRAAWTRA
lllplll 16-22
23-41 AGPVGCLSRQELFPFGPGQ
gdleledgdd 42-51
52-281 FVSPALELSGALRFYDRSDIDAVYVTTNGI
IATSEPPAKESHPGLFPPTFGAVAPFLADL
DTTDGLGKVYYREDLSPSITQRAAECVHRG
FPEISFQPSSAVVVTWESVAPYQGPSRDPD
QKGKRNTFQAVLASSDSSSYAIFLYPEDGL
QFHTTFSKKENNQVPAVVAFSQGSVGFLWK
SNGAYNIFANDRESIENLAKSSNSGQQGVW
VFEIGSPATTNGVVPADVIL
gtedgaeyddededydlat 282-300
301-1247 TRLGLEDVGTTPFSYKALRRGGADTYSVPS
VLSPRRAATERPLGPPTERTRSFQLAVETF
HQQHPQVIDVDEVEETGVVFSYNTDSRQTC
ANNRHQCSVHAECRDYATGFCCSCVAGYTG
NGRQCVAEGSPQRVNGKVKGRIFVGSSQVP
IVFENTDLHSYVVMNHGRSYTAISTIPETV
GYSLLPLAPVGGIIGWMFAVEQDGFKNGFS
ITGGEFTRQAEVTFVGHPGNLVIKQRFSGI
DEHGHLTIDTELEGRVPQIPFGSSVHIEPY
TELYHYSTSVITSSSTREYTVTEPERDGAS
PSRIYTYQWRQTITFQECVHDDSRPALPST
QQLSVDSVFVLYNQEEKILRYAFSNSIGPV
REGSPDALQNPCYIGTHGCDTNAACRPGPR
TQFTCECSIGFRGDGRTCYDIDECSEQPSV
CGSHTICNNHPGTFRCECVEGYQFSDEGTC
VAVVDQRPINYCETGLHNCDIPQRAQCIYT
GGSSYTCSCLPGFSGDGQACQDVDECQPSR
CHPDAFCYNTPGSFTCQCKPGYQGDGFRCV
PGEVEKTRCQHEREHILGAAGATDPQRPIP
PGLFVPECDAHGHYAPTQCHGSTGYCWCVD
RDGREVEGTRTRPGMTPPCLSTVAPPIHQG
PAVPTAVIPLPPGTHLLFAQTGKIERLPLE
GNTMRKTEAKAFLHVPAKVIIGLAFDCVDK
MVYWTDITEPSIGRASLHGGEPTTIIRQDL
GSPEGIAVDHLGRNIFWTDSNLDRIEVAKL
DGTQRRVLFETDLVNPRGIVTDSVRGNLYW
TDWNRDNPKIETSYMDGTNRRILVQDDLGL
PNGLHFDAFSSQLCWVDAGTNRAECLNPSQ
PSRRKALEGLQYPFAVTSYGKNLYFTDWKM
NSVVALDLAISKETDAFQPHKQTRLYGITT
ALSQCPQGHNYCSVNNGGCTHLCLATPGSR
TCRCPDNTLGVDCIERK
low complexity regions: SEG 25 3.0 3.3
>Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR (ENTACTIN)
1-1 M
lasssriraawtralllplllagpvgclsr 2-46
qelfpfgpgqgdlel
47-93 EDGDDFVSPALELSGALRFYDRSDIDAVYV
TTNGIIATSEPPAKESH
pglfpptfgavapfladldttdglg 94-118
119-268 KVYYREDLSPSITQRAAECVHRGFPEISFQ
PSSAVVVTWESVAPYQGPSRDPDQKGKRNT
FQAVLASSDSSSYAIFLYPEDGLQFHTTFS
KKENNQVPAVVAFSQGSVGFLWKSNGAYNI
FANDRESIENLAKSSNSGQQGVWVFEIGSP
attngvvpadvilgtedgaeyddededydl 269-311
attrlgledvgtt
312-562 PFSYKALRRGGADTYSVPSVLSPRRAATER
PLGPPTERTRSFQLAVETFHQQHPQVIDVD
EVEETGVVFSYNTDSRQTCANNRHQCSVHA
ECRDYATGFCCSCVAGYTGNGRQCVAEGSP
QRVNGKVKGRIFVGSSQVPIVFENTDLHSY
VVMNHGRSYTAISTIPETVGYSLLPLAPVG
GIIGWMFAVEQDGFKNGFSITGGEFTRQAE
VTFVGHPGNLVIKQRFSGIDEHGHLTIDTE
LEGRVPQIPFG
ssvhiepytelyhystsvitssstreytvt 563-607
eperdgaspsriyty
608-912 QWRQTITFQECVHDDSRPALPSTQQLSVDS
VFVLYNQEEKILRYAFSNSIGPVREGSPDA
LQNPCYIGTHGCDTNAACRPGPRTQFTCEC
SIGFRGDGRTCYDIDECSEQPSVCGSHTIC
NNHPGTFRCECVEGYQFSDEGTCVAVVDQR
PINYCETGLHNCDIPQRAQCIYTGGSSYTC
SCLPGFSGDGQACQDVDECQPSRCHPDAFC
YNTPGSFTCQCKPGYQGDGFRCVPGEVEKT
RCQHEREHILGAAGATDPQRPIPPGLFVPE
CDAHGHYAPTQCHGSTGYCWCVDRDGREVE
GTRTR
pgmtppclstvappihqgpavptaviplpp 913-952
gthllfaqtg
953-1247 KIERLPLEGNTMRKTEAKAFLHVPAKVIIG
LAFDCVDKMVYWTDITEPSIGRASLHGGEP
TTIIRQDLGSPEGIAVDHLGRNIFWTDSNL
DRIEVAKLDGTQRRVLFETDLVNPRGIVTD
SVRGNLYWTDWNRDNPKIETSYMDGTNRRI
LVQDDLGLPNGLHFDAFSSQLCWVDAGTNR
AECLNPSQPSRRKALEGLQYPFAVTSYGKN
LYFTDWKMNSVVALDLAISKETDAFQPHKQ
TRLYGITTALSQCPQGHNYCSVNNGGCTHL
CLATPGSRTCRCPDNTLGVDCIERK
low complexity regions: SEG 45 3.4 3.75
>Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR (ENTACTIN)
1-1 M
lasssriraawtralllplllagpvgclsr 2-72
qelfpfgpgqgdleledgddfvspalelsg
alrfydrsdid
73-274 AVYVTTNGIIATSEPPAKESHPGLFPPTFG
AVAPFLADLDTTDGLGKVYYREDLSPSITQ
RAAECVHRGFPEISFQPSSAVVVTWESVAP
YQGPSRDPDQKGKRNTFQAVLASSDSSSYA
IFLYPEDGLQFHTTFSKKENNQVPAVVAFS
QGSVGFLWKSNGAYNIFANDRESIENLAKS
SNSGQQGVWVFEIGSPATTNGV
vpadvilgtedgaeyddededydlattrlg 275-381
ledvgttpfsykalrrggadtysvpsvlsp
rraaterplgpptertrsfqlavetfhqqh
pqvidvdeveetgvvfs
382-534 YNTDSRQTCANNRHQCSVHAECRDYATGFC
CSCVAGYTGNGRQCVAEGSPQRVNGKVKGR
IFVGSSQVPIVFENTDLHSYVVMNHGRSYT
AISTIPETVGYSLLPLAPVGGIIGWMFAVE
QDGFKNGFSITGGEFTRQAEVTFVGHPGNL
VIK
qrfsgidehghltidtelegrvpqipfgss 535-624
vhiepytelyhystsvitssstreytvtep
erdgaspsriytyqwrqtitfqecvhddsr
625-1247 PALPSTQQLSVDSVFVLYNQEEKILRYAFS
NSIGPVREGSPDALQNPCYIGTHGCDTNAA
CRPGPRTQFTCECSIGFRGDGRTCYDIDEC
SEQPSVCGSHTICNNHPGTFRCECVEGYQF
SDEGTCVAVVDQRPINYCETGLHNCDIPQR
AQCIYTGGSSYTCSCLPGFSGDGQACQDVD
ECQPSRCHPDAFCYNTPGSFTCQCKPGYQG
DGFRCVPGEVEKTRCQHEREHILGAAGATD
PQRPIPPGLFVPECDAHGHYAPTQCHGSTG
YCWCVDRDGREVEGTRTRPGMTPPCLSTVA
PPIHQGPAVPTAVIPLPPGTHLLFAQTGKI
ERLPLEGNTMRKTEAKAFLHVPAKVIIGLA
FDCVDKMVYWTDITEPSIGRASLHGGEPTT
IIRQDLGSPEGIAVDHLGRNIFWTDSNLDR
IEVAKLDGTQRRVLFETDLVNPRGIVTDSV
RGNLYWTDWNRDNPKIETSYMDGTNRRILV
QDDLGLPNGLHFDAFSSQLCWVDAGTNRAE
CLNPSQPSRRKALEGLQYPFAVTSYGKNLY
FTDWKMNSVVALDLAISKETDAFQPHKQTR
LYGITTALSQCPQGHNYCSVNNGGCTHLCL
ATPGSRTCRCPDNTLGVDCIERK
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
>Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR (ENTACTIN)
MLASSSRIRAAWTRALLLPLLLAGPVGCLSRQELFPFGPGQGDLELEDGDDFVSPALELS
GALRFYDRSDIDAVYVTTNGIIATSEPPAKESHPGLFPPTFGAVAPFLADLDTTDGLGKV
YYREDLSPSITQRAAECVHRGFPEISFQPSSAVVVTWESVAPYQGPSRDPDQKGKRNTFQ
AVLASSDSSSYAIFLYPEDGLQFHTTFSKKENNQVPAVVAFSQGSVGFLWKSNGAYNIFA
NDRESIENLAKSSNSGQQGVWVFEIGSPATTNGVVPADVILGTEDGAEYDDEDEDYDLAT
TRLGLEDVGTTPFSYKALRRGGADTYSVPSVLSPRRAATERPLGPPTERTRSFQLAVETF
hqqhpqvidvdeveeTGVVFSYNTDSRQTCANNRHQCSVHAECRDYATGFCCSCVAGYTG
NGRQCVAEGSPQRVNGKVKGRIFVGSSQVPIVFENTDLHSYVVMNHGRSYTAISTIPETV
GYSLLPLAPVGGIIGWMFAVEQDGFKNGFSITGGEFTRQAEVTFVGHPGNLVIKQRFSGI
DEHGHLTIDTELEGRVPQIPFGSSVHIEPYTELYHYSTSVITSSSTREYTVTEPERDGAS
PSRIYTYQWRQTITFQECVHDDSRPALPSTQQLSVDSVFVLYNQEEKILRYAFSNSIGPV
REGSPDALQNPCYIGTHGCDTNAACRPGPRTQFTCECSIGFRGDGRTCYDIDECSEQPSV
CGSHTICNNHPGTFRCECVEGYQFSDEGTCVAVVDQRPINYCETGLHNCDIPQRAQCIYT
GGSSYTCSCLPGFSGDGQACQDVDECQPSRCHPDAFCYNTPGSFTCQCKPGYQGDGFRCV
PGEVEKTRCQHEREHILGAAGATDPQRPIPPGLFVPECDAHGHYAPTQCHGSTGYCWCVD
RDGREVEGTRTRPGMTPPCLSTVAPPIHQGPAVPTAVIPLPPGTHLLFAQTGKIERLPLE
GNTMRKTEAKAFLHVPAKVIIGLAFDCVDKMVYWTDITEPSIGRASLHGGEPTTIIRQDL
GSPEGIAVDHLGRNIFWTDSNLDRIEVAKLDGTQRRVLFETDLVNPRGIVTDSVRGNLYW
TDWNRDNPKIETSYMDGTNRRILVQDDLGLPNGLHFDAFSSQLCWVDAGTNRAECLNPSQ
PSRRKALEGLQYPFAVTSYGKNLYFTDWKMNSVVALDLAISKETDAFQPHKQTRLYGITT
ALSQCPQGHNYCSVNNGGCTHLCLATPGSRTCRCPDNTLGVDCIERK
1 - 360 MLASSSRIRA AWTRALLLPL LLAGPVGCLS RQELFPFGPG QGDLELEDGD DFVSPALELS
GALRFYDRSD IDAVYVTTNG IIATSEPPAK ESHPGLFPPT FGAVAPFLAD LDTTDGLGKV
YYREDLSPSI TQRAAECVHR GFPEISFQPS SAVVVTWESV APYQGPSRDP DQKGKRNTFQ
AVLASSDSSS YAIFLYPEDG LQFHTTFSKK ENNQVPAVVA FSQGSVGFLW KSNGAYNIFA
NDRESIENLA KSSNSGQQGV WVFEIGSPAT TNGVVPADVI LGTEDGAEYD DEDEDYDLAT
TRLGLEDVGT TPFSYKALRR GGADTYSVPS VLSPRRAATE RPLGPPTERT RSFQLAVETF
361 - 375 hqqhpqvidv devee
376 - 1247 TGVVF SYNTDSRQTC ANNRHQCSVH AECRDYATGF CCSCVAGYTG NGRQCVAEGS PQRVN
GKVKG RIFVGSSQVP IVFENTDLHS YVVMNHGRSY TAISTIPETV GYSLLPLAPV GGIIG
WMFAV EQDGFKNGFS ITGGEFTRQA EVTFVGHPGN LVIKQRFSGI DEHGHLTIDT ELEGR
VPQIP FGSSVHIEPY TELYHYSTSV ITSSSTREYT VTEPERDGAS PSRIYTYQWR QTITF
QECVH DDSRPALPST QQLSVDSVFV LYNQEEKILR YAFSNSIGPV REGSPDALQN PCYIG
THGCD TNAACRPGPR TQFTCECSIG FRGDGRTCYD IDECSEQPSV CGSHTICNNH PGTFR
CECVE GYQFSDEGTC VAVVDQRPIN YCETGLHNCD IPQRAQCIYT GGSSYTCSCL PGFSG
DGQAC QDVDECQPSR CHPDAFCYNT PGSFTCQCKP GYQGDGFRCV PGEVEKTRCQ HEREH
ILGAA GATDPQRPIP PGLFVPECDA HGHYAPTQCH GSTGYCWCVD RDGREVEGTR TRPGM
TPPCL STVAPPIHQG PAVPTAVIPL PPGTHLLFAQ TGKIERLPLE GNTMRKTEAK AFLHV
PAKVI IGLAFDCVDK MVYWTDITEP SIGRASLHGG EPTTIIRQDL GSPEGIAVDH LGRNI
FWTDS NLDRIEVAKL DGTQRRVLFE TDLVNPRGIV TDSVRGNLYW TDWNRDNPKI ETSYM
DGTNR RILVQDDLGL PNGLHFDAFS SQLCWVDAGT NRAECLNPSQ PSRRKALEGL QYPFA
VTSYG KNLYFTDWKM NSVVALDLAI SKETDAFQPH KQTRLYGITT ALSQCPQGHN YCSVN
NGGCT HLCLATPGSR TCRCPDNTLG VDCIERK
low complexity regions: DUST
>Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR (ENTACTIN)
MLASSSRIRAAWTRALLLPLLLAGPVGCLSRQELFPFGPGQGDLELEDGDDFVSPALELS
GALRFYDRSDIDAVYVTTNGIIATSEPPAKESHPGLFPPTFGAVAPFLADLDTTDGLGKV
YYREDLSPSITQRAAECVHRGFPEISFQPSSAVVVTWESVAPYQGPSRDPDQKGKRNTFQ
AVLASSDSSSYAIFLYPEDGLQFHTTFSKKENNQVPAVVAFSQGSVGFLWKSNGAYNIFA
NDRESIENLAKSSNSGQQGVWVFEIGSPATTNGVVPADVILGTEDGAEYDDEDEDYDLAT
TRLGLEDVGTTPFSYKALRRGGADTYSVPSVLSPRRAATERPLGPPTERTRSFQLAVETF
HQQHPQVIDVDEVEETGVVFSYNTDSRQTCANNRHQCSVHAECRDYATGFCCSCVAGYTG
NGRQCVAEGSPQRVNGKVKGRIFVGSSQVPIVFENTDLHSYVVMNHGRSYTAISTIPETV
GYSLLPLAPVGGIIGWMFAVEQDGFKNGFSITGGEFTRQAEVTFVGHPGNLVIKQRFSGI
DEHGHLTIDTELEGRVPQIPFGSSVHIEPYTELYHYSTSVITSSSTREYTVTEPERDGAS
PSRIYTYQWRQTITFQECVHDDSRPALPSTQQLSVDSVFVLYNQEEKILRYAFSNSIGPV
REGSPDALQNPCYIGTHGCDTNAACRPGPRTQFTCECSIGFRGDGRTCYDIDECSEQPSV
CGSHTICNNHPGTFRCECVEGYQFSDEGTCVAVVDQRPINYCETGLHNCDIPQRAQCIYT
GGSSYTCSCLPGFSGDGQACQDVDECQPSRCHPDAFCYNTPGSFTCQCKPGYQGDGFRCV
PGEVEKTRCQHEREHILGAAGATDPQRPIPPGLFVPECDAHGHYAPTQCHGSTGYCWCVD
RDGREVEGTRTRPGMTPPCLSTVAPPIHQGPAVPTAVIPLPPGTHLLFAQTGKIERLPLE
GNTMRKTEAKAFLHVPAKVIIGLAFDCVDKMVYWTDITEPSIGRASLHGGEPTTIIRQDL
GSPEGIAVDHLGRNIFWTDSNLDRIEVAKLDGTQRRVLFETDLVNPRGIVTDSVRGNLYW
TDWNRDNPKIETSYMDGTNRRILVQDDLGLPNGLHFDAFSSQLCWVDAGTNRAECLNPSQ
PSRRKALEGLQYPFAVTSYGKNLYFTDWKMNSVVALDLAISKETDAFQPHKQTRLYGITT
ALSQCPQGHNYCSVNNGGCTHLCLATPGSRTCRCPDNTLGVDCIERK
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
coiled coil prediction for Tem11gi|128199|sp|P14543|NIDO_HUMAN
sequence: 1190 amino acids, 0 residue(s) in coiled coil state
. | . | . | . | . | . 60
MLASSSRIRA AWTRALLLPL LLAGPVGCLS RQELFPFGPG QGDLELEDGD DFVSPALELS
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
GALRFYDRSD IDAVYVTTNG IIATSEPPAK ESHPGLFPPT FGAVAPFLAD LDTTDGLGKV
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
YYREDLSPSI TQRAAECVHR GFPEISFQPS SAVVVTWESV APYQGPSRDP DQKGKRNTFQ
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
AVLASSDSSS YAIFLYPEDG LQFHTTFSKK ENNQVPAVVA FSQGSVGFLW KSNGAYNIFA
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
NDRESIENLA KSSNSGQQGV WVFEIGSPAT TNGVVPADVI LGTEDGAEYD DEDEDYDLAT
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
TRLGLEDVGT TPFSYKALRR GGADTYSVPS VLSPRRAATE RPLGPPTERT RSFQLAVETF
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
HQQHPQVIDV DEVEETGVVF SYNTDSRQTC ANNRHQCSVH AECRDYATGF CCSCVAGYTG
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
NGRQCVAEGS PQRVNGKVKG RIFVGSSQVP IVFENTDLHS YVVMNHGRSY TAISTIPETV
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
. | . | . | . | . | . 540
GYSLLPLAPV GGIIGWMFAV EQDGFKNGFS ITGGEFTRQA EVTFVGHPGN LVIKQRFSGI
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
DEHGHLTIDT ELEGRVPQIP FGSSVHIEPY TELYHYSTSV ITSSSTREYT VTEPERDGAS
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
PSRIYTYQWR QTITFQECVH DDSRPALPST QQLSVDSVFV LYNQEEKILR YAFSNSIGPV
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
REGSPDALQN PCYIGTHGCD TNAACRPGPR TQFTCECSIG FRGDGRTCYD IDECSEQPSV
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
CGSHTICNNH PGTFRCECVE GYQFSDEGTC VAVVDQRPIN YCETGLHNCD IPQRAQCIYT
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
GGSSYTCSCL PGFSGDGQAC QDVDECQPSR CHPDAFCYNT PGSFTCQCKP GYQGDGFRCV
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
PGEVEKTRCQ HEREHILGAA GATDPQRPIP PGLFVPECDA HGHYAPTQCH GSTGYCWCVD
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
RDGREVEGTR TRPGMTPPCL STVAPPIHQG PAVPTAVIPL PPGTHLLFAQ TGKIERLPLE
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
GNTMRKTEAK AFLHVPAKVI IGLAFDCVDK MVYWTDITEP SIGRASLHGG EPTTIIRQDL
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
. | . | . | . | . | . 1080
GSPEGIAVDH LGRNIFWTDS NLDRIEVAKL DGTQRRVLFE TDLVNPRGIV TDSVRGNLYW
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
TDWNRDNPKI ETSYMDGTNR RILVQDDLGL PNGLHFDAFS SQLCWVDAGT NRAECLNPSQ
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
. | . | . | . | . |
PSRRKALEGL QYPFAVTSYG KNLYFTDWKM NSVVALDLAI SKETDAFQPH
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~
---------- ---------- ---------- ---------- ----------
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
prediction of transmembrane regions with toppred2
***********************************
*TOPPREDM with eukaryotic function*
***********************************
tem11.___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: tem11.___inter___
(1 sequences)
MLASSSRIRAAWTRALLLPLLLAGPVGCLSRQELFPFGPGQGDLELEDGD
DFVSPALELSGALRFYDRSDIDAVYVTTNGIIATSEPPAKESHPGLFPPT
FGAVAPFLADLDTTDGLGKVYYREDLSPSITQRAAECVHRGFPEISFQPS
SAVVVTWESVAPYQGPSRDPDQKGKRNTFQAVLASSDSSSYAIFLYPEDG
LQFHTTFSKKENNQVPAVVAFSQGSVGFLWKSNGAYNIFANDRESIENLA
KSSNSGQQGVWVFEIGSPATTNGVVPADVILGTEDGAEYDDEDEDYDLAT
TRLGLEDVGTTPFSYKALRRGGADTYSVPSVLSPRRAATERPLGPPTERT
RSFQLAVETFHQQHPQVIDVDEVEETGVVFSYNTDSRQTCANNRHQCSVH
AECRDYATGFCCSCVAGYTGNGRQCVAEGSPQRVNGKVKGRIFVGSSQVP
IVFENTDLHSYVVMNHGRSYTAISTIPETVGYSLLPLAPVGGIIGWMFAV
EQDGFKNGFSITGGEFTRQAEVTFVGHPGNLVIKQRFSGIDEHGHLTIDT
ELEGRVPQIPFGSSVHIEPYTELYHYSTSVITSSSTREYTVTEPERDGAS
PSRIYTYQWRQTITFQECVHDDSRPALPSTQQLSVDSVFVLYNQEEKILR
YAFSNSIGPVREGSPDALQNPCYIGTHGCDTNAACRPGPRTQFTCECSIG
FRGDGRTCYDIDECSEQPSVCGSHTICNNHPGTFRCECVEGYQFSDEGTC
VAVVDQRPINYCETGLHNCDIPQRAQCIYTGGSSYTCSCLPGFSGDGQAC
QDVDECQPSRCHPDAFCYNTPGSFTCQCKPGYQGDGFRCVPGEVEKTRCQ
HEREHILGAAGATDPQRPIPPGLFVPECDAHGHYAPTQCHGSTGYCWCVD
RDGREVEGTRTRPGMTPPCLSTVAPPIHQGPAVPTAVIPLPPGTHLLFAQ
TGKIERLPLEGNTMRKTEAKAFLHVPAKVIIGLAFDCVDKMVYWTDITEP
SIGRASLHGGEPTTIIRQDLGSPEGIAVDHLGRNIFWTDSNLDRIEVAKL
DGTQRRVLFETDLVNPRGIVTDSVRGNLYWTDWNRDNPKIETSYMDGTNR
RILVQDDLGLPNGLHFDAFSSQLCWVDAGTNRAECLNPSQPSRRKALEGL
QYPFAVTSYGKNLYFTDWKMNSVVALDLAISKETDAFQPHKQTRLYGITT
ALSQCPQGHNYCSVNNGGCTHLCLATPGSRTCRCPDNTLGVDCIERK
(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 2 structures are to be tested
Candidate membrane-spanning segments:
Helix Begin End Score Certainity
1 11 31 1.122 Certain
2 91 111 1.174 Certain
3 213 233 0.927 Putative
4 480 500 1.798 Certain
5 775 795 1.105 Certain
6 931 951 1.163 Certain
----------------------------------------------------------------------
Structure 1
Transmembrane segments included in this structure:
Segment 1 2 3 4 5 6
Loop length 10 59 101 246 274 135 296
K+R profile 4.00 + + +
4.00 + +
CYT-EXT prof - 1.09 0.06 -0.29
- 0.87 -0.50
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 0.00
Tm probability: 0.82
-> Orientation: undecided
Charge-difference over N-terminal Tm (+-15 residues): 4.00
(NEG-POS)/(NEG+POS): -1.0000
NEG: 0.0000
POS: 3.0000
-> Orientation: N-in
CYT-EXT difference: 0.49
-> Orientation: N-out
----------------------------------------------------------------------
Structure 2
Transmembrane segments included in this structure:
Segment 1 2 4 5 6
Loop length 10 59 368 274 135 296
K+R profile 4.00 + +
4.00 + +
CYT-EXT prof - 1.22 -0.50
- 0.06 -0.29
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): 4.00
(NEG-POS)/(NEG+POS): -1.0000
NEG: 0.0000
POS: 3.0000
-> Orientation: N-in
CYT-EXT difference: 0.95
-> Orientation: N-out
----------------------------------------------------------------------
"tem11" 1247
11 31 #t 1.12187
91 111 #t 1.17396
213 233 #f 0.927083
480 500 #t 1.79792
775 795 #t 1.10521
931 951 #t 1.1625
************************************
*TOPPREDM with prokaryotic function*
************************************
tem11.___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: tem11.___inter___
(1 sequences)
MLASSSRIRAAWTRALLLPLLLAGPVGCLSRQELFPFGPGQGDLELEDGD
DFVSPALELSGALRFYDRSDIDAVYVTTNGIIATSEPPAKESHPGLFPPT
FGAVAPFLADLDTTDGLGKVYYREDLSPSITQRAAECVHRGFPEISFQPS
SAVVVTWESVAPYQGPSRDPDQKGKRNTFQAVLASSDSSSYAIFLYPEDG
LQFHTTFSKKENNQVPAVVAFSQGSVGFLWKSNGAYNIFANDRESIENLA
KSSNSGQQGVWVFEIGSPATTNGVVPADVILGTEDGAEYDDEDEDYDLAT
TRLGLEDVGTTPFSYKALRRGGADTYSVPSVLSPRRAATERPLGPPTERT
RSFQLAVETFHQQHPQVIDVDEVEETGVVFSYNTDSRQTCANNRHQCSVH
AECRDYATGFCCSCVAGYTGNGRQCVAEGSPQRVNGKVKGRIFVGSSQVP
IVFENTDLHSYVVMNHGRSYTAISTIPETVGYSLLPLAPVGGIIGWMFAV
EQDGFKNGFSITGGEFTRQAEVTFVGHPGNLVIKQRFSGIDEHGHLTIDT
ELEGRVPQIPFGSSVHIEPYTELYHYSTSVITSSSTREYTVTEPERDGAS
PSRIYTYQWRQTITFQECVHDDSRPALPSTQQLSVDSVFVLYNQEEKILR
YAFSNSIGPVREGSPDALQNPCYIGTHGCDTNAACRPGPRTQFTCECSIG
FRGDGRTCYDIDECSEQPSVCGSHTICNNHPGTFRCECVEGYQFSDEGTC
VAVVDQRPINYCETGLHNCDIPQRAQCIYTGGSSYTCSCLPGFSGDGQAC
QDVDECQPSRCHPDAFCYNTPGSFTCQCKPGYQGDGFRCVPGEVEKTRCQ
HEREHILGAAGATDPQRPIPPGLFVPECDAHGHYAPTQCHGSTGYCWCVD
RDGREVEGTRTRPGMTPPCLSTVAPPIHQGPAVPTAVIPLPPGTHLLFAQ
TGKIERLPLEGNTMRKTEAKAFLHVPAKVIIGLAFDCVDKMVYWTDITEP
SIGRASLHGGEPTTIIRQDLGSPEGIAVDHLGRNIFWTDSNLDRIEVAKL
DGTQRRVLFETDLVNPRGIVTDSVRGNLYWTDWNRDNPKIETSYMDGTNR
RILVQDDLGLPNGLHFDAFSSQLCWVDAGTNRAECLNPSQPSRRKALEGL
QYPFAVTSYGKNLYFTDWKMNSVVALDLAISKETDAFQPHKQTRLYGITT
ALSQCPQGHNYCSVNNGGCTHLCLATPGSRTCRCPDNTLGVDCIERK
(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 2 structures are to be tested
Candidate membrane-spanning segments:
Helix Begin End Score Certainity
1 11 31 1.122 Certain
2 91 111 1.174 Certain
3 213 233 0.927 Putative
4 480 500 1.798 Certain
5 775 795 1.105 Certain
6 931 951 1.163 Certain
----------------------------------------------------------------------
Structure 1
Transmembrane segments included in this structure:
Segment 1 2 3 4 5 6
Loop length 10 59 101 246 274 135 296
K+R profile 3.00 + + +
4.00 + +
CYT-EXT prof - 1.09 0.06 -0.29
- 0.87 -0.50
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: -1.00
Tm probability: 0.82
-> Orientation: N-out
Charge-difference over N-terminal Tm (+-15 residues): 4.00
(NEG-POS)/(NEG+POS): -1.0000
NEG: 0.0000
POS: 3.0000
-> Orientation: N-in
CYT-EXT difference: 0.49
-> Orientation: N-out
----------------------------------------------------------------------
Structure 2
Transmembrane segments included in this structure:
Segment 1 2 4 5 6
Loop length 10 59 368 274 135 296
K+R profile 3.00 + +
4.00 + +
CYT-EXT prof - 1.22 -0.50
- 0.06 -0.29
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: -1.00
Tm probability: 1.00
-> Orientation: N-out
Charge-difference over N-terminal Tm (+-15 residues): 4.00
(NEG-POS)/(NEG+POS): -1.0000
NEG: 0.0000
POS: 3.0000
-> Orientation: N-in
CYT-EXT difference: 0.95
-> Orientation: N-out
----------------------------------------------------------------------
"tem11" 1247
11 31 #t 1.12187
91 111 #t 1.17396
213 233 #f 0.927083
480 500 #t 1.79792
775 795 #t 1.10521
931 951 #t 1.1625
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
NOW EXECUTING: /bio_software/1D/stat/saps/saps-stroh/SAPS.SSPA/saps /people/maria/tem11.___saps___
SAPS. Version of April 11, 1996.
Date run: Thu Jan 18 20:21:05 2001
File: /people/maria/tem11.___saps___
ID Tem11gi|128199|sp|P14543|NIDO_HUMAN
DE NIDOGEN PRECURSOR (ENTACTIN)
number of residues: 1247; molecular weight: 136.5 kdal
1 MLASSSRIRA AWTRALLLPL LLAGPVGCLS RQELFPFGPG QGDLELEDGD DFVSPALELS
61 GALRFYDRSD IDAVYVTTNG IIATSEPPAK ESHPGLFPPT FGAVAPFLAD LDTTDGLGKV
121 YYREDLSPSI TQRAAECVHR GFPEISFQPS SAVVVTWESV APYQGPSRDP DQKGKRNTFQ
181 AVLASSDSSS YAIFLYPEDG LQFHTTFSKK ENNQVPAVVA FSQGSVGFLW KSNGAYNIFA
241 NDRESIENLA KSSNSGQQGV WVFEIGSPAT TNGVVPADVI LGTEDGAEYD DEDEDYDLAT
301 TRLGLEDVGT TPFSYKALRR GGADTYSVPS VLSPRRAATE RPLGPPTERT RSFQLAVETF
361 HQQHPQVIDV DEVEETGVVF SYNTDSRQTC ANNRHQCSVH AECRDYATGF CCSCVAGYTG
421 NGRQCVAEGS PQRVNGKVKG RIFVGSSQVP IVFENTDLHS YVVMNHGRSY TAISTIPETV
481 GYSLLPLAPV GGIIGWMFAV EQDGFKNGFS ITGGEFTRQA EVTFVGHPGN LVIKQRFSGI
541 DEHGHLTIDT ELEGRVPQIP FGSSVHIEPY TELYHYSTSV ITSSSTREYT VTEPERDGAS
601 PSRIYTYQWR QTITFQECVH DDSRPALPST QQLSVDSVFV LYNQEEKILR YAFSNSIGPV
661 REGSPDALQN PCYIGTHGCD TNAACRPGPR TQFTCECSIG FRGDGRTCYD IDECSEQPSV
721 CGSHTICNNH PGTFRCECVE GYQFSDEGTC VAVVDQRPIN YCETGLHNCD IPQRAQCIYT
781 GGSSYTCSCL PGFSGDGQAC QDVDECQPSR CHPDAFCYNT PGSFTCQCKP GYQGDGFRCV
841 PGEVEKTRCQ HEREHILGAA GATDPQRPIP PGLFVPECDA HGHYAPTQCH GSTGYCWCVD
901 RDGREVEGTR TRPGMTPPCL STVAPPIHQG PAVPTAVIPL PPGTHLLFAQ TGKIERLPLE
961 GNTMRKTEAK AFLHVPAKVI IGLAFDCVDK MVYWTDITEP SIGRASLHGG EPTTIIRQDL
1021 GSPEGIAVDH LGRNIFWTDS NLDRIEVAKL DGTQRRVLFE TDLVNPRGIV TDSVRGNLYW
1081 TDWNRDNPKI ETSYMDGTNR RILVQDDLGL PNGLHFDAFS SQLCWVDAGT NRAECLNPSQ
1141 PSRRKALEGL QYPFAVTSYG KNLYFTDWKM NSVVALDLAI SKETDAFQPH KQTRLYGITT
1201 ALSQCPQGHN YCSVNNGGCT HLCLATPGSR TCRCPDNTLG VDCIERK
--------------------------------------------------------------------------------
COMPOSITIONAL ANALYSIS (extremes relative to: swp23s)
A : 79( 6.3%); C : 50( 4.0%); D : 76( 6.1%); E : 73( 5.9%); F : 53( 4.3%)
G :113( 9.1%); H : 34( 2.7%); I : 56( 4.5%); K : 29( 2.3%); L : 81( 6.5%)
M- : 8( 0.6%); N : 45( 3.6%); P : 87( 7.0%); Q : 58( 4.7%); R : 73( 5.9%)
S : 93( 7.5%); T : 96( 7.7%); V : 86( 6.9%); W : 13( 1.0%); Y : 44( 3.5%)
KR : 102 ( 8.2%); ED : 149 ( 11.9%); AGP : 279 ( 22.4%);
KRED : 251 ( 20.1%); KR-ED : -47 ( -3.8%); FIKMNY : 235 ( 18.8%);
LVIFM : 284 ( 22.8%); ST : 189 ( 15.2%).
--------------------------------------------------------------------------------
CHARGE DISTRIBUTIONAL ANALYSIS
1 000000+0+0 000+000000 0000000000 +0-0000000 00-0-0--0- -000000-00
61 000+00-+0- 0-00000000 00000-000+ -000000000 000000000- 0-00-000+0
121 00+--00000 00+00-000+ 000-000000 0000000-00 0000000+-0 -0+0++0000
181 000000-000 0000000--0 00000000++ -000000000 0000000000 +000000000
241 0-+-00-000 +000000000 000-000000 0000000-00 000--00-0- -----0-000
301 0+000--000 00000+00++ 000-000000 0000++000- +000000-+0 +000000-00
361 00000000-0 --0--00000 0000-0+000 000+000000 0-0+-00000 0000000000
421 00+0000-00 00+000+0+0 +000000000 000-00-000 0000000+00 0000000-00
481 0000000000 0000000000 -0-00+0000 0000-00+00 -000000000 000+0+0000
541 --000000-0 -0-0+00000 0000000-00 0-00000000 000000+-00 00-0-+-000
601 00+000000+ 000000-000 --0+000000 00000-0000 0000--+00+ 0000000000
661 +-000-0000 000000000- 00000+000+ 00000-0000 0+0-0+000- 0--00-0000
721 0000000000 0000+0-00- 00000--000 0000-0+000 00-000000- 000+000000
781 0000000000 00000-0000 0-0--0000+ 000-000000 00000000+0 0000-00+00
841 00-0-+0+00 0-+-000000 000-00+000 000000-0-0 0000000000 000000000-
901 +-0+-0-00+ 0+00000000 0000000000 0000000000 0000000000 00+0-+000-
961 0000++0-0+ 0000000+00 00000-00-+ 00000-00-0 000+000000 -00000+0-0
1021 000-0000-0 00+00000-0 00-+0-00+0 -000++000- 0-0000+000 0-00+00000
1081 0-00+-00+0 -0000-000+ +0000--000 000000-000 000000-000 0+0-000000
1141 00+++00-00 0000000000 +00000-0+0 000000-000 0+-0-00000 +00+000000
1201 0000000000 0000000000 000000000+ 00+00-0000 0-00-++
A. CHARGE CLUSTERS.
Positive charge clusters (cmin = 9/30 or 11/45 or 14/60): none
Negative charge clusters (cmin = 11/30 or 15/45 or 18/60):
1) From 278 to 307: DVILGTEDGAEYDDEDEDYDLATTRLGLED
-00000--00-0------0-0000+000--
quartile: 1; size: 30, +count: 1, -count: 13, 0count: 16; t-value: 4.74 *
L: 4 (13.3%); G: 3 (10.0%); E: 5 (16.7%); T: 3 (10.0%);
D: 8 (26.7%);
Mixed charge clusters (cmin = 15/30 or 21/45 or 26/60): none
B. HIGH SCORING (UN)CHARGED SEGMENTS.
There are no high scoring positive charge segments.
______________________________________
High scoring negative charge segments:
score= 2.00 frequency= 0.119 ( ED )
score= 0.00 frequency= 0.000 ( BZX )
score= -1.00 frequency= 0.799 ( LAGSVTIPNFQYHMCW )
score= -2.00 frequency= 0.082 ( KR )
Expected score/letter: -0.723
M_0.01= 12.54; M_0.05= 10.60
1) From 278 to 297: length= 20, score=13.00 **
278 DVILGTEDGA EYDDEDEDYD
G: 2(10.0%); E: 4(20.0%); D: 7(35.0%); Y: 2(10.0%);
There are no high scoring mixed charge segments.
There are no high scoring uncharged segments.
C. CHARGE RUNS AND PATTERNS.
pattern (+)| (-)| (*)| (0)| (+0)| (-0)| (*0)|(+00)|(-00)|(*00)| (H.)|(H..)|
lmin0 5 | 5 | 7 | 45 | 9 | 11 | 13 | 11 | 13 | 16 | 7 | 10 |
lmin1 6 | 7 | 9 | 54 | 11 | 13 | 16 | 14 | 16 | 20 | 9 | 12 |
lmin2 7 | 8 | 10 | 60 | 13 | 15 | 18 | 16 | 18 | 22 | 10 | 13 |
(Significance level: 0.010000; Minimal displayed length: 6)
(-) 6(0,0,0); at 290- 295: DDEDED
(1. quartile) ------
Run count statistics:
+ runs >= 3: 1, at 1143;
- runs >= 4: 1, at 290;
* runs >= 5: 1, at 290;
0 runs >= 30: 2, at 913; 1195;
--------------------------------------------------------------------------------
DISTRIBUTION OF OTHER AMINO ACID TYPES
1. HIGH SCORING SEGMENTS.
There are no high scoring hydrophobic segments.
____________________________________
High scoring transmembrane segments:
5.00 (LVIF) 2.00 (AGM) 0.00 (BZX) -1.00 (YCW) -2.00 (ST)
-6.00 (P) -8.00 (H) -10.00 (NQ) -16.00 (KR) -17.00 (ED)
Expected score/letter: -3.764
M_0.01= 57.59; M_0.05= 48.42; M_0.30= 37.50
1) From 480 to 500: length= 21, score=43.00
480 VGYSLLPLAP VGGIIGWMFA V
L: 3(14.3%); G: 4(19.0%); V: 3(14.3%);
2. SPACINGS OF C.
H2N-27-C-108-C-252-C-6-C-5-C-7-C-C-1-C-10-C-192-C-53-C-6-C-5-C-9-C-1-C-10-C-5-C-6-C-5-C-8-C-1-C-11-C-11-C-6-C-7-C-9-C-1-C-10-C-5-C-4-C-5-C-8-C-1-C-10-C-9-C-28-C-10-C-6-C-1-C-20-C-67-C-136-C-10-C-69-C-6-C-6-C-3-C-8-C-1-C-8-C-4-COOH
2*. SPACINGS OF C and H. (additional deluxe function for ALEX)
H2N-27-C-64-H-43-C-1-H-64-H-156-H-2-H-25-C-4-H-1-C-2-H-2-C-7-C-C-1-C-10-C-33-H-6-H-60-H-15-H-1-H-20-H-8-H-42-C-1-H-51-C-4-H-1-C-5-C-9-C-1-C-10-C-5-C-6-C-2-H-2-C-2-H-5-C-1-C-11-C-11-C-4-H-1-C-7-C-9-C-1-C-10-C-5-C-4-C-H-4-C-8-C-1-C-10-C-9-C-1-H-3-H-22-C-2-H-1-H-5-C-H-5-C-1-C-20-C-8-H-16-H-28-H-12-C-20-H-21-H-84-H-8-C-10-C-54-H-14-C-3-H-2-C-6-C-1-H-1-C-8-C-1-C-8-C-4-COOH
--------------------------------------------------------------------------------
REPETITIVE STRUCTURES.
A. SEPARATED, TANDEM, AND PERIODIC REPEATS: amino acid alphabet.
Repeat core block length: 5
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
Aligned matching blocks:
[1045-1046]-( 4)-[1051-1063]-( 4)-[1068-1069]
[1090-1091]-( 4)-[1096-1108]-( 4)-[1113-1114]
[1051-1063] -son++iii-o-i
[1096-1108] -son++iiin--i
--------------------------------------------------------------------------------
MULTIPLETS.
A. AMINO ACID ALPHABET.
1. Total number of amino acid multiplets: 72 (Expected range: 45-- 94)
2. Histogram
of spacings between consecutive amino acid multiplets:
(1-5) 23 (6-10) 10 (11-20) 18 (>=21) 22
3. Clusters of amino acid multiplets (cmin = 11/30 or 14/45 or 16/60): none
B. CHARGE ALPHABET.
1. Total number of charge multiplets: 25 (Expected range: 8-- 38)
9 +plets (f+: 8.2%), 16 -plets (f-: 11.9%)
Total number of charge altplets: 23 (Critical number: 41)
2. Histogram of spacings between consecutive charge multiplets:
(1-5) 5 (6-10) 1 (11-20) 3 (>=21) 17
3. Long charge multiplets (>= 5; Letter/Length/Position):
-/6/290
--------------------------------------------------------------------------------
PERIODICITY ANALYSIS.
A. AMINO ACID ALPHABET (core: 4; !-core: 5)
Location Period Element Copies Core Errors
16- 23 2 L. 4 4 0
291- 298 2 D. 4 4 0
578- 593 4 T... 4 4 0
918- 949 8 P....... 4 4 0
B. CHARGE ALPHABET ({+= KR; -= ED; 0}; core: 5; !-core: 7)
and HYDROPHOBICITY ALPHABET ({*= KRED; i= LVIF; 0}; core: 6; !-core: 9)
Location Period Element Copies Core Errors
8- 61 9 i.0....0. 6 6 /0/./2/././././2/./
290- 295 1 - 6 6 0
516- 563 8 i..00.00 6 6 /0/././2/2/./2/2/
--------------------------------------------------------------------------------
SPACING ANALYSIS.
Location (Quartile) Spacing Rank P-value Interpretation
35- 37 (1.) F( 2)F 54 of 54 0.0082 large minimal spacing
137- 390 (1.) C( 253)C 1 of 51 0.0005 large 1. maximal spacing
425- 618 (2.) C( 193)C 2 of 51 0.0000 large 2. 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: tem11
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR (ENTACTIN)
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
ldl_recept_b Low-density lipoprotein receptor repe 134.7 1.7e-36 3
thyroglobulin_1 Thyroglobulin type-1 repeat 121.6 1.4e-32 1
EGF EGF-like domain 110.1 4.2e-29 6
FGF Fibroblast growth factor 1.4 28 1
NHL NHL repeat 1.1 38 1
IGFBP Insulin-like growth factor binding pr 1.0 58 1
Asn_synthase Asparagine synthase 0.8 27 1
Transpo_mutator Transposase, Mutator family -1.0 87 1
UL42 DNA polymerase processivity factor (U -1.0 71 1
TNFR_c6 TNFR/NGFR cysteine-rich region -1.6 12 1
Androgen_recep Androgen receptor -1.7 36 1
flu_virus_nuc Influenza virus nucleoprotein -2.1 64 1
Arthro_defensin Arthropod defensin -6.6 87 1
metalthio Metallothionein -8.9 5 1
EB EB module -9.9 1.9 1
ldl_recept_a Low-density lipoprotein receptor doma -10.7 10 1
sushi Sushi domain (SCR repeat) -11.6 71 1
zf-CXXC CXXC zinc finger -16.6 69 1
laminin_EGF Laminin EGF-like (Domains III and V) -21.5 38 1
TIL Trypsin Inhibitor like cysteine rich -27.0 91 1
Transposase_1 Transposase -44.7 76 1
Keratin_B2 Keratin, high sulfur B2 protein -93.5 41 1
DUF39 Domain of unknown function DUF39 -189.3 91 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Transpo_mutator 1/1 28 53 .. 1 28 [. -1.0 87
Androgen_recep 1/1 116 135 .. 1 17 [. -1.7 36
Asn_synthase 1/1 113 143 .. 386 417 .. 0.8 27
flu_virus_nuc 1/1 250 298 .. 451 498 .] -2.1 64
DUF39 1/1 48 319 .. 1 336 [] -189.3 91
Arthro_defensin 1/1 387 415 .. 1 36 [] -6.6 87
EGF 1/6 390 425 .. 1 45 [] 23.7 0.0044
UL42 1/1 598 633 .. 122 161 .. -1.0 71
IGFBP 1/1 672 705 .. 1 37 [. 1.0 58
EGF 2/6 672 708 .. 1 45 [] 28.9 0.00011
EGF 3/6 714 750 .. 1 45 [] 26.3 0.0007
ldl_recept_a 1/1 719 752 .. 1 43 [] -10.7 10
TIL 1/1 685 762 .. 1 67 [] -27.0 91
EGF 4/6 769 800 .. 1 45 [] 23.7 0.0043
zf-CXXC 1/1 763 811 .. 1 48 [] -16.6 69
Keratin_B2 1/1 654 814 .. 1 177 [] -93.5 41
sushi 1/1 762 817 .. 1 62 [] -11.6 71
EB 1/1 780 839 .. 1 56 [] -9.9 1.9
EGF 5/6 806 839 .. 1 45 [] 31.1 2.5e-05
metalthio 1/1 772 841 .. 1 67 [] -8.9 5
laminin_EGF 1/1 806 849 .. 1 59 [] -21.5 38
TNFR_c6 1/1 828 853 .. 1 42 [] -1.6 12
FGF 1/1 901 916 .. 121 138 .. 1.4 28
thyroglobulin_1 1/1 849 919 .. 1 81 [] 121.6 1.4e-32
ldl_recept_b 1/3 990 1031 .. 1 47 [] 48.7 1.3e-10
NHL 1/1 1020 1048 .. 1 29 [] 1.1 38
ldl_recept_b 2/3 1033 1074 .. 1 47 [] 50.0 5.1e-11
Transposase_1 1/1 1029 1101 .. 1 84 [] -44.7 76
ldl_recept_b 3/3 1076 1119 .. 1 47 [] 37.6 2.9e-07
EGF 6/6 1212 1243 .. 1 45 [] 16.6 0.6
Alignments of top-scoring domains:
Transpo_mutator: domain 1 of 1, from 28 to 53: score -1.0, E = 87
*->mtedellallealdalldneldgiddll<-*
++++l+++++++++l el+++dd++
Tem11gi|12 28 CLSRQELFPFGPGQGDL--ELEDGDDFV 53
Androgen_recep: domain 1 of 1, from 116 to 135: score -1.7, E = 36
*->GLGRvYPR...PPsKtYRGA<-*
GLG+vY R++ Ps t R A
Tem11gi|12 116 GLGKVYYRedlSPSITQRAA 135
Asn_synthase: domain 1 of 1, from 113 to 143: score 0.8, E = 27
*->ttytKeayyyRkifeelfPsekvallvkkgfP<-*
tt + +++yyR+ + + + + ++a+ v++gfP
Tem11gi|12 113 TTDGLGKVYYREDLSPSITQ-RAAECVHRGFP 143
flu_virus_nuc: domain 1 of 1, from 250 to 298: score -2.1, E = 64
*->AkpedvsFqGRGvFELsDEKAtnPivPs.FDmsnEGsYFFGDnAEEy
Ak+ + qG vFE+ tn +vP++ + E + D E+y
Tem11gi|12 250 AKSSNSGQQGVWVFEIGSPATTNGVVPAdVILGTEDGAEYDDEDEDY 296
Dn<-*
D
Tem11gi|12 297 DL 298
DUF39: domain 1 of 1, from 48 to 319: score -189.3, E = 91
*->eGeavVvTAdEmkkiVrelGeekaAdeVDVVTTgTfGaMsSsgAvin
+G+ V A E+ r + +d V V T g
Tem11gi|12 48 DGDDFVSPALELSGALRF-YDRSDIDAVYVTTNGI------------ 81
lghsdPpsfiKmervyLNgieAYaGiCPNEfLgaVDayiGaTqpsedpdv
+ s+Pp K e +G P f gaV ++ + +d
Tem11gi|12 82 IATSEPP--AK---------ESHPGLFPPTF-GAVAPFLAD---LDTTD- 115
gdnPneGdGvleyGGghvieDL...vkGkeVElrAtsyGTDCYprkeve.
G G + y eDL++++ + E + + +p ++
Tem11gi|12 116 ------GLGKVYYR-----EDLspsITQRAAECVHRG-----FPEISFQp 149
...teItlDdinqAvmvnp.........RnaYqnYtAavNsseellyTym
++ +++t + + A +p+++++++++Rn +q A+ ss+ y ++
Tem11gi|12 150 ssaVVVTWESV--APYQGPsrdpdqkgkRNTFQ---AVLASSDSSSYAIF 194
gtLlpPenyGnvsfSGcGelnPLeNDviPetksfetigiGTrifL...nG
L p ++ f + + eN +P + +G fL ++nG
Tem11gi|12 195 --LYP---EDGLQFHTT--FSKKENNQVP---AVVAFSQGSVGFLwksNG 234
AegyilGEGTqhsplqkRlphvPippkgtLMlkGDlKdMdpeYirGAflp
A + + + s ++ +L+ + + + G +
Tem11gi|12 235 AYNIFAND--RES-----------IE--NLAKSSNSGQ------QGVWVF 263
ryG.peLyvgigvPIPV...lnekvaealavlDeDIelpvvDfgvprRdR
G+p +g+ vP V +++ ++ DeD l g
Tem11gi|12 264 EIGsPATTNGV-VPADVilgTEDG--AEYDDEDEDYDLATTRLGLEDV-- 308
PvikevtYeelw<-*
+ +Y+ l+
Tem11gi|12 309 -GTTPFSYKALR 319
Arthro_defensin: domain 1 of 1, from 387 to 415: score -6.6, E = 87
*->gkgcpvNhsaCaaHClakGGrrGGyCnglkavCvCR<-*
+++c+ N+ +C H + ++ G C + C+
Tem11gi|12 387 RQTCANNRHQCSVHAECRD-YATGFCCS------CV 415
EGF: domain 1 of 6, from 390 to 425: score 23.7, E = 0.0044
*->Capnn.pCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<
Ca n + Cs +++C+++ g+ C C G + ++G++C
Tem11gi|12 390 CANNRhQCSVHAECRDYAT-------GFCCSCVAG---YTGNGRQC 425
-*
Tem11gi|12 - -
UL42: domain 1 of 1, from 598 to 633: score -1.0, E = 71
*->GepPsRlLt....QtvyfardqtEEDGdaGslasGatvqvvaal<-*
G++PsR+ t + +Qt++f+ +++ ++s + ++ +l
Tem11gi|12 598 GASPSRIYTyqwrQTITFQ--------ECVHDDSRPALPSTQQL 633
IGFBP: domain 1 of 1, from 672 to 705: score 1.0, E = 58
*->CprPcGGpCpaerlarCpPgPpvaPpaecaelvredG<-*
C +C+ a+C+PgP ec + r dG
Tem11gi|12 672 C-YIGTHGCDTN--AACRPGPRTQFTCECSIGFRGDG 705
EGF: domain 2 of 6, from 672 to 708: score 28.9, E = 0.00011
*->Capnn.pCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<
C ++++C+ ++ C+++p+ + +tCeC G + ++G++C
Tem11gi|12 672 CYIGThGCDTNAACRPGPR------TQFTCECSIG---FRGDGRTC 708
-*
Tem11gi|12 - -
EGF: domain 3 of 6, from 714 to 750: score 26.3, E = 0.0007
*->Capnn.pCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<
C++++++C + +C+n pg +++CeC +G y + +C
Tem11gi|12 714 CSEQPsVCGSHTICNNHPG-------TFRCECVEG--YQFSDEGTC 750
-*
Tem11gi|12 - -
ldl_recept_a: domain 1 of 1, from 719 to 752: score -10.7, E = 10
*->stCggpdeFqCgsgrrCIprswvCDGdpDCe...DGSDEslenCaa<
s Cg ++ C+++ ++C +C ++ SDE +C+a
Tem11gi|12 719 SVCG-SHTI-CNNHP----GTFRC----ECVegyQFSDE--GTCVA 752
-*
Tem11gi|12 - -
TIL: domain 1 of 1, from 685 to 762: score -27.0, E = 91
*->Cpa.neqyteCgpsCe.......psCsnpdgplettppCegtSpkvP
C ++ + +C C + ++++++C ++d+ e + +C++ +
Tem11gi|12 685 CRPgPRTQFTCE--CSigfrgdgRTCYDIDECSEQPSVCGS-----H 724
stCk..eg...CvCqpGyVrnndgdkCV......prseC<-*
+C +++g+ +C+C +Gy +++ g +CV +++p++ C
Tem11gi|12 725 TICNnhPGtfrCECVEGYQFSDEG-TCVavvdqrPINYC 762
EGF: domain 4 of 6, from 769 to 800: score 23.7, E = 0.0043
*->CapnnpCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<-
C+ + ++++C++t+g ++ytC C pG +s++G C
Tem11gi|12 769 CDIP----QRAQCIYTGG------SSYTCSCLPG---FSGDGQAC 800
*
Tem11gi|12 - -
zf-CXXC: domain 1 of 1, from 763 to 811: score -16.6, E = 69
*->kngrkrRrCGvCevCqrpeDC....GkCkaCkDkpKFGGsnrkKQ..
+ g + C + qr C ++G+ C p F G +++ Q+
Tem11gi|12 763 ETGLHN-----CDIPQRA-QCiytgGSSYTCSCLPGFSGDGQACQdv 803
.aCkkRrC<-*
+ C+ rC
Tem11gi|12 804 dECQPSRC 811
Keratin_B2: domain 1 of 1, from 654 to 814: score -93.5, E = 41
*->qtScCGfptCStlgtrPsCGsscCQPsCCeSCCQpsCcqp.SC....
++S G+ ++++ + +Q p++++++ C+++
Tem11gi|12 654 SNSI-GP--VREGS------PDALQN--------PCYIGThGCdtna 683
.CqPtcsqtscCqPtcfqs............sCC.rPsCc..qTSCCqPt
C+P ++ C+ c+ ++++++ + + C ++Ps c++ T C
Tem11gi|12 684 aCRPGPRTQFTCE--CSIGfrgdgrtcydidECSeQPSVCgsHTICNNHP 731
CcqsssCqtgCgigGsiGyGQeGsSGAvScrirWCRPdCrvegtClPpCC
+ C +g + + eG Av + RP+ ++e t l C
Tem11gi|12 732 GTFRCECVEGYQFS------DEGTCVAVVDQ----RPINYCE-TGLHNCD 770
vv...sCtaPTCCqpvsaQasCCRPsCqPyCgq.sCCRPaCccsvtCtrT
++++ C + +s +s C P + g +++C+ + c++
Tem11gi|12 771 IPqraQCIYT---GGSSYTCS-CLPG---FSGDgQACQDVDECQP----S 809
ccePc<-*
+c P
Tem11gi|12 810 RCHPD 814
sushi: domain 1 of 1, from 762 to 817: score -11.6, E = 71
*->CppPdieNGrvsss..gtyeypvGdtvtytCneGYrlvG...sssit
C + N ++ + + y+ G++ t +C++G++ G+ ++
Tem11gi|12 762 CE-TGLHNCDIPQRaqCIYTG--GSSYTCSCLPGFSGDGqacQDVDE 805
CtedggGgWsppllGelPkC<-*
C++ + +p C
Tem11gi|12 806 CQPS---RCHPD-----AFC 817
EB: domain 1 of 1, from 780 to 839: score -9.9, E = 1.9
*->CpsgqVevnGeCvk.kvaiGetGClaseQCpgr..wpGSqCidg...
+g +++ C+++ + G++ C+ + C+ ++ +p + C++ +++
Tem11gi|12 780 --TGGSSYTCSCLPgFSGDGQA-CQDVDECQPSrcHPDAFCYNTpgs 823
.mCqCpeGftavnGvC<-*
+CqC++G+ ++ +C
Tem11gi|12 824 fTCQCKPGYQGDGFRC 839
EGF: domain 5 of 6, from 806 to 839: score 31.1, E = 2.5e-05
*->CapnnpCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<-
C+p C+ +++C ntpg ++tC+C+pG ++++G rC
Tem11gi|12 806 CQPS-RCHPDAFCYNTPG-------SFTCQCKPG---YQGDGFRC 839
*
Tem11gi|12 - -
metalthio: domain 1 of 1, from 772 to 841: score -8.9, E = 5
*->mDPqnCsCatgg....sCtCgtsCkCknCkCtsCkKs.ccsCcP.ag
Pq +C+ +g+++ +C+C + ++ + C++ ++ + C P+a
Tem11gi|12 772 --PQRAQCIYTGgssyTCSCLPGFSGDGQACQDVDECqPSRCHPdAF 816
C..skCaqgCvCkgggaasetskCsCCa<-*
C ++ + +C Ck g + + +C +
Tem11gi|12 817 CynTPGSFTCQCKP-GYQGD--GFRCVP 841
laminin_EGF: domain 1 of 1, from 806 to 849: score -21.5, E = 38
*->CdCnphGslsddtCdsddelf.geetGqClkCkpnvtGrrCdrCkpG
C+ ++C++d+ ++++ + C+ Ckp+++G+ rC pG
Tem11gi|12 806 CQ----P----SRCHPDAFCYnTPGSFTCQ-CKPGYQGDG-FRCVPG 842
yyglpsgdpgqgC<-*
C
Tem11gi|12 843 EV-----EKT-RC 849
TNFR_c6: domain 1 of 1, from 828 to 853: score -1.6, E = 12
*->CeegvtYtdenhleqClsCsrCepemGqvlvspCtatqnTvC<-*
C++g Y+ + ++C p G+v++++C++ +
Tem11gi|12 828 CKPG--YQGDG--FRC------VP--GEVEKTRCQHER---- 853
FGF: domain 1 of 1, from 901 to 916: score 1.4, E = 28
*->kkGrpkrGsisKTrphqK<-*
++Gr ++G+ +Trp+++
Tem11gi|12 901 RDGREVEGT--RTRPGMT 916
thyroglobulin_1: domain 1 of 1, from 849 to 919: score 121.6, E = 1.4e-32
*->CqrelervleslaaeqlkteehlesprglYvPnCdenGfYkpvQCdp
Cq+e+e++l++++a++++ ++ p+gl+vP+Cd++G+Y+p QC++
Tem11gi|12 849 CQHEREHILGAAGATDPQ----RPIPPGLFVPECDAHGHYAPTQCHG 891
SlggqrGeCWCVDaetGkelpGtrdvgGetPprC<-*
++G+CWCVD++ G+e++Gtr++ G+t p C
Tem11gi|12 892 ----STGYCWCVDRD-GREVEGTRTRPGMT-PPC 919
ldl_recept_b: domain 1 of 3, from 990 to 1031: score 48.7, E = 1.3e-10
*->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi
+ +YWtD ++ si++a l+G++ t++++d l +P+gIavD+
Tem11gi|12 990 KMVYWTDITEP---SIGRASLHGGEPTTIIRQD--LGSPEGIAVDHL 1031
<-*
Tem11gi|12 - -
NHL: domain 1 of 1, from 1020 to 1048: score 1.1, E = 38
*->fdrPrGvavdpsdGq.ivVaDsenhriqvF<-*
+ +P+G+avd ++G++i +Ds+ ri v
Tem11gi|12 1020 LGSPEGIAVD-HLGRnIFWTDSNLDRIEVA 1048
ldl_recept_b: domain 2 of 3, from 1033 to 1074: score 50.0, E = 5.1e-11
*->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi
++++WtDs+l+ +i+va+l+G+ rr+lf d l +P+gI+ D +
Tem11gi|12 1033 RNIFWTDSNLD---RIEVAKLDGTQRRVLFETD--LVNPRGIVTDSV 1074
<-*
Tem11gi|12 - -
Transposase_1: domain 1 of 1, from 1029 to 1101: score -44.7, E = 76
*->yyYdpENpkRkksWvdpGepapstpKpnlhgkKvMLcVWWDqkGvih
d R+ W d + + ++K + +++ v+
Tem11gi|12 1029 ---D--HLGRNIFWTDSNLDRIEVAKLDGTQRRVL----------FE 1060
yELLppGeTIn....aelYcqQLdrLkqalaeKRPelanRk<-*
+L++p+ ++++ +++lY + +r + +++ + nR+
Tem11gi|12 1061 TDLVNPRGIVTdsvrGNLYWTDWNRDNPKIETSYMDGTNRR 1101
ldl_recept_b: domain 3 of 3, from 1076 to 1119: score 37.6, E = 2.9e-07
*->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi
g+lYWtD++ + ++i+ ++G++rr+l+++d l Png+ D +
Tem11gi|12 1076 GNLYWTDWNRDN-PKIETSYMDGTNRRILVQDD--LGLPNGLHFDAF 1119
<-*
Tem11gi|12 - -
EGF: domain 6 of 6, from 1212 to 1243: score 16.6, E = 0.6
*->Capnn.pCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<
C+ nn++C + C+ tpg + tC+Cp G +C
Tem11gi|12 1212 CSVNNgGCTH--LCLATPG-------SRTCRCPDN-----TLGVDC 1243
-*
Tem11gi|12 - -
//
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: tem11
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR (ENTACTIN)
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
ldl_recept_b Low-density lipoprotein receptor repe 130.4 3.3e-35 4
thyroglobulin_1 Thyroglobulin type-1 repeat 119.8 5.2e-32 1
EGF EGF-like domain 99.7 1.9e-26 6
NHL NHL repeat 6.0 7.6 2
TNFR_c6 TNFR/NGFR cysteine-rich region 2.1 43 1
FGF Fibroblast growth factor 1.4 28 1
G_Adapt_CT Gamma-adaptin, C-terminus 1.3 50 1
dsrm Double-stranded RNA binding motif 1.2 84 1
IGFBP Insulin-like growth factor binding pr 1.0 58 1
Ribosomal_S7 Ribosomal protein S7p/S5e 0.9 21 1
DUF15 Domain of unknown function DUF15 0.9 36 1
Asn_synthase Asparagine synthase 0.8 27 1
ANATO Anaphylotoxin-like domain 0.5 14 1
RNA_helicase RNA helicase 0.4 42 1
Arthro_defensin Arthropod defensin 0.3 66 1
Transpo_mutator Transposase, Mutator family -1.0 87 1
UL42 DNA polymerase processivity factor (U -1.0 71 1
Androgen_recep Androgen receptor -1.7 36 1
flu_virus_nuc Influenza virus nucleoprotein -2.1 64 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Transpo_mutator 1/1 28 53 .. 1 28 [. -1.0 87
Androgen_recep 1/1 116 135 .. 1 17 [. -1.7 36
Asn_synthase 1/1 113 143 .. 386 417 .. 0.8 27
G_Adapt_CT 1/1 184 221 .. 1 47 [. 1.3 50
DUF15 1/1 211 229 .. 83 103 .. 0.9 36
RNA_helicase 1/1 226 251 .. 1 26 [. 0.4 42
flu_virus_nuc 1/1 250 298 .. 451 498 .] -2.1 64
Ribosomal_S7 1/1 316 336 .. 79 99 .. 0.9 21
Arthro_defensin 1/1 387 400 .. 1 14 [. 0.3 66
EGF 1/6 390 425 .. 1 45 [] 21.9 0.00017
UL42 1/1 598 633 .. 122 161 .. -1.0 71
IGFBP 1/1 672 705 .. 1 37 [. 1.0 58
dsrm 1/1 686 707 .. 28 58 .. 1.2 84
EGF 2/6 672 708 .. 1 45 [] 27.2 5.7e-06
EGF 3/6 714 750 .. 1 45 [] 24.6 3.2e-05
EGF 4/6 769 800 .. 1 45 [] 22.0 0.00017
ANATO 1/1 784 803 .. 13 32 .. 0.5 14
EGF 5/6 806 839 .. 1 45 [] 29.4 1.3e-06
TNFR_c6 1/1 838 853 .. 21 38 .. 2.1 43
FGF 1/1 901 916 .. 121 138 .. 1.4 28
thyroglobulin_1 1/1 849 919 .. 1 81 [] 119.8 5.2e-32
ldl_recept_b 1/4 990 1031 .. 1 47 [] 46.8 1.6e-11
NHL 1/2 1020 1033 .. 1 15 [. 4.5 20
ldl_recept_b 2/4 1033 1074 .. 1 47 [] 48.2 6.6e-12
NHL 2/2 1063 1087 .. 1 24 [. 1.6 1.4e+02
ldl_recept_b 3/4 1076 1119 .. 1 47 [] 35.6 2.2e-08
ldl_recept_b 4/4 1161 1169 .. 1 9 [. 2.5 45
EGF 6/6 1212 1243 .. 1 45 [] 14.9 0.016
Alignments of top-scoring domains:
Transpo_mutator: domain 1 of 1, from 28 to 53: score -1.0, E = 87
*->mtedellallealdalldneldgiddll<-*
++++l+++++++++l el+++dd++
Tem11gi|12 28 CLSRQELFPFGPGQGDL--ELEDGDDFV 53
Androgen_recep: domain 1 of 1, from 116 to 135: score -1.7, E = 36
*->GLGRvYPR...PPsKtYRGA<-*
GLG+vY R++ Ps t R A
Tem11gi|12 116 GLGKVYYRedlSPSITQRAA 135
Asn_synthase: domain 1 of 1, from 113 to 143: score 0.8, E = 27
*->ttytKeayyyRkifeelfPsekvallvkkgfP<-*
tt + +++yyR+ + + + + ++a+ v++gfP
Tem11gi|12 113 TTDGLGKVYYREDLSPSITQ-RAAECVHRGFP 143
G_Adapt_CT: domain 1 of 1, from 184 to 221: score 1.3, E = 50
*->PsvspaaeknaaipsttvyesngLkIeftftregppespevlvitat
++s+++ + + +y +gL++ +tf++ e+++v ++a+
Tem11gi|12 184 -ASSDSS-----SYAIFLYPEDGLQFHTTFSK---KENNQVPAVVAF 221
<-*
Tem11gi|12 - -
DUF15: domain 1 of 1, from 211 to 229: score 0.9, E = 36
*->drerddiPilgiNtGGhLGFL<-*
++ ++++ +++++ G ++GFL
Tem11gi|12 211 EN-NQVPAVVAFSQG-SVGFL 229
RNA_helicase: domain 1 of 1, from 226 to 251: score 0.4, E = 42
*->lgwlkkfnegceaakglewsaltifk<-*
g+l+k n++++ + ++ s+ +++k
Tem11gi|12 226 VGFLWKSNGAYNIFANDRESIENLAK 251
flu_virus_nuc: domain 1 of 1, from 250 to 298: score -2.1, E = 64
*->AkpedvsFqGRGvFELsDEKAtnPivPs.FDmsnEGsYFFGDnAEEy
Ak+ + qG vFE+ tn +vP++ + E + D E+y
Tem11gi|12 250 AKSSNSGQQGVWVFEIGSPATTNGVVPAdVILGTEDGAEYDDEDEDY 296
Dn<-*
D
Tem11gi|12 297 DL 298
Ribosomal_S7: domain 1 of 1, from 316 to 336: score 0.9, E = 21
*->rsrRvGGGttyqVPveVrpdR<-*
++ R+GG+ ty VP+ +p+R
Tem11gi|12 316 KALRRGGADTYSVPSVLSPRR 336
Arthro_defensin: domain 1 of 1, from 387 to 400: score 0.3, E = 66
*->gkgcpvNhsaCaaH<-*
+++c+ N+ +C H
Tem11gi|12 387 RQTCANNRHQCSVH 400
EGF: domain 1 of 6, from 390 to 425: score 21.9, E = 0.00017
*->Capnn.pCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<
Ca n + Cs +++C+++ g+ C C G + ++G++C
Tem11gi|12 390 CANNRhQCSVHAECRDYAT-------GFCCSCVAG---YTGNGRQC 425
-*
Tem11gi|12 - -
UL42: domain 1 of 1, from 598 to 633: score -1.0, E = 71
*->GepPsRlLt....QtvyfardqtEEDGdaGslasGatvqvvaal<-*
G++PsR+ t + +Qt++f+ +++ ++s + ++ +l
Tem11gi|12 598 GASPSRIYTyqwrQTITFQ--------ECVHDDSRPALPSTQQL 633
IGFBP: domain 1 of 1, from 672 to 705: score 1.0, E = 58
*->CprPcGGpCpaerlarCpPgPpvaPpaecaelvredG<-*
C +C+ a+C+PgP ec + r dG
Tem11gi|12 672 C-YIGTHGCDTN--AACRPGPRTQFTCECSIGFRGDG 705
dsrm: domain 1 of 1, from 686 to 707: score 1.2, E = 84
*->tPaHaprFtvevkvggktyvrktfgeGsGsS<-*
+P+ + +Ft+e+++g ++G G++
Tem11gi|12 686 RPGPRTQFTCECSIG---------FRGDGRT 707
EGF: domain 2 of 6, from 672 to 708: score 27.2, E = 5.7e-06
*->Capnn.pCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<
C ++++C+ ++ C+++p+ + +tCeC G + ++G++C
Tem11gi|12 672 CYIGThGCDTNAACRPGPR------TQFTCECSIG---FRGDGRTC 708
-*
Tem11gi|12 - -
EGF: domain 3 of 6, from 714 to 750: score 24.6, E = 3.2e-05
*->Capnn.pCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<
C++++++C + +C+n pg +++CeC +G y + +C
Tem11gi|12 714 CSEQPsVCGSHTICNNHPG-------TFRCECVEG--YQFSDEGTC 750
-*
Tem11gi|12 - -
EGF: domain 4 of 6, from 769 to 800: score 22.0, E = 0.00017
*->CapnnpCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<-
C+ + ++++C++t+g ++ytC C pG +s++G C
Tem11gi|12 769 CDIP----QRAQCIYTGG------SSYTCSCLPG---FSGDGQAC 800
*
Tem11gi|12 - -
ANATO: domain 1 of 1, from 784 to 803: score 0.5, E = 14
*->gqsCeeRaaritdGkeCrka<-*
+++C+ ++ + dG++C+++
Tem11gi|12 784 SYTCSCLPGFSGDGQACQDV 803
EGF: domain 5 of 6, from 806 to 839: score 29.4, E = 1.3e-06
*->CapnnpCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<-
C+p C+ +++C ntpg ++tC+C+pG ++++G rC
Tem11gi|12 806 CQPS-RCHPDAFCYNTPG-------SFTCQCKPG---YQGDGFRC 839
*
Tem11gi|12 - -
TNFR_c6: domain 1 of 1, from 838 to 853: score 2.1, E = 43
*->rCepemGqvlvspCtatq<-*
rC p G+v++++C++ +
Tem11gi|12 838 RCVP--GEVEKTRCQHER 853
FGF: domain 1 of 1, from 901 to 916: score 1.4, E = 28
*->kkGrpkrGsisKTrphqK<-*
++Gr ++G+ +Trp+++
Tem11gi|12 901 RDGREVEGT--RTRPGMT 916
thyroglobulin_1: domain 1 of 1, from 849 to 919: score 119.8, E = 5.2e-32
*->CqrelervleslaaeqlkteehlesprglYvPnCdenGfYkpvQCdp
Cq+e+e++l++++a++++ ++ p+gl+vP+Cd++G+Y+p QC++
Tem11gi|12 849 CQHEREHILGAAGATDPQ----RPIPPGLFVPECDAHGHYAPTQCHG 891
SlggqrGeCWCVDaetGkelpGtrdvgGetPprC<-*
++G+CWCVD++ G+e++Gtr++ G+t p C
Tem11gi|12 892 ----STGYCWCVDRD-GREVEGTRTRPGMT-PPC 919
ldl_recept_b: domain 1 of 4, from 990 to 1031: score 46.8, E = 1.6e-11
*->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi
+ +YWtD ++ si++a l+G++ t++++d l +P+gIavD+
Tem11gi|12 990 KMVYWTDITEP---SIGRASLHGGEPTTIIRQD--LGSPEGIAVDHL 1031
<-*
Tem11gi|12 - -
NHL: domain 1 of 2, from 1020 to 1033: score 4.5, E = 20
*->fdrPrGvavdpsdGq<-*
+ +P+G+avd ++G+
Tem11gi|12 1020 LGSPEGIAVD-HLGR 1033
ldl_recept_b: domain 2 of 4, from 1033 to 1074: score 48.2, E = 6.6e-12
*->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi
++++WtDs+l+ +i+va+l+G+ rr+lf d l +P+gI+ D +
Tem11gi|12 1033 RNIFWTDSNLD---RIEVAKLDGTQRRVLFETD--LVNPRGIVTDSV 1074
<-*
Tem11gi|12 - -
NHL: domain 2 of 2, from 1063 to 1087: score 1.6, E = 1.4e+02
*->fdrPrGvavdpsdGqivVaD.senh<-*
+ PrG+++d +G+++ +D ++++
Tem11gi|12 1063 LVNPRGIVTDSVRGNLYWTDwNRDN 1087
ldl_recept_b: domain 3 of 4, from 1076 to 1119: score 35.6, E = 2.2e-08
*->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi
g+lYWtD++ + ++i+ ++G++rr+l+++d l Png+ D +
Tem11gi|12 1076 GNLYWTDWNRDN-PKIETSYMDGTNRRILVQDD--LGLPNGLHFDAF 1119
<-*
Tem11gi|12 - -
ldl_recept_b: domain 4 of 4, from 1161 to 1169: score 2.5, E = 45
*->grlYWtDss<-*
++lY+tD++
Tem11gi|12 1161 KNLYFTDWK 1169
EGF: domain 6 of 6, from 1212 to 1243: score 14.9, E = 0.016
*->Capnn.pCsngGtCvntpggssdnfggytCeCppGdyylsytGkrC<
C+ nn++C + C+ tpg + tC+Cp G +C
Tem11gi|12 1212 CSVNNgGCTH--LCLATPG-------SRTCRCPDN-----TLGVDC 1243
-*
Tem11gi|12 - -
//
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: tem11
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR (ENTACTIN)
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: Thu Jan 18 20:33:01 2001
Sequence file: tem11
----------------------------------------
Sequence Tem11gi|128199|sp|P14543|NIDO_HUMAN (1247 residues):
Matching pattern PS00004 CAMP_PHOSPHO_SITE:
175: KRNT
Total matches: 1
Matching pattern PS00005 PKC_PHOSPHO_SITE:
5: SSR
131: TQR
208: SKK
300: TTR
314: SYK
333: SPR
339: TER
347: TER
585: STR
733: TFR
951: TGK
963: TMR
1053: TQR
1073: SVR
1098: TNR
1130: TNR
1142: SRR
1231: TCR
Total matches: 18
Matching pattern PS00006 CK2_PHOSPHO_SITE:
30: SRQE
69: SDID
208: SKKE
475: TIPE
512: TGGE
538: SGID
550: TELE
585: STRE
590: TVTE
592: TEPE
614: TFQE
707: TCYD
1040: SNLD
1093: SYMD
Total matches: 14
Matching pattern PS00007 TYR_PHOSPHO_SITE:
810: RCHPDAFCY
1144: RKALEGLQY
Total matches: 2
Matching pattern PS00008 MYRISTYL:
80: GIIATS
266: GSPATT
273: GVVPAD
282: GTEDGA
321: GGADTY
377: GVVFSY
491: GGIIGW
513: GGEFTR
598: GASPSR
663: GSPDAL
675: GTHGCD
678: GCDTNA
732: GTFRCE
748: GTCVAV
765: GLHNCD
782: GSSYTC
822: GSFTCQ
858: GAAGAT
1009: GGEPTT
1021: GSPEGI
1109: GLPNGL
1129: GTNRAE
1197: GITTAL
1228: GSRTCR
Total matches: 24
Matching pattern PS00009 AMIDATION:
173: KGKR
Total matches: 1
Matching pattern PS00010 ASX_HYDROXYL:
403: CRDYATGFCCSC
727: CNNHPGTFRCEC
817: CYNTPGSFTCQC
Total matches: 3
Matching pattern PS00016 RGD:
702: RGD
Total matches: 1
Matching pattern PS00022 EGF_1:
1232: CRCPDNTLGVDC
Total matches: 1
Matching pattern PS01186 EGF_2:
412: CSCVAGYTGNGRQC
695: CECSIGFRGDGRTC
736: CECVEGYQFSDEGTC
787: CSCLPGFSGDGQAC
826: CQCKPGYQGDGFRC
Total matches: 5
Matching pattern PS01187 EGF_CA:
710: DIDECSEQPSVCGSHTICNNHPGTFRC
802: DVDECQPSRCHPDAFCYNTPGSFTC
Total matches: 2
Matching pattern PS00484 THYROGLOBULIN_1:
874: FVPECDAHGHYAPTQCHGSTGYCWCVDRDG
Total matches: 1
Total no of hits in this sequence: 73
========================================
1314 pattern(s) searched in 1 sequence(s), 1247 residues.
Total no of hits in all sequences: 73.
Search time: 00:00 min
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
Start with Profile Search
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
Start with motif search against own library
***** bioMotif : Version V41a DB, 1999 Nov 11 *****
argv[1]=P
argv[2]=-m /data/patterns/own/motif.fa
argv[4]=-seq tem11
***** 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, 1247 units
>ER-GOLGI-traffic signal is the MOTIF name
>STATISTICS Total : 0 solutions in 0 sequences, 0 units; out of 1 sequences, 1247 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: tem11
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR (ENTACTIN)
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: tem11
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR (ENTACTIN)
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]
//
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
L. Aravind's signalling DB
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= Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR
(ENTACTIN)
(1247 letters)
Searching..................................done
Results from profile search
Score E
Sequences producing significant alignments: (bits) Value
AP2 A plant specific DNA binding domain (Apetala 2 like) 25 0.64
PDZ PDZ domain (A protein-protein interaction domain) 25 0.67
S1 S1 RNA binding domain 23 3.5
SEC7 Sec7 like GDP exchange factor for ARF like GTPases 22 5.3
FYVE Zinc Finger domain involved in PtdIns(3)P binding 22 5.6
VWA Von Willebrand factor A domain 22 6.2
MYND MYND domain (A zinc coordinating Cysteine rich domain) 22 6.6
SET Su(var)3-9, Enhancer of Zeste, trithorax domain (A chrom... 21 8.9
>AP2 A plant specific DNA binding domain (Apetala 2 like)
Length = 218
Score = 24.8 bits (53), Expect = 0.64
Identities = 12/45 (26%), Positives = 12/45 (26%), Gaps = 7/45 (15%)
Query: 259 GVWVFEIGSPATTNGVVPADVILGTEDGAEYDDEDEDYDLATTRL 303
Sbjct: 45 GKWVSEIREPRKK-----SRIWLGTFPSPE--MAARAHDVAALSI 82
>PDZ PDZ domain (A protein-protein interaction domain)
Length = 90
Score = 24.8 bits (54), Expect = 0.67
Identities = 11/29 (37%), Positives = 11/29 (37%), Gaps = 2/29 (6%)
Query: 255 SGQQGVWVFEI--GSPATTNGVVPADVIL 281
Sbjct: 31 SAQQGAFVSEVLPKSAAEKAGLKAGDIIT 59
>S1 S1 RNA binding domain
Length = 305
Score = 22.6 bits (48), Expect = 3.5
Identities = 13/33 (39%), Positives = 13/33 (39%), Gaps = 1/33 (3%)
Query: 546 LTIDTELEGRVPQI-PFGSSVHIEPYTELYHYS 577
Sbjct: 191 IAAGNIYEGKVAKIQPYGVFVEIEGVTGLLHVS 223
Score = 21.4 bits (45), Expect = 7.6
Identities = 15/92 (16%), Positives = 15/92 (16%), Gaps = 16/92 (17%)
Query: 166 PSRDPDQKGKRNTFQAVLASSDSSSYAIFLYPEDGLQFHTTFSKKENNQVPAVVAFSQGS 225
Sbjct: 2 PSSSNSAAFSLDEFAKALDKHDY-------HAEKGQTVHGKICQHANEG--VYVDFGGKS 52
Query: 226 VGFLWKSNGAYNIFANDRESIENLAKSSNSGQ 257
Sbjct: 53 PGFVPVQE-----LGLRP--HAEIEDSFPLDS 77
>SEC7 Sec7 like GDP exchange factor for ARF like GTPases
Length = 192
Score = 21.7 bits (46), Expect = 5.3
Identities = 6/18 (33%), Positives = 6/18 (33%)
Query: 451 IVFENTDLHSYVVMNHGR 468
Sbjct: 139 IILLNTDMYSPNVKPERK 156
>FYVE Zinc Finger domain involved in PtdIns(3)P binding
Length = 99
Score = 21.6 bits (45), Expect = 5.6
Identities = 15/72 (20%), Positives = 15/72 (20%), Gaps = 17/72 (23%)
Query: 365 PQVIDVDEVEETGVVFSYNTDS---RQTCANNRHQCSVHAECRDYATGFCCSC------- 414
Sbjct: 25 PEWKTSDCCQKCNQPFFWNLQAMWQRKVVGLRQHH------CRTCGSAVCGSCCDNWTTY 78
Query: 415 -VAGYTGNGRQC 425
Sbjct: 79 PPMGYETKIRIC 90
>VWA Von Willebrand factor A domain
Length = 255
Score = 21.8 bits (46), Expect = 6.2
Identities = 11/91 (12%), Positives = 11/91 (12%), Gaps = 9/91 (9%)
Query: 207 FSKKENNQVPAVVAFSQGSVGFLWKSNGAYNIFANDRESIENLAKSSNS----GQQGVWV 262
Sbjct: 91 FDQNPISQM-GIIIMRNGLAQLVSQVSGNPQDHIDALKSIRKQEPKGNPSLQNALEMARG 149
Query: 263 FEIGSPATTNGVVPADVILGTEDGAEYDDED 293
Sbjct: 150 LLLPVP---AHCTREVLIVFG-SLSTTDPGD 176
>MYND MYND domain (A zinc coordinating Cysteine rich domain)
Length = 107
Score = 21.7 bits (45), Expect = 6.6
Identities = 17/76 (22%), Positives = 17/76 (22%), Gaps = 12/76 (15%)
Query: 348 ERTRSFQLAVETFHQQHPQVI---------DVDEVEETGVVFSYNTDSRQTCAN-NRHQC 397
Sbjct: 1 DMKQSFERRIEVLQKERDAAVSAMRVQVHADIDDPNISGSLHGNEIISAKKCANCNREAL 60
Query: 398 SVHAECRD--YATGFC 411
Sbjct: 61 AECSLCRKTPYCSEFC 76
>SET Su(var)3-9, Enhancer of Zeste, trithorax domain (A chromatin associated domain)
Length = 219
Score = 21.1 bits (44), Expect = 8.9
Identities = 13/119 (10%), Positives = 13/119 (10%), Gaps = 16/119 (13%)
Query: 646 EKILRYAFSNSIGPVREGSPDALQNPCYIGTHGCDTNAACRPGPRTQFTCECSIGFRG-D 704
Sbjct: 30 EQLLQFSFLPELQFQNAAVKQRIQRLCY--------REEKRLAVSSLAKWLGQLHKQRLR 81
Query: 705 GRTCYDIDECSEQPSV-CGSHTICNNHPGTFRCECVEGYQFSDEGTCVAVVDQRPINYC 762
Sbjct: 82 APKNPPVAICWINSYVGYGVFARESIPAWSYIGEYTGILRRRQA------LWLDENDYC 134
Underlying Matrix: BLOSUM62
Number of sequences tested against query: 105
Number of sequences better than 10.0: 8
Number of calls to ALIGN: 9
Length of query: 1247
Total length of test sequences: 20182
Effective length of test sequences: 16435.0
Effective search space size: 19918433.3
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= Tem11gi|128199|sp|P14543|NIDO_HUMAN NIDOGEN PRECURSOR
(ENTACTIN)
(1247 letters)
Searching.................................................done
Results from profile search
Score E
Sequences producing significant alignments: (bits) Value
gi|128081 [13..98] Neurophysin II 36 0.005
gi|2622601 [25..254] 7-bladed beta-propeller 27 2.2
gi|1016001 [3..270] Metallo-dependent phosphatases 25 6.1
gi|2039378 [21..454] PLP-dependent transferases 25 7.2
gi|2599298 [127..373] beta/alpha (TIM)-barrel 24 10.0
>gi|128081 [13..98] Neurophysin II
Length = 86
Score = 35.5 bits (80), Expect = 0.005
Identities = 9/72 (12%), Positives = 9/72 (12%), Gaps = 3/72 (4%)
Query: 670 NPCYIGTHGCDTNAACRPGPR---TQFTCECSIGFRGDGRTCYDIDECSEQPSVCGSHTI 726
Sbjct: 14 GPGGQGRCFGPSICCADALGCFVGTAEALRCQEENYLPSPCQSGQKPCGSGGRCAANGVC 73
Query: 727 CNNHPGTFRCEC 738
Sbjct: 74 CNDESCVIEPEC 85
Score = 33.2 bits (74), Expect = 0.028
Identities = 6/86 (6%), Positives = 6/86 (6%), Gaps = 7/86 (8%)
Query: 746 DEGTCVAVVDQRPINYCETGLHNCDIPQRAQCIYTGGSSYTCSCLPGFSGDGQACQDVDE 805
Sbjct: 6 ELRQCLPCGPGGQGRCFGP---SICCADALGC-FVGTAEALRCQEENYLPS-PCQSGQKP 60
Query: 806 CQPSR--CHPDAFCYNTPGSFTCQCK 829
Sbjct: 61 CGSGGRCAANGVCCNDESCVIEPECR 86
>gi|2622601 [25..254] 7-bladed beta-propeller
Length = 230
Score = 27.0 bits (59), Expect = 2.2
Identities = 14/165 (8%), Positives = 14/165 (8%), Gaps = 15/165 (9%)
Query: 1082 DWNRDNPKIETSYMDGTNRRILVQDDLGLPNGLHFDAFSSQLCWVDAGTNRAECL--NPS 1139
Sbjct: 9 HGDEQHTGYAKEPSDFS---AKTWY---LSIGGIKSSPAIFNKVAYIGSLDGRLYAVNLE 62
Query: 1140 QPSRRKALEGLQYPFAVTSYGKNLYFTDWKMNSVVALDLAISKETDAFQPHKQTRLYGIT 1199
Sbjct: 63 TGSVVWSYKTEGAIVSSPVVVNGTVFVGSWDGYLYAIDTDTGDLEWKFKTGNRIE----- 117
Query: 1200 TALSQCPQGHNYCSVNNGGCTHLCLATPGSRTCRCPDNTLGVDCI 1244
Sbjct: 118 --SSPAVSGDTVYIGSDDCRVYAVDRDDGSKKWEFYTGDAVKSSP 160
>gi|1016001 [3..270] Metallo-dependent phosphatases
Length = 268
Score = 25.2 bits (55), Expect = 6.1
Identities = 7/37 (18%), Positives = 7/37 (18%), Gaps = 8/37 (21%)
Query: 726 ICNNHPGTFRCECVEGYQFSDEGTCVAVVDQRPINYC 762
Sbjct: 231 IIRGH------EAVDGFRTNMNGKVITVFS--SVYHG 259
>gi|2039378 [21..454] PLP-dependent transferases
Length = 434
Score = 25.2 bits (54), Expect = 7.2
Identities = 9/107 (8%), Positives = 9/107 (8%), Gaps = 14/107 (13%)
Query: 410 FCCSCVAGYTGNGRQCVAEGSPQRVNGKVKGRIFVGSSQVPIV----------FENTDLH 459
Sbjct: 288 DMVTMAKGIGNGFPLGAVVTSKEIADSFNKSLYFNTYGGNPLASVVGKAVLEVIEEEKLQ 347
Query: 460 SYVVMNHGRSYTAISTIPETVGYSLLPLAPVGGIIGWMFAVEQDGFK 506
Sbjct: 348 ENSAVVGDYFLKQL----AAIDDATIGDVRGKGLMIGVELIDEQGKP 390
>gi|2599298 [127..373] beta/alpha (TIM)-barrel
Length = 247
Score = 24.4 bits (53), Expect = 10.0
Identities = 13/59 (22%), Positives = 13/59 (22%), Gaps = 4/59 (6%)
Query: 459 HSYVVMNHGRSYTAISTIPETVGYSLLPLAPVG-GIIGWMFAVEQDGFKNGFSITGGEF 516
Sbjct: 177 RRVFRPMGGRCWIRRGYSGGLHVYSTIPSMPYGCELLGW---VLADRLTQQLQIKDFEI 232
Underlying Matrix: BLOSUM62
Number of sequences tested against query: 1187
Number of sequences better than 10.0: 5
Number of calls to ALIGN: 6
Length of query: 1247
Total length of test sequences: 256703
Effective length of test sequences: 208388.0
Effective search space size: 251322163.8
Initial X dropoff for ALIGN: 25.0 bits
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
calculation of internal repeats with prospero
***** PROSPERO v1.3 Thu Jan 18 20:35:24 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 Tem11gi|128199|sp|P14543|NIDO_HUMAN
using self-comparison
> 1 Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 670 to 1082 vs Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 760 to 1127 score 303 eval 2.127230e-28 identity 30.49% K 2.720488e-02 L 2.454462e-01 H 1.376885e+00 alpha 8.743731e-02
670 NPCYIGTHGCD--TNAACRPGPRTQFTCECSIGFRGDGRTCYDIDECSEQPSVCGSHTIC 727 Tem11gi|128199|sp|P14543|NIDO_HUMAN
| | | | || | | : :|| | || |||: | |:||| ||| | |
760 NYCETGLHNCDIPQRAQCIYTGGSSYTCSCLPGFSGDGQACQDVDEC--QPSRCHPDAFC 817 Tem11gi|128199|sp|P14543|NIDO_HUMAN
728 NNHPGTFRCECVEGYQFSDEGTCVAVVDQRPINYCETGLHNCDIPQRAQCIYTGGSSYTC 787 Tem11gi|128199|sp|P14543|NIDO_HUMAN
| ||:| |:| ||| | || | | : | :
818 YNTPGSFTCQCKPGYQ-GDGFRCVP---------GEVEKTRCQHEREHILGAAGATDPQR 867 Tem11gi|128199|sp|P14543|NIDO_HUMAN
788 SCLPGFSGDGQACQDVDECQPSRCHPDAFCYNTPGSFTCQCKPGYQGDGFRCVPGEVEKT 847 Tem11gi|128199|sp|P14543|NIDO_HUMAN
|| | || : |: : | | : | : :| | ||
868 PIPPGLF--------VPECDAHGHYAPTQCHGSTGYCWCVDRDGREVEGTRTRPGMTPPC 919 Tem11gi|128199|sp|P14543|NIDO_HUMAN
848 RCQHEREHILGAAGATDPQRPIPPGLFVPECDAHGHYAPTQCHGSTGYCWCVDRDGREVE 907 Tem11gi|128199|sp|P14543|NIDO_HUMAN
| | | |:||| : || : :| :
920 LSTVAPPIHQGPAVPT-AVIPLPPGTHL-------------LFAQTGKIERLPLEGNTMR 965 Tem11gi|128199|sp|P14543|NIDO_HUMAN
908 GTRTRPGMTPPCLSTVAPPIHQGPAVPTAVIPLPPGTHLLFAQTGKIERLPLEGNTMRKT 967 Tem11gi|128199|sp|P14543|NIDO_HUMAN
| : : | : | : | : |: | |: :
966 KTEAKAFLHVPAKVIIGLAF-------DCVDKMVYWTDITEPSIGRASLHGGEPTTIIRQ 1018 Tem11gi|128199|sp|P14543|NIDO_HUMAN
968 EAKAFLHVPAKVIIGLAFDCVDKMVYWTDITEPSIGRASLHGGEPTTIIRQDLGSPEGIA 1027 Tem11gi|128199|sp|P14543|NIDO_HUMAN
: | | |:| | : : ::||| | | | | : : || :| ||
1019 D----LGSPE----GIAVDHLGRNIFWTDSNLDRIEVAKLDGTQRRVLFETDLVNPRGIV 1070 Tem11gi|128199|sp|P14543|NIDO_HUMAN
1028 VDHLGRNIFWTDSNLD--RIEVAKLDGTQRRVLFETDLVNPRGIVTDSVRGNLYWTD 1082 Tem11gi|128199|sp|P14543|NIDO_HUMAN
| : |::||| | | :|| : :||| ||:| : || | |: |: | | |
1071 TDSVRGNLYWTDWNRDNPKIETSYMDGTNRRILVQDDLGLPNGLHFDAFSSQLCWVD 1127 Tem11gi|128199|sp|P14543|NIDO_HUMAN
> 2 Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 341 to 425 vs Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 624 to 708 score 84 eval 4.702316e-05 identity 33.75% K 2.720488e-02 L 2.454462e-01 H 1.376885e+00 alpha 8.743731e-02
341 RPLGPPTERTRSFQLAVET---FHQQHPQVIDVDEVEETGVVFSYNTDSRQT-CANNRHQ 396 Tem11gi|128199|sp|P14543|NIDO_HUMAN
|| | |: ||:|:: : | ::: | | : |: | | |
624 RPALPSTQ-----QLSVDSVFVLYNQEEKILRYAFSNSIGPVREGSPDALQNPCYIGTHG 678 Tem11gi|128199|sp|P14543|NIDO_HUMAN
397 CSVHAECR-DYATGFCCSCVAGYTGNGRQC 425 Tem11gi|128199|sp|P14543|NIDO_HUMAN
| :| || | | | | |: |:|| |
679 CDTNAACRPGPRTQFTCECSIGFRGDGRTC 708 Tem11gi|128199|sp|P14543|NIDO_HUMAN
> 3 Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 390 to 433 vs Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 762 to 810 score 74 eval 5.472206e-04 identity 36.36% K 2.720488e-02 L 2.454462e-01 H 1.376885e+00 alpha 8.743731e-02
390 CANNRHQCSVHAECRDYATG---FCCSCVAGYTGNGRQC--VAEGSPQR 433 Tem11gi|128199|sp|P14543|NIDO_HUMAN
| | | : : || : |||: |::|:|: | | | | |
762 CETGLHNCDIPQRAQCIYTGGSSYTCSCLPGFSGDGQACQDVDECQPSR 810 Tem11gi|128199|sp|P14543|NIDO_HUMAN
> 4 Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 652 to 708 vs Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 784 to 839 score 69 eval 1.865759e-03 identity 32.14% K 2.720488e-02 L 2.454462e-01 H 1.376885e+00 alpha 8.743731e-02
652 AFSNSIGPVREGSPDALQNPCYIGTHGCDTNAACRPGPRTQFTCECSIGFRGDGRTC 708 Tem11gi|128199|sp|P14543|NIDO_HUMAN
::: | | | | |: | :| | | : |||:| |::||| |
784 SYTCSCLPGFSGDGQACQDVDECQPSRCHPDAFCYNTPGS-FTCQCKPGYQGDGFRC 839 Tem11gi|128199|sp|P14543|NIDO_HUMAN
> 5 Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 396 to 426 vs Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 810 to 840 score 66 eval 3.892262e-03 identity 38.71% K 2.720488e-02 L 2.454462e-01 H 1.376885e+00 alpha 8.743731e-02
396 QCSVHAECRDYATGFCCSCVAGYTGNGRQCV 426 Tem11gi|128199|sp|P14543|NIDO_HUMAN
:| | | : | | | || |:| :||
810 RCHPDAFCYNTPGSFTCQCKPGYQGDGFRCV 840 Tem11gi|128199|sp|P14543|NIDO_HUMAN
> 6 Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 390 to 435 vs Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 714 to 760 score 63 eval 8.110903e-03 identity 30.43% K 2.720488e-02 L 2.454462e-01 H 1.376885e+00 alpha 8.743731e-02
390 CANNRHQCSVHAECRDYATGFCCSCVAGYT-GNGRQCVAEGSPQRVN 435 Tem11gi|128199|sp|P14543|NIDO_HUMAN
|: | | | :: | | || || : ||| : :|
714 CSEQPSVCGSHTICNNHPGTFRCECVEGYQFSDEGTCVAVVDQRPIN 760 Tem11gi|128199|sp|P14543|NIDO_HUMAN
> 7 Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 670 to 777 vs Tem11gi|128199|sp|P14543|NIDO_HUMAN len 1247 from 760 to 811 score 58 eval 2.740290e-02 identity 50.00% K 2.720488e-02 L 2.454462e-01 H 1.376885e+00 alpha 8.743731e-02
670 NPCYIGTHGCD--TNAACRPGPRTQFTCECSIGFRGDGRTCYDIDECSEQPSVCGSHTIC 727 Tem11gi|128199|sp|P14543|NIDO_HUMAN
| | | | || | | : :|| | || |||: | |:||| |||
760 NYCETGLHNCDIPQRAQCIYTGGSSYTCSCLPGFSGDGQACQDVDEC--QPS-------- 809 Tem11gi|128199|sp|P14543|NIDO_HUMAN
728 NNHPGTFRCECVEGYQFSDEGTCVAVVDQRPINYCETGLHNCDIPQRAQC 777 Tem11gi|128199|sp|P14543|NIDO_HUMAN
:|
810 ------------------------------------------------RC 811 Tem11gi|128199|sp|P14543|NIDO_HUMAN