analysis of sequence from tem30
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
>tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
FNVDVKNSMTFSGPVEDMFGYTVQQYENEEGKWVLIGSPLVGQPKNRTGDVYKCPVGRGESLPCVKLDLP
VNTSIPNVTEVKENMTFGSTLVTNPNGGFLACGPLYAYRCGHLHYTTGICSDVSPTFQVVNSIAPVQECS
TQLDIVIVLDGSNSIYPWDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEFNLNKYSSTEEVLVAAK
KIVQRGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVIVTDGESHDNHRLKKVIQDCEDENIQRFSIA
ILGSYNRGNLSTEKFVEEIKSIASEPTEKHFFNVSDELALVTIVKTLGERIFALEATADQSAASFEMEMS
QTGFSAHYSQDWVMLGAVGAYDWNGTVVMQKASQIIIPRNTTFNVESTKKNEPLASYLGYTVNSATASSG
DVLYIAGQPRYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMGT
EKEEQGKVYVYALNQTRFEYQMSLEPIKQTCCSSRQHNSCTTENKNEPCGARFGTAIAAVKDLNLDGFND
IVIGAPLEDDHGGAVYIYHGSGKTIRKEYAQRIPSGGDGKTLKFFGQSIHGEMDLNGDGLTDVTIGGLGG
AALFWSRDVAVVKVTMNFEPNKVNIQKKNCHMEGKETVCINATVCFEVKLKSKEDTIYEADLQYRVTLDS
LRQISRSFFSGTQERKVQRNITVRKSECTKHSFYMLDKHDFQDSVRITLDFNLTDPENGPVLDDSLPNSV
HEYIPFAKDCGNKEKCISDLSLHVATTEKDLLIVRSQNDKFNVSLTVKNTKDSAYNTRTIVHYSPNLVFS
GIEAIQKDSCESNHNITCKVGYPFLRRGEMVTFKILFQFNTSYLMENVTIYLSATSDSEEPPETLSDNVV
NISIPVKYEVGLQFYSSASEYHISIAANETVPEVINSTEDIGNEINIFYLIRKSGSFPMPELKLSISFPN
MTSNGYPVLYPTGLSSSENANCRPHIFEDPFSINSGKKMTTSTDHLKRGTILDCNTCKFATITCNLTSSD
ISQVNVSLILWKPTFIKSYFSSLNLTIRGELRSENASLVLSSSNQKRELAIQISKDGLPGRVPLWVILLS
AFAGLLLLMLLILALWKIGFFKRPLKKKMEK
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
sec.str. with predator
> tem30_gi|2829468|sp|P56199|ITA1_HUMAN
. . . . .
1 FNVDVKNSMTFSGPVEDMFGYTVQQYENEEGKWVLIGSPLVGQPKNRTGD 50
_________________EEEHHHHHHH_____EEEE______________
. . . . .
51 VYKCPVGRGESLPCVKLDLPVNTSIPNVTEVKENMTFGSTLVTNPNGGFL 100
____________EEEEEE_________EEEEE__________________
. . . . .
101 ACGPLYAYRCGHLHYTTGICSDVSPTFQVVNSIAPVQECSTQLDIVIVLD 150
_____EEE__________________EEEEEEEEE_______EEEEEEE_
. . . . .
151 GSNSIYPWDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEFNLNKYS 200
_____EEE___HHHHHHHHHHH______EEEEEEE_______________
. . . . .
201 STEEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVI 250
_HHHHHHHHHHHHH______________HHHHHHHHHHHHH____EEEEE
. . . . .
251 VTDGESHDNHRLKKVIQDCEDENIQRFSIAILGSYNRGNLSTEKFVEEIK 300
E________HHHHHHHHH_________EEEEE________HHHHHHHHHH
. . . . .
301 SIASEPTEKHFFNVSDELALVTIVKTLGERIFALEATADQSAASFEMEMS 350
HH_______EEEEE__HHHHHHHHHHHHHHHHHHHHHH___HHHHHHHHH
. . . . .
351 QTGFSAHYSQDWVMLGAVGAYDWNGTVVMQKASQIIIPRNTTFNVESTKK 400
__________EEEEEEE__EEE__EEEEEE____EEE_____EEE_____
. . . . .
401 NEPLASYLGYTVNSATASSGDVLYIAGQPRYNHTGQVIIYRMEDGNIKIL 450
____________________EEEEEE_______EEEEEEEEE____EEEE
. . . . .
451 QTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMGTEKEEQGKVYV 500
EEE____HHHHHHHEEE___________EEEE____EEE_______EEEE
. . . . .
501 YALNQTRFEYQMSLEPIKQTCCSSRQHNSCTTENKNEPCGARFGTAIAAV 550
EEE__HHHHHHHH____EEE_______________________HHHHHHH
. . . . .
551 KDLNLDGFNDIVIGAPLEDDHGGAVYIYHGSGKTIRKEYAQRIPSGGDGK 600
HH_______EEEE__________EEEEE_____HHHHHHHH________E
. . . . .
601 TLKFFGQSIHGEMDLNGDGLTDVTIGGLGGAALFWSRDVAVVKVTMNFEP 650
EEEEEE______________EEEE________EEE___EEEEEEEE____
. . . . .
651 NKVNIQKKNCHMEGKETVCINATVCFEVKLKSKEDTIYEADLQYRVTLDS 700
__EEEEE________EEEEEE_______HHHHHH__HHHHHHHHHHHHHH
. . . . .
701 LRQISRSFFSGTQERKVQRNITVRKSECTKHSFYMLDKHDFQDSVRITLD 750
HHHHH________HHHHHHHHEEE________EEEE________EEEE__
. . . . .
751 FNLTDPENGPVLDDSLPNSVHEYIPFAKDCGNKEKCISDLSLHVATTEKD 800
____________________EEEEEE__________HHHHHHHEEE___E
. . . . .
801 LLIVRSQNDKFNVSLTVKNTKDSAYNTRTIVHYSPNLVFSGIEAIQKDSC 850
EEEEE_____EEEEEEE__________EEEE_____EEE__EEE______
. . . . .
851 ESNHNITCKVGYPFLRRGEMVTFKILFQFNTSYLMENVTIYLSATSDSEE 900
_____EEEEE_________EEEEEEEE____EEEE__EEEEE________
. . . . .
901 PPETLSDNVVNISIPVKYEVGLQFYSSASEYHISIAANETVPEVINSTED 950
________EEEEEEEEEEEE_EEEE________________EEEEE____
. . . . .
951 IGNEINIFYLIRKSGSFPMPELKLSISFPNMTSNGYPVLYPTGLSSSENA 1000
______EEEEEE__________EEE___________EEEE__________
. . . . .
1001 NCRPHIFEDPFSINSGKKMTTSTDHLKRGTILDCNTCKFATITCNLTSSD 1050
_____EEE_________EEEE________________EEEEEEE______
. . . . .
1051 ISQVNVSLILWKPTFIKSYFSSLNLTIRGELRSENASLVLSSSNQKRELA 1100
_______EEEE____EEEEEEEHHHHHHHHHHH____EEEE___HHHHHH
. . . . .
1101 IQISKDGLPGRVPLWVILLSAFAGLLLLMLLILALWKIGFFKRPLKKKME 1150
HHHH_________HHHHHHHHHHHHHHHHHHHHHHHHHH___________
1151 K 1151
_
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
method : 1
alpha-contents : 0.3 %
beta-contents : 46.1 %
coil-contents : 53.6 %
class : beta
method : 2
alpha-contents : 2.3 %
beta-contents : 37.5 %
coil-contents : 60.2 %
class : beta
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
GPI: learning from metazoa
-17.78 -3.78 -1.69 -2.71 -4.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 -29.96
3.73 -1.48 -1.23 -3.59 0.00 0.00 -12.00 -0.09 -0.04 0.00 0.00 -12.00 0.00 0.00 0.00 0.00 -26.70
ID: tem30_gi|2829468|sp|P56199|ITA1_HUMAN AC: xxx Len: 1120 1:I 1106 Sc: -26.70 Pv: 6.229164e-02 NO_GPI_SITE
GPI: learning from protozoa
-15.96 -2.84 -2.55 -4.00 -4.00 0.00 -4.00 -1.15 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 -34.49
-17.60 -4.45 -1.69 -0.27 -4.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 -28.00
ID: tem30_gi|2829468|sp|P56199|ITA1_HUMAN AC: xxx Len: 1120 1:N 1103 Sc: -28.00 Pv: 4.767807e-02 NO_GPI_SITE
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
# SignalP euk predictions
# name Cmax pos ? Ymax pos ? Smax pos ? Smean ?
tem30_gi|28 0.552 1137 Y 0.677 1142 Y 0.997 1123 Y 0.082 N
# SignalP gram- predictions
# name Cmax pos ? Ymax pos ? Smax pos ? Smean ?
tem30_gi|28 0.567 108 Y 0.384 1135 Y 0.974 1125 Y 0.128 N
# SignalP gram+ predictions
# name Cmax pos ? Ymax pos ? Smax pos ? Smean ?
tem30_gi|28 0.622 339 Y 0.403 641 Y 0.983 1127 Y 0.142 N
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
low complexity regions: SEG 12 2.2 2.5
>tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
1-1117 FNVDVKNSMTFSGPVEDMFGYTVQQYENEE
GKWVLIGSPLVGQPKNRTGDVYKCPVGRGE
SLPCVKLDLPVNTSIPNVTEVKENMTFGST
LVTNPNGGFLACGPLYAYRCGHLHYTTGIC
SDVSPTFQVVNSIAPVQECSTQLDIVIVLD
GSNSIYPWDSVTAFLNDLLKRMDIGPKQTQ
VGIVQYGENVTHEFNLNKYSSTEEVLVAAK
KIVQRGGRQTMTALGTDTARKEAFTEARGA
RRGVKKVMVIVTDGESHDNHRLKKVIQDCE
DENIQRFSIAILGSYNRGNLSTEKFVEEIK
SIASEPTEKHFFNVSDELALVTIVKTLGER
IFALEATADQSAASFEMEMSQTGFSAHYSQ
DWVMLGAVGAYDWNGTVVMQKASQIIIPRN
TTFNVESTKKNEPLASYLGYTVNSATASSG
DVLYIAGQPRYNHTGQVIIYRMEDGNIKIL
QTLSGEQIGSYFGSILTTTDIDKDSNTDIL
LVGAPMYMGTEKEEQGKVYVYALNQTRFEY
QMSLEPIKQTCCSSRQHNSCTTENKNEPCG
ARFGTAIAAVKDLNLDGFNDIVIGAPLEDD
HGGAVYIYHGSGKTIRKEYAQRIPSGGDGK
TLKFFGQSIHGEMDLNGDGLTDVTIGGLGG
AALFWSRDVAVVKVTMNFEPNKVNIQKKNC
HMEGKETVCINATVCFEVKLKSKEDTIYEA
DLQYRVTLDSLRQISRSFFSGTQERKVQRN
ITVRKSECTKHSFYMLDKHDFQDSVRITLD
FNLTDPENGPVLDDSLPNSVHEYIPFAKDC
GNKEKCISDLSLHVATTEKDLLIVRSQNDK
FNVSLTVKNTKDSAYNTRTIVHYSPNLVFS
GIEAIQKDSCESNHNITCKVGYPFLRRGEM
VTFKILFQFNTSYLMENVTIYLSATSDSEE
PPETLSDNVVNISIPVKYEVGLQFYSSASE
YHISIAANETVPEVINSTEDIGNEINIFYL
IRKSGSFPMPELKLSISFPNMTSNGYPVLY
PTGLSSSENANCRPHIFEDPFSINSGKKMT
TSTDHLKRGTILDCNTCKFATITCNLTSSD
ISQVNVSLILWKPTFIKSYFSSLNLTIRGE
LRSENASLVLSSSNQKRELAIQISKDGLPG
RVPLWVI
llsafagllllmllilal 1118-1135
1136-1151 WKIGFFKRPLKKKMEK
low complexity regions: SEG 25 3.0 3.3
>tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
1-1107 FNVDVKNSMTFSGPVEDMFGYTVQQYENEE
GKWVLIGSPLVGQPKNRTGDVYKCPVGRGE
SLPCVKLDLPVNTSIPNVTEVKENMTFGST
LVTNPNGGFLACGPLYAYRCGHLHYTTGIC
SDVSPTFQVVNSIAPVQECSTQLDIVIVLD
GSNSIYPWDSVTAFLNDLLKRMDIGPKQTQ
VGIVQYGENVTHEFNLNKYSSTEEVLVAAK
KIVQRGGRQTMTALGTDTARKEAFTEARGA
RRGVKKVMVIVTDGESHDNHRLKKVIQDCE
DENIQRFSIAILGSYNRGNLSTEKFVEEIK
SIASEPTEKHFFNVSDELALVTIVKTLGER
IFALEATADQSAASFEMEMSQTGFSAHYSQ
DWVMLGAVGAYDWNGTVVMQKASQIIIPRN
TTFNVESTKKNEPLASYLGYTVNSATASSG
DVLYIAGQPRYNHTGQVIIYRMEDGNIKIL
QTLSGEQIGSYFGSILTTTDIDKDSNTDIL
LVGAPMYMGTEKEEQGKVYVYALNQTRFEY
QMSLEPIKQTCCSSRQHNSCTTENKNEPCG
ARFGTAIAAVKDLNLDGFNDIVIGAPLEDD
HGGAVYIYHGSGKTIRKEYAQRIPSGGDGK
TLKFFGQSIHGEMDLNGDGLTDVTIGGLGG
AALFWSRDVAVVKVTMNFEPNKVNIQKKNC
HMEGKETVCINATVCFEVKLKSKEDTIYEA
DLQYRVTLDSLRQISRSFFSGTQERKVQRN
ITVRKSECTKHSFYMLDKHDFQDSVRITLD
FNLTDPENGPVLDDSLPNSVHEYIPFAKDC
GNKEKCISDLSLHVATTEKDLLIVRSQNDK
FNVSLTVKNTKDSAYNTRTIVHYSPNLVFS
GIEAIQKDSCESNHNITCKVGYPFLRRGEM
VTFKILFQFNTSYLMENVTIYLSATSDSEE
PPETLSDNVVNISIPVKYEVGLQFYSSASE
YHISIAANETVPEVINSTEDIGNEINIFYL
IRKSGSFPMPELKLSISFPNMTSNGYPVLY
PTGLSSSENANCRPHIFEDPFSINSGKKMT
TSTDHLKRGTILDCNTCKFATITCNLTSSD
ISQVNVSLILWKPTFIKSYFSSLNLTIRGE
LRSENASLVLSSSNQKRELAIQISKDG
lpgrvplwvillsafagllllmllilalwk 1108-1149
igffkrplkkkm
1150-1151 EK
low complexity regions: SEG 45 3.4 3.75
>tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
1-1044 FNVDVKNSMTFSGPVEDMFGYTVQQYENEE
GKWVLIGSPLVGQPKNRTGDVYKCPVGRGE
SLPCVKLDLPVNTSIPNVTEVKENMTFGST
LVTNPNGGFLACGPLYAYRCGHLHYTTGIC
SDVSPTFQVVNSIAPVQECSTQLDIVIVLD
GSNSIYPWDSVTAFLNDLLKRMDIGPKQTQ
VGIVQYGENVTHEFNLNKYSSTEEVLVAAK
KIVQRGGRQTMTALGTDTARKEAFTEARGA
RRGVKKVMVIVTDGESHDNHRLKKVIQDCE
DENIQRFSIAILGSYNRGNLSTEKFVEEIK
SIASEPTEKHFFNVSDELALVTIVKTLGER
IFALEATADQSAASFEMEMSQTGFSAHYSQ
DWVMLGAVGAYDWNGTVVMQKASQIIIPRN
TTFNVESTKKNEPLASYLGYTVNSATASSG
DVLYIAGQPRYNHTGQVIIYRMEDGNIKIL
QTLSGEQIGSYFGSILTTTDIDKDSNTDIL
LVGAPMYMGTEKEEQGKVYVYALNQTRFEY
QMSLEPIKQTCCSSRQHNSCTTENKNEPCG
ARFGTAIAAVKDLNLDGFNDIVIGAPLEDD
HGGAVYIYHGSGKTIRKEYAQRIPSGGDGK
TLKFFGQSIHGEMDLNGDGLTDVTIGGLGG
AALFWSRDVAVVKVTMNFEPNKVNIQKKNC
HMEGKETVCINATVCFEVKLKSKEDTIYEA
DLQYRVTLDSLRQISRSFFSGTQERKVQRN
ITVRKSECTKHSFYMLDKHDFQDSVRITLD
FNLTDPENGPVLDDSLPNSVHEYIPFAKDC
GNKEKCISDLSLHVATTEKDLLIVRSQNDK
FNVSLTVKNTKDSAYNTRTIVHYSPNLVFS
GIEAIQKDSCESNHNITCKVGYPFLRRGEM
VTFKILFQFNTSYLMENVTIYLSATSDSEE
PPETLSDNVVNISIPVKYEVGLQFYSSASE
YHISIAANETVPEVINSTEDIGNEINIFYL
IRKSGSFPMPELKLSISFPNMTSNGYPVLY
PTGLSSSENANCRPHIFEDPFSINSGKKMT
TSTDHLKRGTILDCNTCKFATITC
nltssdisqvnvslilwkptfiksyfssln 1045-1148
ltirgelrsenaslvlsssnqkrelaiqis
kdglpgrvplwvillsafagllllmllila
lwkigffkrplkkk
1149-1151 MEK
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
>tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
FNVDVKNSMTFSGPVEDMFGYTVQQYENEEGKWVLIGSPLVGQPKNRTGDVYKCPVGRGE
SLPCVKLDLPVNTSIPNVTEVKENMTFGSTLVTNPNGGFLACGPLYAYRCGHLHYTTGIC
SDVSPTFQVVNSIAPVQECSTQLDIVIVLDGSNSIYPWDSVTAFLNDLLKRMDIGPKQTQ
VGIVQYGENVTHEFNLNKYSSTEEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGA
RRGVKKVMVIVTDGESHDNHRLKKVIQDCEDENIQRFSIAILGSYNRGNLSTEKFVEEIK
SIASEPTEKHFFNVSDELALVTIVKTLGERIFALEATADQSAASFEMEMSQTGFSAHYSQ
DWVMLGAVGAYDWNGTVVMQKASQIIIPRNTTFNVESTKKNEPLASYLGYTVNSATASSG
DVLYIAGQPRYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDIL
LVGAPMYMGTEKEEQGKVYVYALNQTRFEYQMSLEPIKQTccssrqhnscttenknePCG
ARFGTAIAAVKDLNLDGFNDIVIGAPLEDDHGGAVYIYHGSGKTIRKEYAQRIPSGGDGK
TLKFFGQSIHGEMDLNGDGLTDVTIGGLGGAALFWSRDVAVVKVTMNFEPNKVNIQKKNC
HMEGKETVCINATVCFEVKLKSKEDTIYEADLQYRVTLDSLRQISRSFFSGTQERKVQRN
ITVRKSECTKHSFYMLDKHDFQDSVRITLDFNLTDPENGPVLDDSLPNSVHEYIPFAKDC
GNKEKCISDLSLHVATTEKDLLIVRSQNDKFNVSLTVKNTKDSAYNTRTIVHYSPNLVFS
GIEAIQKDSCESNHNITCKVGYPFLRRGEMVTFKILFQFNTSYLMENVTIYLSATSDSEE
PPETLSDNVVNISIPVKYEVGLQFYSSASEYHISIAANETVPEVINSTEDIGNEINIFYL
IRKSGSFPMPELKLSISFPNMTSNGYPVLYPTGLSSSENANCRPHIFEDPFSINSGKKMT
TSTDHLKRGTILDCNTCKFATITCNLTSSDISQVNVSLILWKPTFIKSYFSSLNLTIRGE
LRSENASLVLSSSNQKRELAIQISKDGLPGRVPLWVILLSAFAGllllmllilalWKIGF
FKRPLKKKMEK
1 - 520 FNVDVKNSMT FSGPVEDMFG YTVQQYENEE GKWVLIGSPL VGQPKNRTGD VYKCPVGRGE
SLPCVKLDLP VNTSIPNVTE VKENMTFGST LVTNPNGGFL ACGPLYAYRC GHLHYTTGIC
SDVSPTFQVV NSIAPVQECS TQLDIVIVLD GSNSIYPWDS VTAFLNDLLK RMDIGPKQTQ
VGIVQYGENV THEFNLNKYS STEEVLVAAK KIVQRGGRQT MTALGTDTAR KEAFTEARGA
RRGVKKVMVI VTDGESHDNH RLKKVIQDCE DENIQRFSIA ILGSYNRGNL STEKFVEEIK
SIASEPTEKH FFNVSDELAL VTIVKTLGER IFALEATADQ SAASFEMEMS QTGFSAHYSQ
DWVMLGAVGA YDWNGTVVMQ KASQIIIPRN TTFNVESTKK NEPLASYLGY TVNSATASSG
DVLYIAGQPR YNHTGQVIIY RMEDGNIKIL QTLSGEQIGS YFGSILTTTD IDKDSNTDIL
LVGAPMYMGT EKEEQGKVYV YALNQTRFEY QMSLEPIKQT
521 - 537 ccssrqhnsc ttenkne
538 - 1124 PCG ARFGTAIAAV KDLNLDGFND IVIGAPLEDD HGGAVYIYHG SGKTIRKEYA QRIPSGG
DGK TLKFFGQSIH GEMDLNGDGL TDVTIGGLGG AALFWSRDVA VVKVTMNFEP NKVNIQK
KNC HMEGKETVCI NATVCFEVKL KSKEDTIYEA DLQYRVTLDS LRQISRSFFS GTQERKV
QRN ITVRKSECTK HSFYMLDKHD FQDSVRITLD FNLTDPENGP VLDDSLPNSV HEYIPFA
KDC GNKEKCISDL SLHVATTEKD LLIVRSQNDK FNVSLTVKNT KDSAYNTRTI VHYSPNL
VFS GIEAIQKDSC ESNHNITCKV GYPFLRRGEM VTFKILFQFN TSYLMENVTI YLSATSD
SEE PPETLSDNVV NISIPVKYEV GLQFYSSASE YHISIAANET VPEVINSTED IGNEINI
FYL IRKSGSFPMP ELKLSISFPN MTSNGYPVLY PTGLSSSENA NCRPHIFEDP FSINSGK
KMT TSTDHLKRGT ILDCNTCKFA TITCNLTSSD ISQVNVSLIL WKPTFIKSYF SSLNLTI
RGE LRSENASLVL SSSNQKRELA IQISKDGLPG RVPLWVILLS AFAG
1125 - 1135 llllml lilal
1136 - 1151 WKIGF FKRPLKKKME K
low complexity regions: DUST
>tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
FNVDVKNSMTFSGPVEDMFGYTVQQYENEEGKWVLIGSPLVGQPKNRTGDVYKCPVGRGE
SLPCVKLDLPVNTSIPNVTEVKENMTFGSTLVTNPNGGFLACGPLYAYRCGHLHYTTGIC
SDVSPTFQVVNSIAPVQECSTQLDIVIVLDGSNSIYPWDSVTAFLNDLLKRMDIGPKQTQ
VGIVQYGENVTHEFNLNKYSSTEEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGA
RRGVKKVMVIVTDGESHDNHRLKKVIQDCEDENIQRFSIAILGSYNRGNLSTEKFVEEIK
SIASEPTEKHFFNVSDELALVTIVKTLGERIFALEATADQSAASFEMEMSQTGFSAHYSQ
DWVMLGAVGAYDWNGTVVMQKASQIIIPRNTTFNVESTKKNEPLASYLGYTVNSATASSG
DVLYIAGQPRYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDIL
LVGAPMYMGTEKEEQGKVYVYALNQTRFEYQMSLEPIKQTCCSSRQHNSCTTENKNEPCG
ARFGTAIAAVKDLNLDGFNDIVIGAPLEDDHGGAVYIYHGSGKTIRKEYAQRIPSGGDGK
TLKFFGQSIHGEMDLNGDGLTDVTIGGLGGAALFWSRDVAVVKVTMNFEPNKVNIQKKNC
HMEGKETVCINATVCFEVKLKSKEDTIYEADLQYRVTLDSLRQISRSFFSGTQERKVQRN
ITVRKSECTKHSFYMLDKHDFQDSVRITLDFNLTDPENGPVLDDSLPNSVHEYIPFAKDC
GNKEKCISDLSLHVATTEKDLLIVRSQNDKFNVSLTVKNTKDSAYNTRTIVHYSPNLVFS
GIEAIQKDSCESNHNITCKVGYPFLRRGEMVTFKILFQFNTSYLMENVTIYLSATSDSEE
PPETLSDNVVNISIPVKYEVGLQFYSSASEYHISIAANETVPEVINSTEDIGNEINIFYL
IRKSGSFPMPELKLSISFPNMTSNGYPVLYPTGLSSSENANCRPHIFEDPFSINSGKKMT
TSTDHLKRGTILDCNTCKFATITCNLTSSDISQVNVSLILWKPTFIKSYFSSLNLTIRGE
LRSENASLVLSSSNQKRELAIQISKDGLPGRVPLWVILLSAFAGLLLLMLLILALWKIGF
FKRPLKKKMEK
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
coiled coil prediction for tem30_gi|2829468|sp|P56199|ITA1_HUMAN
sequence: 1120 amino acids, 0 residue(s) in coiled coil state
. | . | . | . | . | . 60
FNVDVKNSMT FSGPVEDMFG YTVQQYENEE GKWVLIGSPL VGQPKNRTGD VYKCPVGRGE
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
SLPCVKLDLP VNTSIPNVTE VKENMTFGST LVTNPNGGFL ACGPLYAYRC GHLHYTTGIC
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
SDVSPTFQVV NSIAPVQECS TQLDIVIVLD GSNSIYPWDS VTAFLNDLLK RMDIGPKQTQ
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
VGIVQYGENV THEFNLNKYS STEEVLVAAK KIVQRGGRQT MTALGTDTAR KEAFTEARGA
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
RRGVKKVMVI VTDGESHDNH RLKKVIQDCE DENIQRFSIA ILGSYNRGNL STEKFVEEIK
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~144 4444444444 44422~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 360
SIASEPTEKH FFNVSDELAL VTIVKTLGER IFALEATADQ SAASFEMEMS QTGFSAHYSQ
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------- * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~12 2222222222 2222222222 ~~~~~~~~~~ ~~~~~~~~~~ * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . | . | . 420
DWVMLGAVGA YDWNGTVVMQ KASQIIIPRN TTFNVESTKK NEPLASYLGY TVNSATASSG
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
DVLYIAGQPR YNHTGQVIIY RMEDGNIKIL QTLSGEQIGS YFGSILTTTD IDKDSNTDIL
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
LVGAPMYMGT EKEEQGKVYV YALNQTRFEY QMSLEPIKQT CCSSRQHNSC TTENKNEPCG
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
ARFGTAIAAV KDLNLDGFND IVIGAPLEDD HGGAVYIYHG SGKTIRKEYA QRIPSGGDGK
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
TLKFFGQSIH GEMDLNGDGL TDVTIGGLGG AALFWSRDVA VVKVTMNFEP NKVNIQKKNC
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
HMEGKETVCI NATVCFEVKL KSKEDTIYEA DLQYRVTLDS LRQISRSFFS GTQERKVQRN
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
ITVRKSECTK HSFYMLDKHD FQDSVRITLD FNLTDPENGP VLDDSLPNSV HEYIPFAKDC
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
GNKEKCISDL SLHVATTEKD LLIVRSQNDK FNVSLTVKNT KDSAYNTRTI VHYSPNLVFS
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
GIEAIQKDSC ESNHNITCKV GYPFLRRGEM VTFKILFQFN TSYLMENVTI YLSATSDSEE
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
PPETLSDNVV NISIPVKYEV GLQFYSSASE YHISIAANET VPEVINSTED IGNEINIFYL
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
IRKSGSFPMP ELKLSISFPN MTSNGYPVLY PTGLSSSENA NCRPHIFEDP FSINSGKKMT
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 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
TSTDHLKRGT ILDCNTCKFA TITCNLTSSD ISQVNVSLIL WKPTFIKSYF SSLNLTIRGE
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~1 * 21 M'95 -w border
---------- ---------- ---------- ---------- ---------- ---------c * 21 M'95 -w register
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~1 * 21 M'95 +w polar
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 21 MTK -w class
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 28 M'95 -w signif.
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ * 14 M'95 -w local
. | . | . | . |
LRSENASLVL SSSNQKRELA IQISKDGLPG RVPLWVILLS
1111111111 1111111111 ~~~~~~~~~~ ~~~~~~~~~~
defgabcdef gabcdefgab ---------- ----------
1111111111 1111111111 ~~~~~~~~~~ ~~~~~~~~~~
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~
~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~ ~~~~~~~~~~
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
prediction of transmembrane regions with toppred2
***********************************
*TOPPREDM with eukaryotic function*
***********************************
tem30.___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: tem30.___inter___
(1 sequences)
FNVDVKNSMTFSGPVEDMFGYTVQQYENEEGKWVLIGSPLVGQPKNRTGD
VYKCPVGRGESLPCVKLDLPVNTSIPNVTEVKENMTFGSTLVTNPNGGFL
ACGPLYAYRCGHLHYTTGICSDVSPTFQVVNSIAPVQECSTQLDIVIVLD
GSNSIYPWDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEFNLNKYS
STEEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVI
VTDGESHDNHRLKKVIQDCEDENIQRFSIAILGSYNRGNLSTEKFVEEIK
SIASEPTEKHFFNVSDELALVTIVKTLGERIFALEATADQSAASFEMEMS
QTGFSAHYSQDWVMLGAVGAYDWNGTVVMQKASQIIIPRNTTFNVESTKK
NEPLASYLGYTVNSATASSGDVLYIAGQPRYNHTGQVIIYRMEDGNIKIL
QTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMGTEKEEQGKVYV
YALNQTRFEYQMSLEPIKQTCCSSRQHNSCTTENKNEPCGARFGTAIAAV
KDLNLDGFNDIVIGAPLEDDHGGAVYIYHGSGKTIRKEYAQRIPSGGDGK
TLKFFGQSIHGEMDLNGDGLTDVTIGGLGGAALFWSRDVAVVKVTMNFEP
NKVNIQKKNCHMEGKETVCINATVCFEVKLKSKEDTIYEADLQYRVTLDS
LRQISRSFFSGTQERKVQRNITVRKSECTKHSFYMLDKHDFQDSVRITLD
FNLTDPENGPVLDDSLPNSVHEYIPFAKDCGNKEKCISDLSLHVATTEKD
LLIVRSQNDKFNVSLTVKNTKDSAYNTRTIVHYSPNLVFSGIEAIQKDSC
ESNHNITCKVGYPFLRRGEMVTFKILFQFNTSYLMENVTIYLSATSDSEE
PPETLSDNVVNISIPVKYEVGLQFYSSASEYHISIAANETVPEVINSTED
IGNEINIFYLIRKSGSFPMPELKLSISFPNMTSNGYPVLYPTGLSSSENA
NCRPHIFEDPFSINSGKKMTTSTDHLKRGTILDCNTCKFATITCNLTSSD
ISQVNVSLILWKPTFIKSYFSSLNLTIRGELRSENASLVLSSSNQKRELA
IQISKDGLPGRVPLWVILLSAFAGLLLLMLLILALWKIGFFKRPLKKKME
K
(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 4 structures are to be tested
Candidate membrane-spanning segments:
Helix Begin End Score Certainity
1 85 105 0.878 Putative
2 617 637 0.754 Putative
3 1116 1136 2.490 Certain
----------------------------------------------------------------------
Structure 1
Transmembrane segments included in this structure:
Segment 1 2 3
Loop length 84 511 478 15
K+R profile + +
+ 7.00
CYT-EXT prof 1.60 0.74
0.81 -
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: -7.00
Tm probability: 0.27
-> Orientation: N-out
Charge-difference over N-terminal Tm (+-15 residues): -3.00
(NEG-POS)/(NEG+POS): 0.1579
NEG: 11.0000
POS: 8.0000
-> Orientation: N-out
CYT-EXT difference: 1.54
-> Orientation: N-out
----------------------------------------------------------------------
Structure 2
Transmembrane segments included in this structure:
Segment 2 3
Loop length 616 478 15
K+R profile + 7.00
+
CYT-EXT prof 1.14 -
0.74
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 7.00
Tm probability: 0.39
-> Orientation: N-in
Charge-difference over N-terminal Tm (+-15 residues): -1.00
(NEG-POS)/(NEG+POS): 0.1385
NEG: 74.0000
POS: 56.0000
-> Orientation: N-out
CYT-EXT difference: 0.40
-> Orientation: N-out
----------------------------------------------------------------------
Structure 3
Transmembrane segments included in this structure:
Segment 1 3
Loop length 84 1010 15
K+R profile + 7.00
+
CYT-EXT prof 1.60 -
0.84
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 7.00
Tm probability: 0.70
-> Orientation: N-in
Charge-difference over N-terminal Tm (+-15 residues): -3.00
(NEG-POS)/(NEG+POS): 0.1579
NEG: 11.0000
POS: 8.0000
-> Orientation: N-out
CYT-EXT difference: 0.76
-> Orientation: N-out
----------------------------------------------------------------------
Structure 4
Transmembrane segments included in this structure:
Segment 3
Loop length 1115 15
K+R profile +
7.00
CYT-EXT prof 1.00
-
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: -7.00
Tm probability: 1.00
-> Orientation: N-out
Charge-difference over N-terminal Tm (+-15 residues): -4.00
(NEG-POS)/(NEG+POS): 0.0962
NEG: 131.0000
POS: 108.0000
-> Orientation: N-out
CYT-EXT difference: 1.00
-> Orientation: N-out
----------------------------------------------------------------------
"tem30" 1151
85 105 #f 0.878125
617 637 #f 0.754167
1116 1136 #t 2.48958
************************************
*TOPPREDM with prokaryotic function*
************************************
tem30.___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: tem30.___inter___
(1 sequences)
FNVDVKNSMTFSGPVEDMFGYTVQQYENEEGKWVLIGSPLVGQPKNRTGD
VYKCPVGRGESLPCVKLDLPVNTSIPNVTEVKENMTFGSTLVTNPNGGFL
ACGPLYAYRCGHLHYTTGICSDVSPTFQVVNSIAPVQECSTQLDIVIVLD
GSNSIYPWDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEFNLNKYS
STEEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVI
VTDGESHDNHRLKKVIQDCEDENIQRFSIAILGSYNRGNLSTEKFVEEIK
SIASEPTEKHFFNVSDELALVTIVKTLGERIFALEATADQSAASFEMEMS
QTGFSAHYSQDWVMLGAVGAYDWNGTVVMQKASQIIIPRNTTFNVESTKK
NEPLASYLGYTVNSATASSGDVLYIAGQPRYNHTGQVIIYRMEDGNIKIL
QTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMGTEKEEQGKVYV
YALNQTRFEYQMSLEPIKQTCCSSRQHNSCTTENKNEPCGARFGTAIAAV
KDLNLDGFNDIVIGAPLEDDHGGAVYIYHGSGKTIRKEYAQRIPSGGDGK
TLKFFGQSIHGEMDLNGDGLTDVTIGGLGGAALFWSRDVAVVKVTMNFEP
NKVNIQKKNCHMEGKETVCINATVCFEVKLKSKEDTIYEADLQYRVTLDS
LRQISRSFFSGTQERKVQRNITVRKSECTKHSFYMLDKHDFQDSVRITLD
FNLTDPENGPVLDDSLPNSVHEYIPFAKDCGNKEKCISDLSLHVATTEKD
LLIVRSQNDKFNVSLTVKNTKDSAYNTRTIVHYSPNLVFSGIEAIQKDSC
ESNHNITCKVGYPFLRRGEMVTFKILFQFNTSYLMENVTIYLSATSDSEE
PPETLSDNVVNISIPVKYEVGLQFYSSASEYHISIAANETVPEVINSTED
IGNEINIFYLIRKSGSFPMPELKLSISFPNMTSNGYPVLYPTGLSSSENA
NCRPHIFEDPFSINSGKKMTTSTDHLKRGTILDCNTCKFATITCNLTSSD
ISQVNVSLILWKPTFIKSYFSSLNLTIRGELRSENASLVLSSSNQKRELA
IQISKDGLPGRVPLWVILLSAFAGLLLLMLLILALWKIGFFKRPLKKKME
K
(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 4 structures are to be tested
Candidate membrane-spanning segments:
Helix Begin End Score Certainity
1 85 105 0.878 Putative
2 617 637 0.754 Putative
3 1116 1136 2.490 Certain
----------------------------------------------------------------------
Structure 1
Transmembrane segments included in this structure:
Segment 1 2 3
Loop length 84 511 478 15
K+R profile + +
+ 7.00
CYT-EXT prof 1.60 0.74
0.81 -
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: -7.00
Tm probability: 0.27
-> Orientation: N-out
Charge-difference over N-terminal Tm (+-15 residues): -3.00
(NEG-POS)/(NEG+POS): 0.1579
NEG: 11.0000
POS: 8.0000
-> Orientation: N-out
CYT-EXT difference: 1.54
-> Orientation: N-out
----------------------------------------------------------------------
Structure 2
Transmembrane segments included in this structure:
Segment 2 3
Loop length 616 478 15
K+R profile + 7.00
+
CYT-EXT prof 1.14 -
0.74
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 7.00
Tm probability: 0.39
-> Orientation: N-in
Charge-difference over N-terminal Tm (+-15 residues): -1.00
(NEG-POS)/(NEG+POS): 0.1385
NEG: 74.0000
POS: 56.0000
-> Orientation: N-out
CYT-EXT difference: 0.40
-> Orientation: N-out
----------------------------------------------------------------------
Structure 3
Transmembrane segments included in this structure:
Segment 1 3
Loop length 84 1010 15
K+R profile + 7.00
+
CYT-EXT prof 1.60 -
0.84
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: 7.00
Tm probability: 0.70
-> Orientation: N-in
Charge-difference over N-terminal Tm (+-15 residues): -3.00
(NEG-POS)/(NEG+POS): 0.1579
NEG: 11.0000
POS: 8.0000
-> Orientation: N-out
CYT-EXT difference: 0.76
-> Orientation: N-out
----------------------------------------------------------------------
Structure 4
Transmembrane segments included in this structure:
Segment 3
Loop length 1115 15
K+R profile +
7.00
CYT-EXT prof 1.00
-
For CYT-EXT profile neg. values indicate cytoplasmic preference.
K+R difference: -7.00
Tm probability: 1.00
-> Orientation: N-out
Charge-difference over N-terminal Tm (+-15 residues): -4.00
(NEG-POS)/(NEG+POS): 0.0962
NEG: 131.0000
POS: 108.0000
-> Orientation: N-out
CYT-EXT difference: 1.00
-> Orientation: N-out
----------------------------------------------------------------------
"tem30" 1151
85 105 #f 0.878125
617 637 #f 0.754167
1116 1136 #t 2.48958
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
NOW EXECUTING: /bio_software/1D/stat/saps/saps-stroh/SAPS.SSPA/saps /people/maria/tem30.___saps___
SAPS. Version of April 11, 1996.
Date run: Tue Oct 31 15:44:49 2000
File: /people/maria/tem30.___saps___
ID tem30_gi|2829468|sp|P56199|ITA1_HUMAN
DE INTEGRIN ALPHA-1 (LAMININ AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
number of residues: 1151; molecular weight: 127.8 kdal
1 FNVDVKNSMT FSGPVEDMFG YTVQQYENEE GKWVLIGSPL VGQPKNRTGD VYKCPVGRGE
61 SLPCVKLDLP VNTSIPNVTE VKENMTFGST LVTNPNGGFL ACGPLYAYRC GHLHYTTGIC
121 SDVSPTFQVV NSIAPVQECS TQLDIVIVLD GSNSIYPWDS VTAFLNDLLK RMDIGPKQTQ
181 VGIVQYGENV THEFNLNKYS STEEVLVAAK KIVQRGGRQT MTALGTDTAR KEAFTEARGA
241 RRGVKKVMVI VTDGESHDNH RLKKVIQDCE DENIQRFSIA ILGSYNRGNL STEKFVEEIK
301 SIASEPTEKH FFNVSDELAL VTIVKTLGER IFALEATADQ SAASFEMEMS QTGFSAHYSQ
361 DWVMLGAVGA YDWNGTVVMQ KASQIIIPRN TTFNVESTKK NEPLASYLGY TVNSATASSG
421 DVLYIAGQPR YNHTGQVIIY RMEDGNIKIL QTLSGEQIGS YFGSILTTTD IDKDSNTDIL
481 LVGAPMYMGT EKEEQGKVYV YALNQTRFEY QMSLEPIKQT CCSSRQHNSC TTENKNEPCG
541 ARFGTAIAAV KDLNLDGFND IVIGAPLEDD HGGAVYIYHG SGKTIRKEYA QRIPSGGDGK
601 TLKFFGQSIH GEMDLNGDGL TDVTIGGLGG AALFWSRDVA VVKVTMNFEP NKVNIQKKNC
661 HMEGKETVCI NATVCFEVKL KSKEDTIYEA DLQYRVTLDS LRQISRSFFS GTQERKVQRN
721 ITVRKSECTK HSFYMLDKHD FQDSVRITLD FNLTDPENGP VLDDSLPNSV HEYIPFAKDC
781 GNKEKCISDL SLHVATTEKD LLIVRSQNDK FNVSLTVKNT KDSAYNTRTI VHYSPNLVFS
841 GIEAIQKDSC ESNHNITCKV GYPFLRRGEM VTFKILFQFN TSYLMENVTI YLSATSDSEE
901 PPETLSDNVV NISIPVKYEV GLQFYSSASE YHISIAANET VPEVINSTED IGNEINIFYL
961 IRKSGSFPMP ELKLSISFPN MTSNGYPVLY PTGLSSSENA NCRPHIFEDP FSINSGKKMT
1021 TSTDHLKRGT ILDCNTCKFA TITCNLTSSD ISQVNVSLIL WKPTFIKSYF SSLNLTIRGE
1081 LRSENASLVL SSSNQKRELA IQISKDGLPG RVPLWVILLS AFAGLLLLML LILALWKIGF
1141 FKRPLKKKME K
--------------------------------------------------------------------------------
COMPOSITIONAL ANALYSIS (extremes relative to: swp23s)
A : 56( 4.9%); C : 23( 2.0%); D : 59( 5.1%); E : 73( 6.3%); F : 50( 4.3%)
G : 80( 7.0%); H : 22( 1.9%); I : 78( 6.8%); K : 73( 6.3%); L : 93( 8.1%)
M : 25( 2.2%); N : 71( 6.2%); P : 44( 3.8%); Q : 42( 3.6%); R : 42( 3.6%)
S :100( 8.7%); T : 86( 7.5%); V : 85( 7.4%); W : 8( 0.7%); Y : 41( 3.6%)
KR : 115 ( 10.0%); ED : 132 ( 11.5%); AGP : 180 ( 15.6%);
KRED : 247 ( 21.5%); KR-ED : -17 ( -1.5%); FIKMNY : 338 ( 29.4%);
LVIFM : 331 ( 28.8%); ST : 186 ( 16.2%).
--------------------------------------------------------------------------------
CHARGE DISTRIBUTIONAL ANALYSIS
1 000-0+0000 00000--000 000000-0-- 0+00000000 0000+0+00- 00+0000+0-
61 00000+0-00 000000000- 0+-0000000 0000000000 00000000+0 0000000000
121 0-00000000 0000000-00 000-00000- 00000000-0 000000-00+ +0-000+000
181 0000000-00 00-0000+00 00--00000+ +000+00+00 000000-00+ +-000-0+00
241 ++00++0000 00-0-00-00 +0++000-0- --000+0000 000000+000 00-+00--0+
301 0000-00-+0 00000--000 0000+000-+ 0000-000-0 00000-0-00 0000000000
361 -000000000 0-00000000 +0000000+0 00000-00++ 0-00000000 0000000000
421 -00000000+ 0000000000 +0--000+00 00000-0000 000000000- 0-+-000-00
481 0000000000 -+--00+000 000000+0-0 0000-00+00 0000+00000 00-0+0-000
541 0+00000000 +-000-000- 0000000--- 0000000000 00+00++-00 0+00000-0+
601 00+0000000 0-0-000-00 0-00000000 000000+-00 00+00000-0 0+0000++00
661 00-0+-0000 000000-0+0 +0+--000-0 -000+000-0 0+000+0000 000-++00+0
721 000++0-00+ 000000-+0- 00-00+000- 0000-0-000 00--000000 0-00000+-0
781 00+-+000-0 0000000-+- 0000+000-+ 0000000+00 +-00000+00 0000000000
841 00-000+-00 -0000000+0 00000++0-0 000+000000 00000-0000 000000-0--
901 00-000-000 000000+0-0 000000000- 00000000-0 00-00000-- 000-000000
961 0++0000000 -0+0000000 0000000000 0000000-00 00+0000--0 000000++00
1021 000-00++00 00-0000+00 000000000- 0000000000 0+0000+000 0000000+0-
1081 0+0-000000 00000++-00 0000+-0000 +000000000 0000000000 000000+000
1141 0++00+++0- +
A. CHARGE CLUSTERS.
Positive charge clusters (cmin = 10/30 or 13/45 or 16/60): none
Negative charge clusters (cmin = 11/30 or 14/45 or 17/60): none
Mixed charge clusters (cmin = 16/30 or 22/45 or 27/60): 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.
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 | 42 | 10 | 10 | 14 | 12 | 13 | 16 | 7 | 9 |
lmin1 6 | 7 | 9 | 50 | 12 | 13 | 16 | 15 | 15 | 20 | 8 | 11 |
lmin2 8 | 8 | 11 | 56 | 14 | 14 | 18 | 17 | 17 | 22 | 10 | 12 |
(Significance level: 0.010000; Minimal displayed length: 6)
There are no charge runs or patterns exceeding the given minimal lengths.
Run count statistics:
+ runs >= 3: 1, at 1146;
- runs >= 4: 0
* runs >= 5: 0
0 runs >= 28: 0
--------------------------------------------------------------------------------
DISTRIBUTION OF OTHER AMINO ACID TYPES
1. HIGH SCORING SEGMENTS.
__________________________________
High scoring hydrophobic segments:
2.00 (LVIFM) 1.00 (AGYCW) 0.00 (BZX) -2.00 (PH) -4.00 (STNQ)
-8.00 (KEDR)
Expected score/letter: -2.115
M_0.01= 25.97; M_0.05= 21.93
1) From 1114 to 1136: length= 23, score=34.00 **
1114 LWVILLSAFA GLLLLMLLIL ALW
L: 11(47.8%); A: 3(13.0%);
____________________________________
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: -3.689
M_0.01= 64.72; M_0.05= 54.27; M_0.30= 41.83
1) From 1114 to 1135: length= 22, score=82.00 **
1114 LWVILLSAFA GLLLLMLLIL AL
L: 11(50.0%); A: 3(13.6%);
2. SPACINGS OF C.
H2N-53-C-9-C-37-C-7-C-9-C-18-C-129-C-251-C-C-7-C-8-C-120-C-8-C-5-C-52-C-51-C-5-C-63-C-7-C-143-C-31-C-2-C-6-C-107-COOH
2*. SPACINGS OF C and H. (additional deluxe function for ALEX)
H2N-53-C-9-C-37-C-7-C-1-H-1-H-5-C-18-C-52-H-64-H-2-H-8-C-40-H-46-H-75-H-87-C-C-4-H-2-C-8-C-31-H-7-H-30-H-49-C-H-7-C-5-C-52-C-2-H-7-H-31-H-8-C-5-C-6-H-38-H-17-C-3-H-3-C-73-H-69-C-2-H-19-H-8-C-2-C-6-C-107-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
--------------------------------------------------------------------------------
MULTIPLETS.
A. AMINO ACID ALPHABET.
1. Total number of amino acid multiplets: 60 (Expected range: 41-- 88)
2. Histogram of spacings between consecutive amino acid multiplets:
(1-5) 17 (6-10) 9 (11-20) 14 (>=21) 21
3. Clusters of amino acid multiplets (cmin = 10/30 or 13/45 or 15/60): none
B. CHARGE ALPHABET.
1. Total number of charge multiplets: 32 (Expected range: 9-- 39)
18 +plets (f+: 10.0%), 14 -plets (f-: 11.5%)
Total number of charge altplets: 23 (Critical number: 43)
2. Histogram of spacings between consecutive charge multiplets:
(1-5) 3 (6-10) 6 (11-20) 7 (>=21) 17
--------------------------------------------------------------------------------
PERIODICITY ANALYSIS.
A. AMINO ACID ALPHABET (core: 4; !-core: 5)
Location Period Element Copies Core Errors
1081-1143 9 L........ 6 4 1
1125-1131 1 L 6 4 1
B. CHARGE ALPHABET ({+= KR; -= ED; 0}; core: 5; !-core: 7)
and HYDROPHOBICITY ALPHABET ({*= KRED; i= LVIF; 0}; core: 6; !-core:10)
Location Period Element Copies Core Errors
1081-1143 9 i........ 7 7 0
1116-1133 3 i.. 6 6 0
1125-1133 1 i 9 9 0
1126-1143 3 i.. 6 6 0
-----------------------------
---------------------------------------------------
SPACING ANALYSIS.
Location (Quartile) Spacing Rank P-value Interpretation
0- 2 (1.) N( 2)N 72 of 72 0.0001 large minimal spacing
94- 96 (1.) N( 2)N 67 of 72 0.0001 matching minimum
195- 197 (1.) N( 2)N 68 of 72 0.0001 matching minimum
534- 536 (2.) N( 2)N 69 of 72 0.0001 matching minimum
853- 855 (3.) N( 2)N 70 of 72 0.0001 matching minimum
999-1001 (4.) N( 2)N 71 of 72 0.0001 matching minimum
~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~ ~~~~~
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: tem30
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
FG-GAP FG-GAP repeat 236.7 3.2e-67 5
vwa von Willebrand factor type A domain 229.7 4.3e-65 1
integrin_A Integrin alpha cytoplasmic region 18.0 0.091 1
Kelch Kelch motif 12.3 5.9 1
FKBP FKBP-type peptidyl-prolyl cis-trans i 5.7 1.5 1
SQS_PSY Squalene and phytoene synthases 2.4 12 1
jmjN jmjN domain 1.6 74 1
E1-E2_ATPase E1-E2 ATPase 0.1 52 1
Leptin Leptin -0.6 72 1
isodh Isocitrate and isopropylmalate dehydr -1.4 83 1
B1 Protein L b1 domain -7.5 48 1
Transglutamin_N Transglutaminase family -62.1 31 1
CDP-OH_P_transf CDP-alcohol phosphatidyltransferase -63.6 97 1
Aldose_epim Aldose 1-epimerase -209.5 79 1
Orbi_VP5 Orbivirus outer capsid protein VP5 -276.5 51 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
FG-GAP 1/5 16 75 .. 1 63 [] 33.9 3.8e-06
E1-E2_ATPase 1/1 59 94 .. 87 119 .. 0.1 52
Leptin 1/1 165 178 .. 133 146 .] -0.6 72
B1 1/1 196 265 .. 1 71 [] -7.5 48
isodh 1/1 282 299 .. 379 398 .] -1.4 83
vwa 1/1 144 327 .. 1 200 [] 229.7 4.3e-65
Kelch 1/1 410 454 .. 1 35 [] 12.3 5.9
FG-GAP 2/5 405 457 .. 1 63 [] 37.5 3.1e-07
FG-GAP 3/5 459 520 .. 1 63 [] 60.2 4.5e-14
FG-GAP 4/5 540 599 .. 1 63 [] 68.4 1.5e-16
FG-GAP 5/5 602 654 .. 1 63 [] 38.2 1.9e-07
FKBP 1/1 671 681 .. 101 111 .] 5.7 1.5
SQS_PSY 1/1 701 714 .. 1 14 [. 2.4 12
Aldose_epim 1/1 633 880 .. 1 367 [] -209.5 79
Transglutamin_N 1/1 834 927 .. 1 131 [] -62.1 31
jmjN 1/1 985 992 .. 1 8 [. 1.6 74
Orbi_VP5 1/1 554 1032 .. 1 510 [] -276.5 51
CDP-OH_P_transf 1/1 1022 1138 .. 1 175 [] -63.6 97
integrin_A 1/1 1137 1151 .] 1 15 [] 18.0 0.091
Alignments of top-scoring domains:
FG-GAP: domain 1 of 5, from 16 to 75: score 33.9, E = 3.8e-06
*->gsyFGySvalgDlngDgypDllVGAPragdqtqkgknetGaVyiyrg
+FGy+v ++ ++l+G+P+ g q+ kn+tG Vy +++
tem30_gi|2 16 EDMFGYTVQQYENEEGK--WVLIGSPLVG-QP---KNRTGDVYKCPV 56
rpg..rvcpsqvldg.gia<-*
+g++ +c+++ l ++ +
tem30_gi|2 57 GRGesLPCVKLDLPVnTSI 75
E1-E2_ATPase: domain 1 of 1, from 59 to 94: score 0.1, E = 52
*->GESlPVeKhsdvvtp..dnp.lergnmVfaGTlvvs<-*
GESlP K + +v + n++ + nm f++Tlv++
tem30_gi|2 59 GESLPCVKLDLPVNTsiPNVtEVKENMTFGSTLVTN 94
Leptin: domain 1 of 1, from 165 to 178: score -0.6, E = 72
*->LqDmLrqLDlsPgC<-*
L D+L+++D+ P
tem30_gi|2 165 LNDLLKRMDIGPKQ 178
B1: domain 1 of 1, from 196 to 265: score -7.5, E = 48
*->tPEedskEevtiKanlifadGstqtAeFKGtFaeAtaEAYrYADlLk
s Eev + a i + G qt + Gt + A EA+ A +
tem30_gi|2 196 LNKYSSTEEVLVAAKKIVQRGGRQTMTALGT-DTARKEAFTEARGAR 241
KenGkYtaDleDgGYtinirFAGK<-*
+ k + + Dg n r
tem30_gi|2 242 RGVKKVMVIVTDGESHDNHRLKKV 265
isodh: domain 1 of 1, from 282 to 299: score -1.4, E = 83
*->LggeadGakyvsTsemgdav<-*
Lg++++ +sT+++++++
tem30_gi|2 282 LGSYNR--GNLSTEKFVEEI 299
vwa: domain 1 of 1, from 144 to 327: score 229.7, E = 4.3e-65
*->DivFLlDGSgSigsqnFervKdFvervverLdvgprdkkeedavrVg
Div++lDGS+Si++ ++ v +F++++ r+d+gp ++ ++Vg
tem30_gi|2 144 DIVIVLDGSNSIYP--WDSVTAFLNDLLKRMDIGP-KQ-----TQVG 182
lvQYSdnvrtEikfklndyqnkdevlqalqkiryedyyggggtnTgaALq
+vQY++nv++E f+ln y++ +evl a++ki+ ++gg +t+T+ + +
tem30_gi|2 183 IVQYGENVTHE--FNLNKYSSTEEVLVAAKKIV---QRGGRQTMTALGTD 227
yvvrnlfteasGsRiepvaeegapkvlVvlTDGrsqddpspTidirdvln
++++++ftea+G+R +g++kv+V++TDG+s+d+ + +++v++
tem30_gi|2 228 TARKEAFTEARGAR------RGVKKVMVIVTDGESHDNHR----LKKVIQ 267
elkkeagvevfaiGvGnadn.......nnleeLreIAskpd.dhvfkvsd
+ + +++++f+i++ + +n+++ ++++++ee+++IAs+p+++h+f+vsd
tem30_gi|2 268 DCED-ENIQRFSIAILGSYNrgnlsteKFVEEIKSIASEPTeKHFFNVSD 316
feaLdtlqelL<-*
aL t+++ L
tem30_gi|2 317 ELALVTIVKTL 327
Kelch: domain 1 of 1, from 410 to 454: score 12.3, E = 5.9
*->pRsgagvvvlggkiYviG.........vevYDpe.ntWeklpsmp<-
++ ++++ g+ +Y++G ++ ++++ v +Y e++ ++l +++
tem30_gi|2 410 YTVNSATASSGDVLYIAGqprynhtgqVIIYRMEdGNIKILQTLS 454
*
tem30_gi|2 - -
FG-GAP: domain 2 of 5, from 405 to 457: score 37.5, E = 3.1e-07
*->gsyFGySva.lgDlngDgypDllVGAPragdqtqkgknetGaVyiyr
sy+Gy+v +++ gD ++++G Pr++ + tG+V iyr
tem30_gi|2 405 ASYLGYTVNsATASSGDV--LYIAGQPRYN--H------TGQVIIYR 441
grpgrvcpsqvldg.gia<-*
+ + ++ ++ ++ +g++
tem30_gi|2 442 MED--GNIKILQTLsGEQ 457
FG-GAP: domain 3 of 5, from 459 to 520: score 60.2, E = 4.5e-14
*->gsyFGySvalgDlngDgy.pDllVGAPragdqtqkgknetGaVyiyr
gsyFG+ ++ +D+++D+ ++ llVGAP+++ +t k+e+G+Vy+y
tem30_gi|2 459 GSYFGSILTTTDIDKDSNtDILLVGAPMYM-GT--EKEEQGKVYVYA 502
grpgrvcpsqvldg.gia<-*
++ r++++++l++ +++
tem30_gi|2 503 LNQTRFEYQMSLEPiKQT 520
FG-GAP: domain 4 of 5, from 540 to 599: score 68.4, E = 1.5e-16
*->gsyFGySvalg.DlngDgypDllVGAPragdqtqkgknetGaVyiyr
g++FG ++a+++Dln Dg++D+++GAP+++ +++GaVyiy+
tem30_gi|2 540 GARFGTAIAAVkDLNLDGFNDIVIGAPLED-------DHGGAVYIYH 579
grpg..rvcpsqvldg.gia<-*
g++ + r +++q++ ++g +
tem30_gi|2 580 GSGKtiRKEYAQRIPSgGDG 599
FG-GAP: domain 5 of 5, from 602 to 654: score 38.2, E = 1.9e-07
*->gsyFGySva.lgDlngDgypDllVGAPragdqtqkgknetGaVyiyr
+FG+S+++ +DlngDg++D+ +G G + +++
tem30_gi|2 602 LKFFGQSIHgEMDLNGDGLTDVTIGG-------------LGGAALFW 635
grpg.rvcpsqvldg.gia<-*
+r++ +v++++++++++++
tem30_gi|2 636 SRDVaVVKVTMNFEPnKVN 654
FKBP: domain 1 of 1, from 671 to 681: score 5.7, E = 1.5
*->naTLvFeVELl<-*
naT++FeV L+
tem30_gi|2 671 NATVCFEVKLK 681
SQS_PSY: domain 1 of 1, from 701 to 714: score 2.4, E = 12
*->laqgSkSFalairL<-*
l+q S+SF+ ++++
tem30_gi|2 701 LRQISRSFFSGTQE 714
Aldose_epim: domain 1 of 1, from 633 to 880: score -209.5, E = 79
*->ffnakdgqdyrliTlgnnngGKfqVsfanlGATlvdlkVngesGlkn
f + d + + ++T+ + + kVn ++
tem30_gi|2 633 LFWSRDVA-VVKVTMNFEPN-----------------KVNIQK---- 657
iVLGfdnlkgYlkddnKEGaffGAtIGRYANRIakgkFsln.........
k++ ++ KE ++ At+ F+ ++++++
tem30_gi|2 658 --------KNCHMEG-KETVCINATV----------CFEVKlkskedtiy 688
..gktyqLtvNnlggNsLHsGieGfdkrrwlgpivktNpkddvvtaeFkL
+ + y +t+ + s +G + r+ + i + k + ++ +F
tem30_gi|2 689 eaDLQYRVTLDS-LRQISRSFFSGTQERKVQRNITV--RKSECTKHSFYM 735
idddgdqGPEFPGdLeVtVqYtLndankGGtLkIeYeAklveEsggesTp
+d + q + t+ L+d + + +++ +s p
tem30_gi|2 736 LDKHDFQD-----SVRITLDFNLTDPEN---------GPVLD----DSLP 767
vNlTNHsYFNLnkaenksdirgtevqllsdksLeV..deneliPTGkivs
+ H Y + a++ g + + +sd sL V ++e++l+ iv
tem30_gi|2 768 NSV--HEY--IPFAKD----CGNKEKCISDLSLHVatTEKDLL----IVR 805
vTdittFDfrkPtvLgpdipafDyqfvvkenyDqafldtrssndklkpva
+ +++ F+ + L+ ++ + y+ +++ s n
tem30_gi|2 806 S-QNDKFNVS----LTVKNTKDS-------AYNTRTIVHYSPN------- 836
klthpdskltleVlTTePtlqfYTGDyLdgnivraGelYedrsGfAlEag
+++G +++ +E+
tem30_gi|2 837 --------------------LVFSGIEAIQKDS-------------CESN 853
rypDAiNhpeWkdycviLkkGetYgskteYkFe<-*
+ + +++ +L++Ge ++ k+ ++F
tem30_gi|2 854 HNIT--CKVGYP----FLRRGEMVTFKILFQFN 880
Transglutamin_N: domain 1 of 1, from 834 to 927: score -62.1, E = 31
*->seelvvesvdlekdeNrreHHTlMYDdeyssqrLiVRRGQ..pFsit
s +lv+ ++ ++ ++ H + +++RRG +F i+
tem30_gi|2 834 SPNLVFSGIEAIQKDSCESNHN----ITCKVGYPFLRRGEmvTFKIL 876
LvfsgPRpyePskDkLkLefttGpqkPsetkgTkvvfpvsdsdldsggWs
+f+ y+ + +++ ++ ++ se+ p+ +
tem30_gi|2 877 FQFN--TSYL--MENVTIYLSATSD--SEE-------PPETL-------- 905
AvlqkqdgnVeltLsitSPAnAiiGkYrLtvevstp<-*
++n +++i++P+ kY ++ +
tem30_gi|2 906 ------SDN---VVNISIPV-----KYEVGLQFYSS 927
jmjN: domain 1 of 1, from 985 to 992: score 1.6, E = 74
*->eiPvfyPt<-*
++Pv+yPt
tem30_gi|2 985 GYPVLYPT 992
Orbi_VP5: domain 1 of 1, from 554 to 1032: score -276.5, E = 51
*->sLsrfGkkvgnA.LTSn..tAKkiYktiGktaerfaESeiGSAAIDG
L f v +A+L +++ A iY Gkt+ + i S DG
tem30_gi|2 554 NLDGFNDIVIGApLEDDhgGAVYIYHGSGKTIRKEYAQRIPSGG-DG 599
lvQGsvqSiitGEsyGesvKqAVlLNVlGtgeeiPDPLspGEqgiqakvk
t +G+s+ LN G + L + v
tem30_gi|2 600 K---------TLKFFGQSIHGEMDLNGDGLTDVTIGGLGGAALFWSRDVA 640
ElEdeekeelVrekhNkkIiekFGkdLeevykfmkgeakaevlekkqfe.
+ + e + kk Gk+ + + e+k e+ +e
tem30_gi|2 641 VVKVTMNFEPNKVNIQKKNCHMEGKETVCINATVCFEVKLKSKEDTIYEa 690
..ileKAltsylkilkdeserltrLarALQkEedeRtkdEtrMvkEYReK
+ + + l s+ +i + ++ + +r Q+ + R ++ t+ +K
tem30_gi|2 691 dlQYRVTLDSLRQISRSFFSGTQ--ERKVQRNITVRKSECTKHSFYMLDK 738
idALKnAIEiErdgiqeEAiQEiaglsadVlEaAsEEVPlfGAGvAtavA
d Q + ++ d + E P++ ++v
tem30_gi|2 739 HD-----------------FQDSVRITLDFNLTDPENGPVLDDSLPNSVH 771
..TtRAIeGgyKLKkvinaLsGIDLSHLrvpkIePkiiekileadtkeeI
+ A + g K K + DLS L v+ e + + d+
tem30_gi|2 772 eyIPFAKDCGNKEKCI------SDLS-LHVATTEKDLLIVRSQNDKF--- 811
pDksLavaiksKveaidennnEvlHikdeiLpkvkkameeehKEIegieD
+ +k+ + + ++ + H + +a +++ +
tem30_gi|2 812 ---NVSLTVKNTKDSAYNTRT-IVHYSPNLVFSGIEAIQKD----SCESN 853
kkihpkv.........pmrlKi.....pseqqPkihIY.saPWDSDdVFm
i kv+ + +++++ +Ki + + s + IY sa DS +
tem30_gi|2 854 HNITCKVgypflrrgeMVTFKIlfqfnTSYLMENVTIYlSATSDSEE--P 901
fhcIshHHqneSfflGFDLeieyVhyEDltvhwHalhGaAqeveGRtlre
s n S + + ++ + ++ H+ + + e
tem30_gi|2 902 PETLSDNVVNISIPVKYEVGLQ---FYSSASEYHIS----IAAN-----E 939
AYsEFlnlAismpytpelHkrrliRSkgvHPIYlGsmhYdisYeqLksNa
E +n + + e+ liR g+ P + + is+ ++ sN
tem30_gi|2 940 TVPEVIN--STEDIGNEINIFYLIRKSGSFP--MPELKLSISFPNMTSNG 985
lriVyDseL........QmHiLRGPlhfqrRailnALkfGvK...vl<-*
+ y + L+++++ + Hi P + + + + K++++l
tem30_gi|2 986 YPVLYPTGLsssenancRPHIFEDPFSINSGKKMTTSTDHLKrgtIL 1032
CDP-OH_P_transf: domain 1 of 1, from 1022 to 1138: score -63.6, E = 97
*->allfllasitDwlDGyiARklnqvtrFGafLDPvaDkllvvialiiL
tD l + G++LD + + ++++++ L
tem30_gi|2 1022 --------STDHL------------KRGTILDCNT--CKFATITCNL 1046
aylglvpwwltipaalil....gvaSHYmhrelllsglrevlaylglkep
+ + ++ + ++ lil ++++ + + s+l + ++ + ++e+
tem30_gi|2 1047 TSSD-ISQVNVS---LILwkptF-------IKSYFSSLNLTIRGELRSEN 1085
aiavlyygkrktiftCAsaqivaiallLlgfslqsvlvgseiysklagvi
a +vl ++k+ +ai++++ g++ +++++++
tem30_gi|2 1086 ASLVLSSSNQKRE--------LAIQISKDGLP-----------GRVPLWV 1116
fwfilaaslcgyiaavltlitglqyvvaalay<-*
+ a+ +l + ++ a+++
tem30_gi|2 1117 IL----------LSAFAGLLLLMLLILALWKI 1138
integrin_A: domain 1 of 1, from 1137 to 1151: score 18.0, E = 0.091
*->KcGFFKRkrkpqeee<-*
K GFFKR k+++e
tem30_gi|2 1137 KIGFFKRPLKKKMEK 1151
//
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: tem30
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
vwa von Willebrand factor type A domain 227.8 7.4e-66 1
FG-GAP FG-GAP repeat 227.5 2e-64 5
integrin_A Integrin alpha cytoplasmic region 16.1 0.0012 1
Kelch Kelch motif 10.3 0.25 1
FKBP FKBP-type peptidyl-prolyl cis-trans i 5.7 1.5 1
Aldose_epim Aldose 1-epimerase 5.1 2.2 1
Smr Smr domain 3.2 21 1
SQS_PSY Squalene and phytoene synthases 2.4 12 1
PsbJ PsbJ 1.6 45 1
jmjN jmjN domain 1.6 74 1
Opiods_neuropep Vertebrate endogenous opioids neurope 1.5 18 1
SRCR Scavenger receptor cysteine-rich doma 1.3 53 1
DUF5 HAMP domain 1.3 87 1
Chromate_transp Chromate transporter 0.7 53 1
UPF0054 Uncharacterized protein family UPF005 0.6 81 1
E1-E2_ATPase E1-E2 ATPase 0.1 52 1
P5CR Delta 1-pyrroline-5-carboxylate reduc 0.1 57 1
Leptin Leptin -0.6 72 1
isodh Isocitrate and isopropylmalate dehydr -1.4 83 1
Orbi_VP5 Orbivirus outer capsid protein VP5 -2.0 84 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
FG-GAP 1/5 16 75 .. 1 63 [] 32.0 9.1e-08
E1-E2_ATPase 1/1 59 94 .. 87 119 .. 0.1 52
Leptin 1/1 165 178 .. 133 146 .] -0.6 72
Orbi_VP5 1/1 212 231 .. 1 20 [. -2.0 84
Smr 1/1 261 279 .. 14 32 .. 3.2 21
isodh 1/1 282 299 .. 379 398 .] -1.4 83
vwa 1/1 144 327 .. 1 200 [] 227.8 7.4e-66
Kelch 1/1 410 454 .. 1 35 [] 10.3 0.25
FG-GAP 2/5 405 457 .. 1 63 [] 35.7 7.7e-09
FG-GAP 3/5 459 520 .. 1 63 [] 58.2 2.2e-15
P5CR 1/1 544 561 .. 256 273 .] 0.1 57
FG-GAP 4/5 540 599 .. 1 63 [] 66.5 9.2e-18
FG-GAP 5/5 602 654 .. 1 63 [] 36.4 4.8e-09
FKBP 1/1 671 681 .. 101 111 .] 5.7 1.5
UPF0054 1/1 682 695 .. 1 14 [. 0.6 81
SQS_PSY 1/1 701 714 .. 1 14 [. 2.4 12
Aldose_epim 1/1 864 880 .. 351 367 .] 5.1 2.2
Opiods_neuropep 1/1 898 912 .. 253 267 .] 1.5 18
jmjN 1/1 985 992 .. 1 8 [. 1.6 74
SRCR 1/1 1034 1045 .. 101 113 .] 1.3 53
PsbJ 1/1 1103 1131 .. 1 24 [. 1.6 45
Chromate_transp 1/1 1110 1134 .. 153 177 .] 0.7 53
DUF5 1/1 1119 1147 .. 1 29 [. 1.3 87
integrin_A 1/1 1137 1151 .] 1 15 [] 16.1 0.0012
Alignments of top-scoring domains:
FG-GAP: domain 1 of 5, from 16 to 75: score 32.0, E = 9.1e-08
*->gsyFGySvalgDlngDgypDllVGAPragdqtqkgknetGaVyiyrg
+FGy+v ++ ++l+G+P+ g q+ kn+tG Vy +++
tem30_gi|2 16 EDMFGYTVQQYENEEGK--WVLIGSPLVG-QP---KNRTGDVYKCPV 56
rpg..rvcpsqvldg.gia<-*
+g++ +c+++ l ++ +
tem30_gi|2 57 GRGesLPCVKLDLPVnTSI 75
E1-E2_ATPase: domain 1 of 1, from 59 to 94: score 0.1, E = 52
*->GESlPVeKhsdvvtp..dnp.lergnmVfaGTlvvs<-*
GESlP K + +v + n++ + nm f++Tlv++
tem30_gi|2 59 GESLPCVKLDLPVNTsiPNVtEVKENMTFGSTLVTN 94
Leptin: domain 1 of 1, from 165 to 178: score -0.6, E = 72
*->LqDmLrqLDlsPgC<-*
L D+L+++D+ P
tem30_gi|2 165 LNDLLKRMDIGPKQ 178
Orbi_VP5: domain 1 of 1, from 212 to 231: score -2.0, E = 84
*->sLsrfGkkvgnALTSntAKk<-*
+r G+ + AL +tA+k
tem30_gi|2 212 IVQRGGRQTMTALGTDTARK 231
Smr: domain 1 of 1, from 261 to 279: score 3.2, E = 21
*->eLekfiaqAllaglpkveI<-*
+L k i++++++++++++I
tem30_gi|2 261 RLKKVIQDCEDENIQRFSI 279
isodh: domain 1 of 1, from 282 to 299: score -1.4, E = 83
*->LggeadGakyvsTsemgdav<-*
Lg++++ +sT+++++++
tem30_gi|2 282 LGSYNR--GNLSTEKFVEEI 299
vwa: domain 1 of 1, from 144 to 327: score 227.8, E = 7.4e-66
*->DivFLlDGSgSigsqnFervKdFvervverLdvgprdkkeedavrVg
Div++lDGS+Si++ ++ v +F++++ r+d+gp ++ ++Vg
tem30_gi|2 144 DIVIVLDGSNSIYP--WDSVTAFLNDLLKRMDIGP-KQ-----TQVG 182
lvQYSdnvrtEikfklndyqnkdevlqalqkiryedyyggggtnTgaALq
+vQY++nv++E f+ln y++ +evl a++ki+ ++gg +t+T+ + +
tem30_gi|2 183 IVQYGENVTHE--FNLNKYSSTEEVLVAAKKIV---QRGGRQTMTALGTD 227
yvvrnlfteasGsRiepvaeegapkvlVvlTDGrsqddpspTidirdvln
++++++ftea+G+R +g++kv+V++TDG+s+d+ + +++v++
tem30_gi|2 228 TARKEAFTEARGAR------RGVKKVMVIVTDGESHDNHR----LKKVIQ 267
elkkeagvevfaiGvGnadn.......nnleeLreIAskpd.dhvfkvsd
+ + +++++f+i++ + +n+++ ++++++ee+++IAs+p+++h+f+vsd
tem30_gi|2 268 DCED-ENIQRFSIAILGSYNrgnlsteKFVEEIKSIASEPTeKHFFNVSD 316
feaLdtlqelL<-*
aL t+++ L
tem30_gi|2 317 ELALVTIVKTL 327
Kelch: domain 1 of 1, from 410 to 454: score 10.3, E = 0.25
*->pRsgagvvvlggkiYviG.........vevYDpe.ntWeklpsmp<-
++ ++++ g+ +Y++G ++ ++++ v +Y e++ ++l +++
tem30_gi|2 410 YTVNSATASSGDVLYIAGqprynhtgqVIIYRMEdGNIKILQTLS 454
*
tem30_gi|2 - -
FG-GAP: domain 2 of 5, from 405 to 457: score 35.7, E = 7.7e-09
*->gsyFGySva.lgDlngDgypDllVGAPragdqtqkgknetGaVyiyr
sy+Gy+v +++ gD ++++G Pr++ + tG+V iyr
tem30_gi|2 405 ASYLGYTVNsATASSGDV--LYIAGQPRYN--H------TGQVIIYR 441
grpgrvcpsqvldg.gia<-*
+ + ++ ++ ++ +g++
tem30_gi|2 442 MED--GNIKILQTLsGEQ 457
FG-GAP: domain 3 of 5, from 459 to 520: score 58.2, E = 2.2e-15
*->gsyFGySvalgDlngDgy.pDllVGAPragd.qtqkgknetGaVyiy
gsyFG+ ++ +D+++D+ ++ llVGAP+++++ +e+G+Vy+y
tem30_gi|2 459 GSYFGSILTTTDIDKDSNtDILLVGAPMYMGtEK----EEQGKVYVY 501
rgrpgrvcpsqvldg.gia<-*
++ r++++++l++ +++
tem30_gi|2 502 ALNQTRFEYQMSLEPiKQT 520
P5CR: domain 1 of 1, from 544 to 561: score 0.1, E = 57
*->GTTiaGLrvLEkgGfRga<-*
GT ia+++ L Gf ++
tem30_gi|2 544 GTAIAAVKDLNLDGFNDI 561
FG-GAP: domain 4 of 5, from 540 to 599: score 66.5, E = 9.2e-18
*->gsyFGySvalg.DlngDgypDllVGAPragdqtqkgknetGaVyiyr
g++FG ++a+++Dln Dg++D+++GAP+++ +++GaVyiy+
tem30_gi|2 540 GARFGTAIAAVkDLNLDGFNDIVIGAPLED-------DHGGAVYIYH 579
grpg..rvcpsqvldg.gia<-*
g++ + r +++q++ ++g +
tem30_gi|2 580 GSGKtiRKEYAQRIPSgGDG 599
FG-GAP: domain 5 of 5, from 602 to 654: score 36.4, E = 4.8e-09
*->gsyFGySva.lgDlngDgypDllVGAPragdqtqkgknetGaVyiyr
+FG+S+++ +DlngDg++D+ +G G + +++
tem30_gi|2 602 LKFFGQSIHgEMDLNGDGLTDVTIGG-------------LGGAALFW 635
grpg.rvcpsqvldg.gia<-*
+r++ +v++++++++++++
tem30_gi|2 636 SRDVaVVKVTMNFEPnKVN 654
FKBP: domain 1 of 1, from 671 to 681: score 5.7, E = 1.5
*->naTLvFeVELl<-*
naT++FeV L+
tem30_gi|2 671 NATVCFEVKLK 681
UPF0054: domain 1 of 1, from 682 to 695: score 0.6, E = 81
*->VsddeIhelNkkfR<-*
+d+I e+++++R
tem30_gi|2 682 SKEDTIYEADLQYR 695
SQS_PSY: domain 1 of 1, from 701 to 714: score 2.4, E = 12
*->laqgSkSFalairL<-*
l+q S+SF+ ++++
tem30_gi|2 701 LRQISRSFFSGTQE 714
Aldose_epim: domain 1 of 1, from 864 to 880: score 5.1, E = 2.2
*->iLkkGetYgskteYkFe<-*
+L++Ge ++ k+ ++F
tem30_gi|2 864 FLRRGEMVTFKILFQFN 880
Opiods_neuropep: domain 1 of 1, from 898 to 912: score 1.5, E = 18
*->SqEdpesYskelpdv<-*
S+E pe++s ++ ++
tem30_gi|2 898 SEEPPETLSDNVVNI 912
jmjN: domain 1 of 1, from 985 to 992: score 1.6, E = 74
*->eiPvfyPt<-*
++Pv+yPt
tem30_gi|2 985 GYPVLYPT 992
SRCR: domain 1 of 1, from 1034 to 1045: score 1.3, E = 53
*->cshdgedagVvCs<-*
c++ +++a ++C+
tem30_gi|2 1034 CNT-CKFATITCN 1045
PsbJ: domain 1 of 1, from 1103 to 1131: score 1.6, E = 45
*->mantg...RiPLWlvgt..vaGlaaigvl<-*
+++ g ++R+PLW++ ++ +aGl+ + +l
tem30_gi|2 1103 ISKDGlpgRVPLWVILLsaFAGLLLLMLL 1131
Chromate_transp: domain 1 of 1, from 1110 to 1134: score 0.7, E = 53
*->ktkffivpllliilalllgvlvtpk<-*
++++ +v+ll+++++lll+ l +++
tem30_gi|2 1110 GRVPLWVILLSAFAGLLLLMLLILA 1134
DUF5: domain 1 of 1, from 1119 to 1147: score 1.3, E = 87
*->llivllvallllallalllarrilrPlrr<-*
l + ++++ll+l++lal+ ++ rPl++
tem30_gi|2 1119 LSAFAGLLLLMLLILALWKIGFFKRPLKK 1147
integrin_A: domain 1 of 1, from 1137 to 1151: score 16.1, E = 0.0012
*->KcGFFKRkrkpqeee<-*
K GFFKR k+++e
tem30_gi|2 1137 KIGFFKRPLKKKMEK 1151
//
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: tem30
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
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: Tue Oct 31 15:47:19 2000
Sequence file: tem30
----------------------------------------
Sequence tem30_gi|2829468|sp|P56199|ITA1_HUMAN (1151 residues):
Matching pattern PS00001 ASN_GLYCOSYLATION:
46: NRTG
72: NTSI
77: NVTE
84: NMTF
189: NVTH
289: NLST
313: NVSD
374: NGTV
390: NTTF
432: NHTG
504: NQTR
671: NATV
720: NITV
752: NLTD
812: NVSL
855: NITC
880: NTSY
887: NVTI
911: NISI
938: NETV
946: NSTE
980: NMTS
1045: NLTS
1055: NVSL
1074: NLTI
1085: NASL
Total matches: 26
Matching pattern PS00004 CAMP_PHOSPHO_SITE:
1017: KKMT
1027: KRGT
Total matches: 2
Matching pattern PS00005 PKC_PHOSPHO_SITE:
228: TAR
292: TEK
307: TEK
397: STK
398: TKK
490: TEK
523: SSR
581: SGK
584: TIR
601: TLK
700: SLR
722: TVR
744: SVR
797: TEK
816: TVK
857: TCK
872: TFK
1015: SGK
1036: TCK
1076: TIR
Total matches: 20
Matching pattern PS00006 CK2_PHOSPHO_SITE:
141: TQLD
200: SSTE
201: STEE
252: TDGE
326: TLGE
418: SSGD
467: TTTD
469: TDID
475: SNTD
490: TEKE
506: TRFE
595: SGGD
682: SKED
686: TIYE
754: TDPE
769: SVHE
797: TEKD
806: SQND
840: SGIE
896: SDSE
904: TLSD
927: SASE
940: TVPE
947: STED
995: SSSE
1021: TSTD
1030: TILD
1047: TSSD
Total matches: 28
Matching pattern PS00008 MYRISTYL:
42: GQPKNR
97: GGFLAC
216: GGRQTM
225: GTDTAR
239: GARRGV
288: GNLSTE
366: GAVGAY
459: GSYFGS
463: GSILTT
540: GARFGT
544: GTAIAA
580: GSGKTI
626: GGLGGA
627: GLGGAA
952: GNEINI
993: GLSSSE
Total matches: 16
Matching pattern PS00009 AMIDATION:
1015: SGKK
Total matches: 1
Matching pattern PS00146 BETA_LACTAMASE_A:
393: FNVESTKKNEPLASYL
Total matches: 1
Matching pattern PS00242 INTEGRIN_ALPHA:
1136: WKIGFFKR
Total matches: 1
Total no of hits in this sequence: 95
========================================
1314 pattern(s) searched in 1 sequence(s), 1151 residues.
Total no of hits in all sequences: 95.
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 tem30
***** 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, 1151 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: tem30
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
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: tem30
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
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= tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ
AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
(1151 letters)
Searching..................................done
Results from profile search
Score E
Sequences producing significant alignments: (bits) Value
VWA Von Willebrand factor A domain 146 1e-37
VHS A conserved domain found in VPS-27, Hrs and STAM 25 0.41
CNMP Cyclic nucleotide binding domain 24 0.86
LAMNT Lamin N-terminal domain 24 0.92
SGTP Small GTPAses 23 2.2
HISDAC Histone deacetylase domain 23 3.1
PCNA Proliferating Cell nuclear antigen like domain 22 5.3
CALMO Calmodulin like EF-hand domains 22 5.4
KELCH Kelch repeat- beta propeller like domain 21 7.2
>VWA Von Willebrand factor A domain
Length = 255
Score = 146 bits (366), Expect = 1e-37
Identities = 23/211 (10%), Positives = 62/211 (28%), Gaps = 23/211 (10%)
Query: 142 QLDIVIVLDGSNSIYPWD-------SVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTH-E 193
+++ LD S ++ D + + D + +Q+GI+ +
Sbjct: 53 IRSLILTLDCSEAMLEKDLRPNRHAMIIQYAIDFVHEFFDQNPISQMGIIIMRNGLAQLV 112
Query: 194 FNLNKYSSTEEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVIVTD 253
++ + + + + G + AR ++V+++
Sbjct: 113 SQVSGNPQDHIDALKSIRKQEPKGN-PSLQNALEMARGLL---LPVPAHCTREVLIVFGS 168
Query: 254 GESHDNHRLKKVIQDCEDENIQRFSIAILGSYNRGNLSTEKFVEEIKSIASEPTEKHFFN 313
+ D + + I E I+ + + + +E+ + E +
Sbjct: 169 LSTTDPGDIHQTIDSLVSEKIRVKVLGL--------SAQVAICKELCKATNYGDESFYKI 220
Query: 314 VSDELALVTIVKTLGERIFALEATADQSAAS 344
+ DE L + E + L +
Sbjct: 221 LLDETHLKEL---FNEAVTPLPVNKINKGFT 248
>VHS A conserved domain found in VPS-27, Hrs and STAM
Length = 144
Score = 25.2 bits (55), Expect = 0.41
Identities = 11/64 (17%), Positives = 25/64 (38%), Gaps = 7/64 (10%)
Query: 262 LKKVIQDCEDENIQRFSIAIL-------GSYNRGNLSTEKFVEEIKSIASEPTEKHFFNV 314
+KK I ++ + ++ +L G ++++ FVE + P V
Sbjct: 50 IKKRIVGNKNFHEVMLALTVLETCVKNCGHRFHILVASQDFVESVLVRTILPKNNPPAIV 109
Query: 315 SDEL 318
D++
Sbjct: 110 HDKV 113
>CNMP Cyclic nucleotide binding domain
Length = 118
Score = 24.4 bits (53), Expect = 0.86
Identities = 9/37 (24%), Positives = 15/37 (40%), Gaps = 3/37 (8%)
Query: 434 TGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTD 470
+G V I + + ++L L GS G I +
Sbjct: 43 SGGVDIIASKGVSEQVLAKLG---PGSMAGEIGVVFN 76
>LAMNT Lamin N-terminal domain
Length = 256
Score = 24.1 bits (52), Expect = 0.92
Identities = 7/27 (25%), Positives = 14/27 (50%)
Query: 945 INSTEDIGNEINIFYLIRKSGSFPMPE 971
+N T D+ E ++ Y+ + + P P
Sbjct: 116 VNITIDLEQEFHVAYVWIQMANSPRPG 142
Score = 21.0 bits (44), Expect = 8.4
Identities = 6/34 (17%), Positives = 10/34 (28%)
Query: 519 QTCCSSRQHNSCTTENKNEPCGARFGTAIAAVKD 552
+Q + EN G G A ++
Sbjct: 54 SYQDDEQQKSWSQYENPMVRGGHGCGHCNAGNEN 87
>SGTP Small GTPAses
Length = 164
Score = 22.8 bits (49), Expect = 2.2
Identities = 27/121 (22%), Positives = 49/121 (40%), Gaps = 12/121 (9%)
Query: 190 VTHEFNLNKYSSTEEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGAR-RGVKKVM 248
+ +F + + T V KI+ GG+ + DTA +E F + RG +
Sbjct: 21 IEKKFK-DDSNHTIGVEF-GSKIINVGGKYVKLQI-WDTAGQERFRSVTRSYYRGAAGAL 77
Query: 249 VI--VTDGESHDNHRLKKVIQDCEDENIQRFSIAILGSYNRGNLSTEKFV--EEIKSIAS 304
++ +T E+++ L + D Q I + G N+ +L ++ V E A
Sbjct: 78 LVYDITSRETYNA--LTNWLTDARMLASQNIVIILCG--NKKDLDADREVTFLEASRFAQ 133
Query: 305 E 305
E
Sbjct: 134 E 134
>HISDAC Histone deacetylase domain
Length = 433
Score = 22.6 bits (48), Expect = 3.1
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 5/30 (16%)
Query: 558 FNDIVIGAP-LEDDHGGAVYI----YHGSG 582
NDIV+G L H +YI +HG G
Sbjct: 163 LNDIVLGIIELLRYHPRVLYIDIDVHHGDG 192
>PCNA Proliferating Cell nuclear antigen like domain
Length = 280
Score = 21.7 bits (46), Expect = 5.3
Identities = 12/131 (9%), Positives = 31/131 (23%), Gaps = 26/131 (19%)
Query: 852 SNHNITCKVGYPFLRRGEMVTFKILFQFNTSYLMENVTIYL-SATSDSEEPPETLSDNVV 910
++ Y G + + + +T T D + + + ++
Sbjct: 102 PGTLTALRMCYQ----GYGHPLMLFLEEGGVVTVCKITTQEPEETLDFDFCSTNVMNKII 157
Query: 911 --------------NISIPVKYEV---GLQFYSSAS----EYHISIAANETVPEVINSTE 949
++ V F S H+ + + E + +
Sbjct: 158 LQSEGLREAFSELDMTGDVLQITVSPDKPYFRLSTFGNAGNSHLDYPKDSDLVEAFHCNK 217
Query: 950 DIGNEINIFYL 960
N + L
Sbjct: 218 TQVNRYKLSLL 228
>CALMO Calmodulin like EF-hand domains
Length = 147
Score = 21.6 bits (45), Expect = 5.4
Identities = 10/86 (11%), Positives = 30/86 (34%), Gaps = 18/86 (20%)
Query: 219 QTMTALGTDTARKEAFTEARGARRGVKKVM----VIVTDGESHDNHRLKKVIQDCEDENI 274
+ + + ++ EAF G+ V+ + GE + + ++++ D +
Sbjct: 75 RQLKSNDSEQELLEAFKVFDKNGDGLISAAELKHVLTSIGEKLTDAEVDDMLREVSDGS- 133
Query: 275 QRFSIAILGSYNRGNLSTEKFVEEIK 300
G ++ ++F +
Sbjct: 134 -------------GEINIQQFAALLS 146
>KELCH Kelch repeat- beta propeller like domain
Length = 319
Score = 21.1 bits (44), Expect = 7.2
Identities = 6/30 (20%), Positives = 13/30 (43%)
Query: 398 TKKNEPLASYLGYTVNSATASSGDVLYIAG 427
T + + ++ +SG+ LY+ G
Sbjct: 245 TYQWTKVGDVTAKRMSCHAVASGNKLYVVG 274
Underlying Matrix: BLOSUM62
Number of sequences tested against query: 105
Number of sequences better than 10.0: 9
Number of calls to ALIGN: 10
Length of query: 1151
Total length of test sequences: 20182
Effective length of test sequences: 16136.0
Effective search space size: 17949017.7
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= tem30_gi|2829468|sp|P56199|ITA1_HUMAN INTEGRIN ALPHA-1 (LAMININ
AND COLLAGEN RECEPTOR) (VLA-1) (CD49A)
(1151 letters)
Searching.................................................done
Results from profile search
Score E
Sequences producing significant alignments: (bits) Value
gi|2582830 [161..353] Integrin A (or I) domain 178 3e-46
gi|2645090 [1..155] Integrin A (or I) domain 125 6e-30
gi|420193 [185..357] Integrin A (or I) domain 119 3e-28
gi|2137729 [37..266] 7-bladed beta-propeller 30 0.23
gi|452523 [41..225] 7-bladed beta-propeller 29 0.29
gi|1086900 [26..235] 7-bladed beta-propeller 29 0.44
gi|1363708 [373..683] 7-bladed beta-propeller 29 0.59
gi|2832331 [157..459] 7-bladed beta-propeller 28 0.64
gi|2102675 [28..258] 7-bladed beta-propeller 28 1.0
gi|2815132 [909..1205] 7-bladed beta-propeller 28 1.1
gi|1556399 [647..916] 7-bladed beta-propeller 27 1.5
gi|1181604 [175..454] 7-bladed beta-propeller 27 2.2
gi|586529 [222..473] 7-bladed beta-propeller 26 2.4
gi|2104446 [1048..1249] 7-bladed beta-propeller 26 2.8
gi|121286 [210..431] Double-stranded beta-helix 26 3.5
gi|1001440 [1028..1666] 7-bladed beta-propeller 26 3.7
gi|2736365 [143..399] 7-bladed beta-propeller 26 3.7
gi|1001939 [228..429] 7-bladed beta-propeller 25 5.2
gi|1827706 [1..365] Cellulases 25 5.4
gi|398985 [18..447] PLP-dependent transferases 25 5.4
gi|2506563 [66..342] Periplasmic binding protein-like I 25 7.0
gi|2494897 [186..459] 7-bladed beta-propeller 25 7.2
gi|2496115 [252..391] Flavodoxin-like 25 7.4
gi|126343 [24..369] Periplasmic binding protein-like I 25 7.5
gi|2132510 [25..215] Thiamin-binding 25 7.6
gi|1176225 [21..201] Periplasmic binding protein-like II 25 9.5
>gi|2582830 [161..353] Integrin A (or I) domain
Length = 193
Score = 178 bits (449), Expect = 3e-46
Identities = 162/193 (83%), Positives = 178/193 (91%)
Query: 143 LDIVIVLDGSNSIYPWDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEFNLNKYSST 202
LDIVIVLDGSNSIYPW+SVTAFLN LL+ MDIGP+QTQVGIVQYG+ V HEF LN YS+T
Sbjct: 1 LDIVIVLDGSNSIYPWESVTAFLNSLLRNMDIGPQQTQVGIVQYGQTVVHEFYLNTYSTT 60
Query: 203 EEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVIVTDGESHDNHRL 262
EEV+ AA +I QRGG QTMTALG DTAR+EAFTEA GARRGV+KVMVIVTDGESHDN+RL
Sbjct: 61 EEVMDAALRIRQRGGTQTMTALGIDTAREEAFTEAHGARRGVQKVMVIVTDGESHDNYRL 120
Query: 263 KKVIQDCEDENIQRFSIAILGSYNRGNLSTEKFVEEIKSIASEPTEKHFFNVSDELALVT 322
++VI CEDENIQRF+IAILGSY+RGNLSTEKFVEEIKSIAS+PTEKHFFNVSDELALVT
Sbjct: 121 QEVIDKCEDENIQRFAIAILGSYSRGNLSTEKFVEEIKSIASKPTEKHFFNVSDELALVT 180
Query: 323 IVKTLGERIFALE 335
IV+ LGERIFALE
Sbjct: 181 IVEALGERIFALE 193
>gi|2645090 [1..155] Integrin A (or I) domain
Length = 155
Score = 125 bits (311), Expect = 6e-30
Identities = 35/165 (21%), Positives = 77/165 (46%), Gaps = 15/165 (9%)
Query: 145 IVIVLDGSNSIYP--WDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEFNLNKYSST 202
++ +LD S S+ +D + F+ ++ D+ + T++GI+++ + L+ + +
Sbjct: 1 MLFLLDSSGSVGDENFDKMKEFVKSIVLNFDVDNQLTRIGIIRFDSDAEIIIQLSDHKTL 60
Query: 203 EEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVIVTDGES---HDN 259
+++L I G QT + A EAF+E G R K +V++ DG++ +
Sbjct: 61 KDLLNDIDSIRYNEGIQTRIDKALERAM-EAFSEKNGGRADATKALVLLADGQNSFIEGS 119
Query: 260 HRLKKVIQDCEDENIQRFSIAILGSYNRGNLSTEKFVEEIKSIAS 304
L + ++ D + R+ I I + ++E++ IA+
Sbjct: 120 QDLNEELKPLIDAKVFRYVIGIGRELD---------LKELEDIAT 155
>gi|420193 [185..357] Integrin A (or I) domain
Length = 173
Score = 119 bits (296), Expect = 3e-28
Identities = 36/185 (19%), Positives = 71/185 (37%), Gaps = 20/185 (10%)
Query: 144 DIVIVLDGSNSI--YPWDSVTAFLNDLLKRMDIG-----PKQTQVGIVQYGENVTHEFNL 196
DIV +LDGS + + V F+ D+ +R+ + P ++ ++QYG +
Sbjct: 1 DIVFLLDGSERLGEQNFHKVRRFVEDVSRRLTLARRDDDPLNARMALLQYGSQNQQQVAF 60
Query: 197 NKYSSTEEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEAR-GARRGVKKVMVIVTDGE 255
+ + A ++ + G A AR GARR + V +TDG
Sbjct: 61 PLTYNVTTIHEALERATYLNS-FSHVGTGIVHAINNVVRGARGGARRHAELSFVFLTDGV 119
Query: 256 SHDNHRLKKVIQDCEDENIQRFSIAILGSYNRGNLSTEKFVEEIKSIASEPTEKHFFNVS 315
+ ++ L++ + +N+ +A+ G + ++ + S F
Sbjct: 120 TGND-SLEESVHSMRKQNVVPTVVAVGGDVD----------MDVLTKISLGDRAAIFREK 168
Query: 316 DELAL 320
D +L
Sbjct: 169 DFDSL 173
>gi|2137729 [37..266] 7-bladed beta-propeller
Length = 230
Score = 29.8 bits (66), Expect = 0.23
Identities = 15/178 (8%), Positives = 43/178 (23%), Gaps = 29/178 (16%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMG 489
N T + + + I S S T + + N + G+
Sbjct: 48 DLNSTSMYLASGGLNNTVNIWDLKSKRLHRSLKDHKCEVTCVAYNWNDCYIASGS----- 102
Query: 490 TEKEEQGKVYVYALNQTRFEYQMSLEPIKQTCCSSRQHNSCTTENKNEPCGARFGTAIAA 549
G++ ++++ + S+Q + +
Sbjct: 103 ----LSGEIILHSVT--------TNTSSTPFGHGSKQPIRHIKYSLFRKSLLGSVSDNGV 150
Query: 550 VKDLNLDGFNDIVIGAPLEDDHGGAVY--IYHGSGKTIRKEYAQRIPSGGDGKTLKFF 605
V +++ + + H + + + + G K + +
Sbjct: 151 VTLWDVNSQSSYHT---FDSTHKAPASGICFSPVNELL-------FVTIGLDKRIILY 198
>gi|452523 [41..225] 7-bladed beta-propeller
Length = 185
Score = 29.3 bits (65), Expect = 0.29
Identities = 8/94 (8%), Positives = 22/94 (22%), Gaps = 9/94 (9%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMG 489
R + + + S + + + TD+L +G
Sbjct: 16 RLHQEYVPSAHLSGTCTCLAWAPARLQAKESPQRKKRKSEAVGMSNQTDLLALGT----- 70
Query: 490 TEKEEQGKVYVYALNQTRFEYQMSLEPIKQTCCS 523
G + +Y+ + ++
Sbjct: 71 ----AVGSILLYSTVKGELHSKLISGGHDNRVNC 100
>gi|1086900 [26..235] 7-bladed beta-propeller
Length = 210
Score = 28.9 bits (64), Expect = 0.44
Identities = 11/107 (10%), Positives = 27/107 (24%), Gaps = 9/107 (8%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMG 489
+N V+ D ++ S + + T + D N ++ G+
Sbjct: 63 AFNEESSVVFSGSMDCTMQAFDCRSRSEKPIQIFNESTDGILSIDVNGHEIVAGS----- 117
Query: 490 TEKEEQGKVYVYALNQTRFEYQMSLEPIKQTCCSSRQHNSCTTENKN 536
G VY++ + + + +
Sbjct: 118 ----ADGNYRVYSIRDGNMTVDYMGDSVNSVSFTPDSNCLLAGVMGG 160
Score = 27.4 bits (60), Expect = 1.2
Identities = 9/50 (18%), Positives = 17/50 (34%)
Query: 435 GQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGA 484
G + D +K+ L + +Y G+ D S+ + G
Sbjct: 3 GNYCVTCGSDKTVKLWNPLKSSLLKTYSGTGNEVLDAASSSDNSQIAAGG 52
>gi|1363708 [373..683] 7-bladed beta-propeller
Length = 311
Score = 28.7 bits (63), Expect = 0.59
Identities = 11/78 (14%), Positives = 23/78 (29%), Gaps = 9/78 (11%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMG 489
+ ++II D NIKI G+ S F + ++ + +
Sbjct: 208 DISFDSKMIITSSADKNIKIWGLDFGDCHKSLFAHQDSIMNVKFLPQSHNFFSCS----- 262
Query: 490 TEKEEQGKVYVYALNQTR 507
+ V + +
Sbjct: 263 ----KDAVVKYWDGEKFE 276
>gi|2832331 [157..459] 7-bladed beta-propeller
Length = 303
Score = 28.3 bits (62), Expect = 0.64
Identities = 15/91 (16%), Positives = 30/91 (32%), Gaps = 4/91 (4%)
Query: 393 FNVESTKKNEPLASYLGYTVNSATASSGDVLYIAGQPRYNHTGQVIIYRMEDGNIKILQT 452
++VES +K + S VL +A + G+ + I I +
Sbjct: 17 WSVESGRKLHVIPRAKKGAEGKPPGHSSHVLCMA----ISSDGKYLASGDRSKLILIWEA 72
Query: 453 LSGEQIGSYFGSILTTTDIDKDSNTDILLVG 483
S + + ++ G + + T L
Sbjct: 73 QSCQHLYTFTGHRDAVSGLAFRRGTHQLYST 103
>gi|2102675 [28..258] 7-bladed beta-propeller
Length = 231
Score = 27.9 bits (61), Expect = 1.0
Identities = 6/73 (8%), Positives = 20/73 (27%), Gaps = 4/73 (5%)
Query: 411 TVNSATASSGDVLYIAGQPRYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTD 470
+ + S + + ++ + I++ GE G
Sbjct: 17 DDDDPKSISIGEKAYS----FALKNGKVVTAASNNAIQLHTFPDGEPDGILTRFTTNANH 72
Query: 471 IDKDSNTDILLVG 483
+ +++ + G
Sbjct: 73 VVFNTDGTRIAAG 85
>gi|2815132 [909..1205] 7-bladed beta-propeller
Length = 297
Score = 27.6 bits (60), Expect = 1.1
Identities = 13/103 (12%), Positives = 33/103 (31%), Gaps = 9/103 (8%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMG 489
+ Q +I D +++ +G+ I G + + + SN ++V
Sbjct: 107 QLTSNNQFLITGSGDFVVQMWDVTNGKCISRMGGLMAPVSTLAITSNDAFVVVAC----- 161
Query: 490 TEKEEQGKVYVYALNQTRFEYQMSLEPIKQTCCSSRQHNSCTT 532
E + V++ + +++ K Q +
Sbjct: 162 ----EDETLKVFSTVGGQELHELMGHEGKVNSLVCAQDDCQLF 200
Score = 25.6 bits (55), Expect = 4.7
Identities = 5/54 (9%), Positives = 13/54 (23%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVG 483
++ + + D + + S T S+ L+
Sbjct: 23 CSSNDSSLFVSTSFDKTVNVWVFSQSTPTMSLTHHTAKVTCAILTSDDQYLITA 76
>gi|1556399 [647..916] 7-bladed beta-propeller
Length = 270
Score = 27.1 bits (59), Expect = 1.5
Identities = 12/94 (12%), Positives = 32/94 (33%), Gaps = 12/94 (12%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMG 489
++ + ++ DG + ++ +G I S + + +L G+
Sbjct: 166 AFSPDSRHVLSTGTDGCLNVIDVQTGMLISSMTSDE---PQTCFVWDGNSVLSGS----- 217
Query: 490 TEKEEQGKVYVYALNQTRFEYQMSLEPIKQTCCS 523
+ G++ V+ L + ++ TC
Sbjct: 218 ----QSGELLVWDLLGAKISERIQGHTGAVTCIW 247
Score = 25.6 bits (55), Expect = 5.1
Identities = 10/110 (9%), Positives = 21/110 (19%), Gaps = 11/110 (10%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMG 489
+I D N+ G + + G + I + + L +
Sbjct: 33 LLLPGDATVITSSWDNNVYFYSIAFGRRQDTLMGHDDAVSKICW--HDNRLYSAS----- 85
Query: 490 TEKEEQGKVYVYALNQTRFEYQMSLEPIKQTCCSSRQHNSCTTENKNEPC 539
V V++ + N
Sbjct: 86 ----WDSTVKVWSGVPAEMPGTKRHHFDLLAELEHDVSVDTISLNAASTL 131
>gi|1181604 [175..454] 7-bladed beta-propeller
Length = 280
Score = 26.8 bits (58), Expect = 2.2
Identities = 11/54 (20%), Positives = 22/54 (40%)
Query: 431 YNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGA 484
Y+ + I D N+ I ++G+Q+ + T D N +L+ +
Sbjct: 219 YSTGQKYIYTGSHDANVYIYDLVTGDQVSTLQYHKATVRDCSWHPNYPMLVSSS 272
>gi|586529 [222..473] 7-bladed beta-propeller
Length = 252
Score = 26.4 bits (57), Expect = 2.4
Identities = 8/102 (7%), Positives = 32/102 (30%), Gaps = 10/102 (9%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMG 489
++H G I+ +E+G +++ +G + + + + ++
Sbjct: 6 AWSHDGNSIVTGVENGELRLWN-KTGALLNVLNFHRAPIVSVKWNKDGTHIISMD----- 59
Query: 490 TEKEEQGKVYVYALNQTRFEYQMSLEPIKQTCCSSRQHNSCT 531
+ ++ + L+ + ++ H+
Sbjct: 60 ----VENVTILWNVISGTVMQHFELKETGGSSINAENHSGDG 97
Score = 24.4 bits (52), Expect = 9.3
Identities = 8/54 (14%), Positives = 23/54 (41%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVG 483
+N T ++++ +DG ++I +G S++G + + ++
Sbjct: 145 EFNDTNKLLLSASDDGTLRIWHGGNGNSQNSFYGHSQSIVSASWVGDDKVISCS 198
>gi|2104446 [1048..1249] 7-bladed beta-propeller
Length = 202
Score = 26.3 bits (57), Expect = 2.8
Identities = 11/49 (22%), Positives = 16/49 (32%)
Query: 435 GQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVG 483
G + +YR + L T FG + + N LLV
Sbjct: 12 GTIKLYRDYENEKVELVTSWNSLSDLVFGDRNASLLMSWQQNCGHLLVA 60
>gi|121286 [210..431] Double-stranded beta-helix
Length = 222
Score = 26.0 bits (57), Expect = 3.5
Identities = 22/160 (13%), Positives = 48/160 (29%), Gaps = 16/160 (10%)
Query: 313 NVSDELALVTIVKTLGERIFALEATADQSAASFEMEMSQTGFSAHYSQDWVML-----GA 367
++ V +++ +R L+ D F + + H D++++
Sbjct: 13 LFKNQYGHVRVLQRFNKRSQQLQNLRDYRILEFNSKPNTLLLPHHADADYLIVILNGTAI 72
Query: 368 VGAYDWNGTVV--MQKASQIIIPRNTTFNVESTKKNEPLASYLGYTVNSATASSGDVLYI 425
+ + + +Q + +P TTF V + +E L G T + + L +
Sbjct: 73 LTLVNNDDRDSYNLQSGDALRVPAGTTFYVVNPDNDENLRMIAGTTFYVVNPDNDENLRM 132
Query: 426 AGQPRYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSI 465
G + S + SY
Sbjct: 133 I---TLAIPVNK------PGRFESFFLSSTQAQQSYLQGF 163
>gi|1001440 [1028..1666] 7-bladed beta-propeller
Length = 639
Score = 25.8 bits (55), Expect = 3.7
Identities = 12/107 (11%), Positives = 28/107 (25%), Gaps = 10/107 (9%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGAPMYMG 489
++ GQ II DG ++ G+ +G+ G + ++ +
Sbjct: 199 LWSPDGQHIITSSSDGTARVWS-RHGKCLGTLRGHDHNIHGARFSLDGQKIVTYS----- 252
Query: 490 TEKEEQGKVYVYALNQTRFEYQMSLEPIKQTCCSSRQHNSCTTENKN 536
++ T + S T + +
Sbjct: 253 ----TDNTARLWTKEGTLLTILRGHQKEVYDADFSADGRFVFTVSAD 295
Score = 24.6 bits (52), Expect = 9.8
Identities = 9/54 (16%), Positives = 19/54 (34%), Gaps = 1/54 (1%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVG 483
++ GQ D +K+ Q GE++ + G + + L+
Sbjct: 35 DWSADGQYFATASADHTVKLWQ-RHGEEVATLRGHEDWVRSVHFSPHHQFLVTS 87
>gi|2736365 [143..399] 7-bladed beta-propeller
Length = 257
Score = 25.9 bits (56), Expect = 3.7
Identities = 11/77 (14%), Positives = 24/77 (30%), Gaps = 10/77 (12%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYF-GSILTTTDIDKDSNTDILLVGAPMYM 488
++ G + +D I+ + G+ T + D N +L+ G
Sbjct: 153 TWSQAGNQFVSCSQDKTIRFWDLRQQTAVNVISPGNASPVTSVCVDPNGKLLVSGH---- 208
Query: 489 GTEKEEQGKVYVYALNQ 505
E V ++ +
Sbjct: 209 -----EDASVALFDIGG 220
Score = 24.8 bits (53), Expect = 7.8
Identities = 11/111 (9%), Positives = 28/111 (24%), Gaps = 10/111 (9%)
Query: 412 VNSATASSGDVLYIAGQPR-YNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTD 470
T G V + N + ++ + ++ + +G+ I S G +
Sbjct: 37 EMELTCHDGTVRDLIFIESSINRSTILVSGGAGNCHLNVTDCNTGQLIQSMKGHTGSCMI 96
Query: 471 IDKDSNTDILLVGAPMYMGTEKEEQGKVYVYALNQTRFEYQMSLEPIKQTC 521
+ + V ++T S ++
Sbjct: 97 VHLMLKISVTKFHI---------LNCTVKTMIYHKTFSTLFHSFREDEKVQ 138
>gi|1001939 [228..429] 7-bladed beta-propeller
Length = 202
Score = 25.5 bits (55), Expect = 5.2
Identities = 5/55 (9%), Positives = 16/55 (29%)
Query: 430 RYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTTTDIDKDSNTDILLVGA 484
++ + + + + G + G T + + ++ GA
Sbjct: 93 AFSPSQPLYACGSYGRTLGLYAWDDGSPLALLGGHQGGITHLCFHPDGNLFFSGA 147
>gi|1827706 [1..365] Cellulases
Length = 365
Score = 25.4 bits (55), Expect = 5.4
Identities = 14/84 (16%), Positives = 24/84 (27%), Gaps = 11/84 (13%)
Query: 368 VGAYDWNGTVVMQKASQIIIPRNTTFNVESTKK--NEPLASYLGYTVNSATASSGDVLYI 425
VG W + S + IP T + P +L + +
Sbjct: 12 VGVTPWANAYYASEVSSLAIPSLTGAMATAAAAVAKVPSFMWLDTLDKTPLMEQ----TL 67
Query: 426 AGQPRYNH-----TGQVIIYRMED 444
A N GQ +++ + D
Sbjct: 68 ADIRTANKNGGNYAGQFVVFDLPD 91
>gi|398985 [18..447] PLP-dependent transferases
Length = 430
Score = 25.2 bits (54), Expect = 5.4
Identities = 20/166 (12%), Positives = 50/166 (30%), Gaps = 14/166 (8%)
Query: 231 KEAFTEARGARRGVKKVMVIVT-----DGESHDNHRLKKVIQDCEDENIQRFSIAILGSY 285
K + +++ G + +K+I + +
Sbjct: 174 KTFAYNNQQENNKNPPCIILHACCHNPTGLDPTKEQWEKIIDTIYELKMVPIVDMAYQGL 233
Query: 286 NRGNLSTEKFVEEIKSIASEPTEKHFFNVSDELALV-TIVKTL---GERIFALEATADQS 341
GNL +++ + + N S+ + L + K + GER+ +L +
Sbjct: 234 ESGNL-----LKDAYLLRLCLNVNKYPNWSNGIFLCQSFAKNMGLYGERVGSLSVITPAT 288
Query: 342 AASFEMEMSQTGFSAHYSQDWVMLGAVGAYDWNGTVVMQKASQIII 387
A + + Q S + D + V + + +++
Sbjct: 289 ANNGKFNPLQQKNSLQQNIDSQLKKIVRGMYSSPPGYGSRVVNVVL 334
>gi|2506563 [66..342] Periplasmic binding protein-like I
Length = 277
Score = 24.9 bits (54), Expect = 7.0
Identities = 11/69 (15%), Positives = 22/69 (30%)
Query: 1063 PTFIKSYFSSLNLTIRGELRSENASLVLSSSNQKRELAIQISKDGLPGRVPLWVILLSAF 1122
+++ L + L ++ + L + E Q L V VI +A
Sbjct: 7 RDLSAPFYAELTAGLTEALEAQGRMVFLLHGGKDGEQLAQRFSLLLNQGVDGVVIAGAAG 66
Query: 1123 AGLLLLMLL 1131
+ L +
Sbjct: 67 SSDDLRRMA 75
>gi|2494897 [186..459] 7-bladed beta-propeller
Length = 274
Score = 24.7 bits (53), Expect = 7.2
Identities = 15/115 (13%), Positives = 30/115 (26%), Gaps = 11/115 (9%)
Query: 409 GYTVNSATASSGDVLYIAGQPRYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGSILTT 468
+ SG + + + + +DG + L S + I +
Sbjct: 147 PDESHRMWRFSGQIERVTWNH---FSPCHFLASTDDGFVYNLDARSDKPIFTLNAHNDEI 203
Query: 469 TDIDKDSNTDILLVGAPMYMGTEKEEQGKVYVYALNQTRFEYQMSLEPIKQTCCS 523
+ +D S LV A V ++ + R S +
Sbjct: 204 SGLDLSSQIKGCLVTA--------SADKYVKIWDILGDRPSLVHSRDMKMGVLFC 250
>gi|2496115 [252..391] Flavodoxin-like
Length = 140
Score = 24.8 bits (54), Expect = 7.4
Identities = 24/142 (16%), Positives = 46/142 (31%), Gaps = 20/142 (14%)
Query: 199 YSSTEEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVIVT----DG 254
Y+ST+++ A + + G + +T+ TE A K +++ +
Sbjct: 7 YNSTKKMAHAIAEGLMEKGVEVKIYRVCETSLSRIMTEILDA-----KYVLVGSPTVNRN 61
Query: 255 ESHDNHRLKKVIQDCEDENIQRFSIAILGSYNRGNLSTEKFVEEIKS-----IASEPTEK 309
+ K + + GSY +TEK E K+ + E
Sbjct: 62 LYPEV---GKFLAYMDCIRPLDKIGVAFGSYGWMECATEKIKEIFKNLGFKIVDDECLTV 118
Query: 310 HFFNVSDELALVTIVKTLGERI 331
F + L G+R+
Sbjct: 119 RFAPKEEHL---KKCYEFGKRL 137
>gi|126343 [24..369] Periplasmic binding protein-like I
Length = 346
Score = 25.0 bits (54), Expect = 7.5
Identities = 8/81 (9%), Positives = 23/81 (27%), Gaps = 4/81 (4%)
Query: 220 TMTALGTDTARKEAFTEARGARRGVKKVMVIVTDGESHDNHRLKKVIQDCEDENIQRFSI 279
M G D+++ + +++ +I + + + V + N I
Sbjct: 114 IMRTAGLDSSQGPTAAKYILETVKPQRIAIIHDKQQ-YGEGLARSVQDGLKQGNAN---I 169
Query: 280 AILGSYNRGNLSTEKFVEEIK 300
G + ++
Sbjct: 170 VFFDGITAGEKDFSALIARLQ 190
>gi|2132510 [25..215] Thiamin-binding
Length = 191
Score = 24.9 bits (54), Expect = 7.6
Identities = 6/40 (15%), Positives = 10/40 (25%), Gaps = 3/40 (7%)
Query: 728 CTKHSFYMLDKHDFQD--SVRITLDFNL-TDPENGPVLDD 764
+F + + D R+ D E D
Sbjct: 126 LHDSNFKGPNHKVYHDMVKDRVACSVAYLEDIETACDQVD 165
>gi|1176225 [21..201] Periplasmic binding protein-like II
Length = 181
Score = 24.6 bits (53), Expect = 9.5
Identities = 4/36 (11%), Positives = 11/36 (30%)
Query: 429 PRYNHTGQVIIYRMEDGNIKILQTLSGEQIGSYFGS 464
+ + + +K + L G + G+
Sbjct: 64 TGVTYYDGIGFLTHDKAGLKSAKELDGATVCIQAGT 99
Underlying Matrix: BLOSUM62
Number of sequences tested against query: 1187
Number of sequences better than 10.0: 26
Number of calls to ALIGN: 32
Length of query: 1151
Total length of test sequences: 256703
Effective length of test sequences: 202633.0
Effective search space size: 224068545.9
Initial X dropoff for ALIGN: 25.0 bits