BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy3049
(157 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 79.7 bits (195), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 45/114 (39%), Positives = 66/114 (57%), Gaps = 1/114 (0%)
Query: 41 NLSPDLWQFTHLTALYMNDNNLTRLSGDISLLINLRTLDISNNKLRYLPSEIGDLIYXXX 100
N+S +++++ LT LY+N N+LT L +I L NLR LD+S+N+L LP+E+G
Sbjct: 238 NISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKY 297
Query: 101 XXXXXXXXXXXPYELGKLFQIQILGLHGNPLSKDYMKIYNEPNGTQKLLSYLLD 154
P+E G L +Q LG+ GNPL K ++KI E + T L+ YL D
Sbjct: 298 FYFFDNMVTTLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVT-GLIFYLRD 350
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 31/86 (36%), Positives = 44/86 (51%), Gaps = 10/86 (11%)
Query: 1 MNDNNLTRLSGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDN 60
+N N+LT L +I L NLR LD+S+N+L LP+E+G+ L Y DN
Sbjct: 254 LNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSC----------FQLKYFYFFDN 303
Query: 61 NLTRLSGDISLLINLRTLDISNNKLR 86
+T L + L NL+ L + N L
Sbjct: 304 MVTTLPWEFGNLCNLQFLGVEGNPLE 329
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 41/76 (53%), Gaps = 10/76 (13%)
Query: 20 RTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL-SGDISLLINLRTL 78
+ LD+ +NKL LPS+ + T L LY+NDN L L +G L NL TL
Sbjct: 40 KKLDLQSNKLSSLPSKA---------FHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETL 90
Query: 79 DISNNKLRYLPSEIGD 94
+++NKL+ LP + D
Sbjct: 91 WVTDNKLQALPIGVFD 106
Score = 34.3 bits (77), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 10/80 (12%)
Query: 16 LINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLS-GDISLLIN 74
L LR L +++NKL+ LP+ I + +L L++ DN L L G L+N
Sbjct: 60 LTKLRLLYLNDNKLQTLPAGI---------FKELKNLETLWVTDNKLQALPIGVFDQLVN 110
Query: 75 LRTLDISNNKLRYLPSEIGD 94
L L + N+L+ LP + D
Sbjct: 111 LAELRLDRNQLKSLPPRVFD 130
Score = 30.8 bits (68), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 50/111 (45%), Gaps = 17/111 (15%)
Query: 1 MNDNNLTRLS-GDISLLINLRTLDISNNKLRYLPSEI--------------GAVKNLSPD 45
+ DN L L G L+NL L + N+L+ LP + +++L
Sbjct: 92 VTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKG 151
Query: 46 LW-QFTHLTALYMNDNNLTRL-SGDISLLINLRTLDISNNKLRYLPSEIGD 94
++ + T L L + +N L R+ G L L+TL + NN+L+ +P D
Sbjct: 152 VFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFD 202
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
Novel E3 Ligase
Length = 622
Score = 36.2 bits (82), Expect = 0.009, Method: Composition-based stats.
Identities = 35/95 (36%), Positives = 47/95 (49%), Gaps = 13/95 (13%)
Query: 3 DNNLTRLSGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTA-------L 55
DNNLT L +L LRTL++S N+L LP + LS THL A L
Sbjct: 70 DNNLTSLP---ALPPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKL 126
Query: 56 YMNDNNLTRLSGDISLLINLRTLDISNNKLRYLPS 90
++ N LT L L L+ L +S+N+L LP+
Sbjct: 127 WIFGNQLTSLP---VLPPGLQELSVSDNQLASLPA 158
Score = 33.5 bits (75), Expect = 0.049, Method: Composition-based stats.
Identities = 19/39 (48%), Positives = 25/39 (64%), Gaps = 3/39 (7%)
Query: 51 HLTALYMNDNNLTRLSGDISLLINLRTLDISNNKLRYLP 89
H+T L + DNNLT L +L LRTL++S N+L LP
Sbjct: 62 HITTLVIPDNNLTSLP---ALPPELRTLEVSGNQLTSLP 97
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 9/74 (12%)
Query: 16 LINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGDISLLINL 75
L L LD+ N+L LPS + + HL L+M N LT L I L +L
Sbjct: 87 LTQLTVLDLGTNQLTVLPSAV---------FDRLVHLKELFMCCNKLTELPRGIERLTHL 137
Query: 76 RTLDISNNKLRYLP 89
L + N+L+ +P
Sbjct: 138 THLALDQNQLKSIP 151
>pdb|3CVR|A Chain A, Crystal Structure Of The Full Length Ipah3
Length = 571
Score = 34.7 bits (78), Expect = 0.021, Method: Composition-based stats.
Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 6/77 (7%)
Query: 18 NLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTAL-----YMNDNNLTRLSGDISLL 72
+L LD +N+L LP ++K+L D Q T L L Y+N +N +L+ L
Sbjct: 101 SLEYLDACDNRLSTLPELPASLKHLDVDNNQLTXLPELPALLEYINADN-NQLTXLPELP 159
Query: 73 INLRTLDISNNKLRYLP 89
+L L + NN+L +LP
Sbjct: 160 TSLEVLSVRNNQLTFLP 176
Score = 33.5 bits (75), Expect = 0.046, Method: Composition-based stats.
Identities = 30/90 (33%), Positives = 43/90 (47%), Gaps = 10/90 (11%)
Query: 8 RLSGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQF-------THLTALYMNDN 60
RLS L +L+ LD+ NN+L LP ++ ++ D Q T L L + +N
Sbjct: 111 RLSTLPELPASLKHLDVDNNQLTXLPELPALLEYINADNNQLTXLPELPTSLEVLSVRNN 170
Query: 61 NLTRLSGDISLLINLRTLDISNNKLRYLPS 90
LT L L +L LD+S N L LP+
Sbjct: 171 QLTFLP---ELPESLEALDVSTNLLESLPA 197
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 34.3 bits (77), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 41/85 (48%), Gaps = 10/85 (11%)
Query: 11 GDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL-SGDI 69
G L NL+ L + N+L+ LP + + T+LT LY+ N L L G
Sbjct: 103 GVFDKLTNLKELVLVENQLQSLPDGV---------FDKLTNLTYLYLYHNQLQSLPKGVF 153
Query: 70 SLLINLRTLDISNNKLRYLPSEIGD 94
L NL LD+ NN+L+ LP + D
Sbjct: 154 DKLTNLTRLDLDNNQLQSLPEGVFD 178
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 32.0 bits (71), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 10/71 (14%)
Query: 20 RTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLS-GDISLLINLRTL 78
R LD+ N+++ L + + F HL L +N+N ++ + G + L NLRTL
Sbjct: 35 RLLDLGKNRIKTLNQD---------EFASFPHLEELELNENIVSAVEPGAFNNLFNLRTL 85
Query: 79 DISNNKLRYLP 89
+ +N+L+ +P
Sbjct: 86 GLRSNRLKLIP 96
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 50/90 (55%), Gaps = 11/90 (12%)
Query: 1 MNDNNLTRLS-GDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMND 59
+N+N ++ + G + L NLRTL + +N+L+ +P +G LS +LT L +++
Sbjct: 63 LNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIP--LGVFTGLS-------NLTKLDISE 113
Query: 60 NNLT-RLSGDISLLINLRTLDISNNKLRYL 88
N + L L NL++L++ +N L Y+
Sbjct: 114 NKIVILLDYMFQDLYNLKSLEVGDNDLVYI 143
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 13/75 (17%)
Query: 21 TLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLS-GDISLLINLRTLD 79
T+D S L +P+ I + LY+ DN +T+L G L L LD
Sbjct: 13 TVDCSGKSLASVPTGIPTTTQV------------LYLYDNQITKLEPGVFDRLTQLTRLD 60
Query: 80 ISNNKLRYLPSEIGD 94
+ NN+L LP+ + D
Sbjct: 61 LDNNQLTVLPAGVFD 75
Score = 29.6 bits (65), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 3 DNNLTRLS-GDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNN 61
DN +T+L G L L LD+ NN+L LP+ + + T LT L +NDN
Sbjct: 39 DNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGV---------FDKLTQLTQLSLNDNQ 89
Query: 62 L 62
L
Sbjct: 90 L 90
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 14/87 (16%)
Query: 16 LINLRTLDISNNKLRYLPSEIGAVKNL-------SPDLWQFTHLTALYMNDNNLTRLSGD 68
L TL ++ N LR LP+ I ++ L P+L + A T SG+
Sbjct: 126 FAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLAS-------TDASGE 178
Query: 69 ISLLINLRTLDISNNKLRYLPSEIGDL 95
L+NL++L + +R LP+ I +L
Sbjct: 179 HQGLVNLQSLRLEWTGIRSLPASIANL 205
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 40/88 (45%), Gaps = 11/88 (12%)
Query: 7 TRLSGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLS 66
T SG+ L+NL++L + +R LP+ I ++NL +L + ++ L+ L
Sbjct: 173 TDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLK----------SLKIRNSPLSALG 222
Query: 67 GDISLLINLRTLDISN-NKLRYLPSEIG 93
I L L LD+ LR P G
Sbjct: 223 PAIHHLPKLEELDLRGCTALRNYPPIFG 250
>pdb|3G3A|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
Length = 178
Score = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 13/75 (17%)
Query: 21 TLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLS-GDISLLINLRTLD 79
T+D S L +P+ I + LY+ DN +T+L G L L LD
Sbjct: 21 TVDCSGKSLASVPTGIPTTTQV------------LYLYDNQITKLEPGVFDRLTQLTRLD 68
Query: 80 ISNNKLRYLPSEIGD 94
+ NN+L LP+ + D
Sbjct: 69 LDNNQLTVLPAGVFD 83
Score = 29.6 bits (65), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 3 DNNLTRLS-GDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNN 61
DN +T+L G L L LD+ NN+L LP+ + + T LT L +NDN
Sbjct: 47 DNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGV---------FDKLTQLTQLSLNDNQ 97
Query: 62 L 62
L
Sbjct: 98 L 98
>pdb|3G3B|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Mutant In Complex With A Protein Antigen
pdb|3G3B|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor
Mutant In Complex With A Protein Antigen
pdb|3G3B|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor
Mutant In Complex With A Protein Antigen
pdb|3G3B|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor
Mutant In Complex With A Protein Antigen
Length = 170
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 13/75 (17%)
Query: 21 TLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLS-GDISLLINLRTLD 79
T+D S L +P+ I + LY+ DN +T+L G L L LD
Sbjct: 13 TVDCSGKSLASVPTGIPTTTQV------------LYLYDNRITKLEPGVFDRLTQLTRLD 60
Query: 80 ISNNKLRYLPSEIGD 94
+ NN+L LP+ + D
Sbjct: 61 LDNNQLTVLPAGVFD 75
Score = 29.3 bits (64), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 3 DNNLTRLS-GDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNN 61
DN +T+L G L L LD+ NN+L LP+ + + T LT L +NDN
Sbjct: 39 DNRITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFD---------KLTQLTQLSLNDNQ 89
Query: 62 L 62
L
Sbjct: 90 L 90
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 31.6 bits (70), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 42/81 (51%), Gaps = 12/81 (14%)
Query: 19 LRTLDISNNKLRYLPSEIGAVKNLS---------PDLWQFTHLTALYMNDNNLTRLSGDI 69
L+ +D+ NN L+ LP +++ ++ P+L LTA+Y ++N+L +L
Sbjct: 155 LKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPD-- 212
Query: 70 SLLINLRTLDISNNKLRYLPS 90
L ++L ++ NN L LP
Sbjct: 213 -LPLSLESIVAGNNILEELPE 232
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 31.6 bits (70), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 37/75 (49%), Gaps = 10/75 (13%)
Query: 16 LINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL-SGDISLLIN 74
L L L + N+L+ LPS + + T L L +N N L + +G L N
Sbjct: 106 LTQLDKLYLGGNQLKSLPSGV---------FDRLTKLKELRLNTNQLQSIPAGAFDKLTN 156
Query: 75 LRTLDISNNKLRYLP 89
L+TL +S N+L+ +P
Sbjct: 157 LQTLSLSTNQLQSVP 171
>pdb|3M19|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R5.1
pdb|3M19|B Chain B, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R5.1
Length = 251
Score = 31.2 bits (69), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 37/75 (49%), Gaps = 10/75 (13%)
Query: 16 LINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL-SGDISLLIN 74
L L L + N+L+ LPS + + T L L +N N L + +G L N
Sbjct: 106 LTQLDKLYLGGNQLKSLPSGV---------FDRLTKLKELRLNTNQLQSIPAGAFDKLTN 156
Query: 75 LRTLDISNNKLRYLP 89
L+TL +S N+L+ +P
Sbjct: 157 LQTLSLSTNQLQSVP 171
>pdb|1M9L|A Chain A, Relaxation-Based Refined Structure Of Chlamydomonas Outer
Arm Dynein Light Chain 1
Length = 199
Score = 31.2 bits (69), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 38/135 (28%), Positives = 66/135 (48%), Gaps = 33/135 (24%)
Query: 1 MNDNNLTRLSGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDN 60
++ NN+ ++S +S + NLR L + N ++ + + + AV + +LW ++ N
Sbjct: 56 LSTNNIEKISS-LSGMENLRILSLGRNLIKKIEN-LDAVADTLEELW---------ISYN 104
Query: 61 NLTRLSGDISLLINLRTLDISNNKLRYLPSEIGDLIYXXXXXXXXXXXXXXPYELGKLFQ 120
+ LSG I L+NLR L +SNNK+ + G++ +L L +
Sbjct: 105 QIASLSG-IEKLVNLRVLYMSNNKI----TNWGEI-----------------DKLAALDK 142
Query: 121 IQILGLHGNPLSKDY 135
++ L L GNPL DY
Sbjct: 143 LEDLLLAGNPLYNDY 157
>pdb|1DS9|A Chain A, Solution Structure Of Chlamydomonas Outer Arm Dynein Light
Chain 1
Length = 198
Score = 31.2 bits (69), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 38/135 (28%), Positives = 66/135 (48%), Gaps = 33/135 (24%)
Query: 1 MNDNNLTRLSGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDN 60
++ NN+ ++S +S + NLR L + N ++ + + + AV + +LW ++ N
Sbjct: 55 LSTNNIEKISS-LSGMENLRILSLGRNLIKKIEN-LDAVADTLEELW---------ISYN 103
Query: 61 NLTRLSGDISLLINLRTLDISNNKLRYLPSEIGDLIYXXXXXXXXXXXXXXPYELGKLFQ 120
+ LSG I L+NLR L +SNNK+ + G++ +L L +
Sbjct: 104 QIASLSG-IEKLVNLRVLYMSNNKI----TNWGEI-----------------DKLAALDK 141
Query: 121 IQILGLHGNPLSKDY 135
++ L L GNPL DY
Sbjct: 142 LEDLLLAGNPLYNDY 156
>pdb|1DCE|A Chain A, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
pdb|1DCE|C Chain C, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
Length = 567
Score = 30.4 bits (67), Expect = 0.38, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 11/65 (16%)
Query: 22 LDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGDISLLINLRTLDIS 81
LD+S+N+LR LP + A++ L L +DN L + G ++ L L+ L +
Sbjct: 468 LDLSHNRLRALPPALAALRCLE----------VLQASDNALENVDG-VANLPRLQELLLC 516
Query: 82 NNKLR 86
NN+L+
Sbjct: 517 NNRLQ 521
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 30.4 bits (67), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 39/74 (52%), Gaps = 10/74 (13%)
Query: 22 LDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL-SGDISLLINLRTLDI 80
LD+ N L+ LP+ + + T LT LY+ N L L +G + L +L L++
Sbjct: 33 LDLETNSLKSLPNGV---------FDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNL 83
Query: 81 SNNKLRYLPSEIGD 94
S N+L+ LP+ + D
Sbjct: 84 STNQLQSLPNGVFD 97
Score = 26.6 bits (57), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 40/85 (47%), Gaps = 10/85 (11%)
Query: 11 GDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLS-GDI 69
G + L +L L++S N+L+ LP+ + + T L L +N N L L G
Sbjct: 70 GVFNKLTSLTYLNLSTNQLQSLPNGV---------FDKLTQLKELALNTNQLQSLPDGVF 120
Query: 70 SLLINLRTLDISNNKLRYLPSEIGD 94
L L+ L + N+L+ +P + D
Sbjct: 121 DKLTQLKDLRLYQNQLKSVPDGVFD 145
>pdb|1LTX|A Chain A, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
Length = 567
Score = 30.4 bits (67), Expect = 0.39, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 11/65 (16%)
Query: 22 LDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGDISLLINLRTLDIS 81
LD+S+N+LR LP + A++ L L +DN L + G ++ L L+ L +
Sbjct: 468 LDLSHNRLRALPPALAALRCLE----------VLQASDNALENVDG-VANLPRLQELLLC 516
Query: 82 NNKLR 86
NN+L+
Sbjct: 517 NNRLQ 521
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 30.4 bits (67), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 40/85 (47%), Gaps = 10/85 (11%)
Query: 11 GDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL-SGDI 69
G L NL+ L + N+L+ LP + + T+LT L + N L L G
Sbjct: 103 GVFDKLTNLKELVLVENQLQSLPDGV---------FDKLTNLTYLNLAHNQLQSLPKGVF 153
Query: 70 SLLINLRTLDISNNKLRYLPSEIGD 94
L NL LD+S N+L+ LP + D
Sbjct: 154 DKLTNLTELDLSYNQLQSLPEGVFD 178
>pdb|4ECN|A Chain A, Crystal Structure Of A Leucine-Rich Repeat Protein
(Bt_0210) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.80 A Resolution
Length = 876
Score = 29.6 bits (65), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 40/89 (44%), Gaps = 14/89 (15%)
Query: 4 NNLTRLSGDISL--LINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNN 61
NNL SL + L LD +NK+R+L + VK LT L ++ N
Sbjct: 558 NNLEEFPASASLQKXVKLGLLDCVHNKVRHLEAFGTNVK-----------LTDLKLDYNQ 606
Query: 62 LTRLSGDISLLIN-LRTLDISNNKLRYLP 89
+ + D + + L S+NKL+Y+P
Sbjct: 607 IEEIPEDFCAFTDQVEGLGFSHNKLKYIP 635
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 29.3 bits (64), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 28/90 (31%), Positives = 42/90 (46%), Gaps = 11/90 (12%)
Query: 3 DNNLTRLSGD-ISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNN 61
+NN+ + D L +L L + N +R + E+GA L+ L L + DN
Sbjct: 84 ENNIQMIQADTFRHLHHLEVLQLGRNSIRQI--EVGAFNGLAS-------LNTLELFDNW 134
Query: 62 LTRL-SGDISLLINLRTLDISNNKLRYLPS 90
LT + SG L LR L + NN + +PS
Sbjct: 135 LTVIPSGAFEYLSKLRELWLRNNPIESIPS 164
>pdb|2XOT|A Chain A, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
pdb|2XOT|B Chain B, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
Length = 361
Score = 29.3 bits (64), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 34/112 (30%), Positives = 57/112 (50%), Gaps = 26/112 (23%)
Query: 1 MNDNNLTRLSGDISLLI-NLRTLDISNNKLR----YLPSEIGAV--------------KN 41
++ N+L +S + + + NLR LD+S+N L +L S++ A+ +N
Sbjct: 71 LSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRN 130
Query: 42 LSPDLWQFTHLTALYMNDNNLTR----LSGDISLLINLRTLDISNNKLRYLP 89
D+ Q L LY++ N ++R L D + L L LD+S+NKL+ LP
Sbjct: 131 AFEDMAQ---LQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLKKLP 179
>pdb|2FT3|A Chain A, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|B Chain B, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|C Chain C, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|D Chain D, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|E Chain E, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|F Chain F, Crystal Structure Of The Biglycan Dimer Core Protein
Length = 332
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 10/56 (17%)
Query: 11 GDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLS 66
G +S L LR L + NNKL +P+ + PDL L +Y++ NN+T++
Sbjct: 235 GSLSFLPTLRELHLDNNKLSRVPAGL-------PDL---KLLQVVYLHTNNITKVG 280
>pdb|3O53|A Chain A, Crystal Structure Of Lrim1 Leucine-Rich Repeat Domain
pdb|3O53|B Chain B, Crystal Structure Of Lrim1 Leucine-Rich Repeat Domain
Length = 317
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 39/71 (54%), Gaps = 10/71 (14%)
Query: 18 NLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGDISLLINLRT 77
N++ LD+S N L S+I A DL FT L L ++ N L + D+ L LRT
Sbjct: 35 NVKELDLSGNPL----SQISAA-----DLAPFTKLELLNLSSNVLYE-TLDLESLSTLRT 84
Query: 78 LDISNNKLRYL 88
LD++NN ++ L
Sbjct: 85 LDLNNNYVQEL 95
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 17/80 (21%)
Query: 11 GDISLLINLRTLDISNNKLRYLPS----------EIGA--VKNLSPDLWQFTHLTALYMN 58
G ++ L NL LD++NN++ L ++GA + N+SP L T LT L +N
Sbjct: 236 GTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP-LAGLTALTNLELN 294
Query: 59 DNNLTRLSGDISLLINLRTL 78
+N L DIS + NL+ L
Sbjct: 295 ENQLE----DISPISNLKNL 310
Score = 25.8 bits (55), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 42/85 (49%), Gaps = 14/85 (16%)
Query: 16 LINLRTLDISNNK------------LRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLT 63
L L LDIS+NK L L + + +++P L T+L L +N N L
Sbjct: 175 LTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITP-LGILTNLDELSLNGNQLK 233
Query: 64 RLSGDISLLINLRTLDISNNKLRYL 88
+ G ++ L NL LD++NN++ L
Sbjct: 234 DI-GTLASLTNLTDLDLANNQISNL 257
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 17/80 (21%)
Query: 11 GDISLLINLRTLDISNNKLRYLPS----------EIGA--VKNLSPDLWQFTHLTALYMN 58
G ++ L NL LD++NN++ L ++GA + N+SP L T LT L +N
Sbjct: 233 GTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP-LAGLTALTNLELN 291
Query: 59 DNNLTRLSGDISLLINLRTL 78
+N L DIS + NL+ L
Sbjct: 292 ENQL----EDISPISNLKNL 307
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 17/80 (21%)
Query: 11 GDISLLINLRTLDISNNKLRYLPS----------EIGA--VKNLSPDLWQFTHLTALYMN 58
G ++ L NL LD++NN++ L ++GA + N+SP L T LT L +N
Sbjct: 233 GTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP-LAGLTALTNLELN 291
Query: 59 DNNLTRLSGDISLLINLRTL 78
+N L DIS + NL+ L
Sbjct: 292 ENQL----EDISPISNLKNL 307
>pdb|1O6S|A Chain A, Internalin (Listeria Monocytogenes) E-Cadherin (Human)
Recognition Complex
pdb|1O6T|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|B Chain B, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
Length = 466
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 17/80 (21%)
Query: 11 GDISLLINLRTLDISNNKLRYLPS----------EIGA--VKNLSPDLWQFTHLTALYMN 58
G ++ L NL LD++NN++ L ++GA + N+SP L T LT L +N
Sbjct: 237 GTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP-LAGLTALTNLELN 295
Query: 59 DNNLTRLSGDISLLINLRTL 78
+N L DIS + NL+ L
Sbjct: 296 ENQLE----DISPISNLKNL 311
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 17/80 (21%)
Query: 11 GDISLLINLRTLDISNNKLRYLPS----------EIGA--VKNLSPDLWQFTHLTALYMN 58
G ++ L NL LD++NN++ L ++GA + N+SP L T LT L +N
Sbjct: 233 GTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP-LAGLTALTNLELN 291
Query: 59 DNNLTRLSGDISLLINLRTL 78
+N L DIS + NL+ L
Sbjct: 292 ENQL----EDISPISNLKNL 307
>pdb|2OMV|A Chain A, Crystal Structure Of Inla S192n Y369s/hec1 Complex
pdb|2OMW|A Chain A, Crystal Structure Of Inla S192n Y369s/mec1 Complex
Length = 461
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 17/80 (21%)
Query: 11 GDISLLINLRTLDISNNKLRYLPS----------EIGA--VKNLSPDLWQFTHLTALYMN 58
G ++ L NL LD++NN++ L ++GA + N+SP L T LT L +N
Sbjct: 232 GTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP-LAGLTALTNLELN 290
Query: 59 DNNLTRLSGDISLLINLRTL 78
+N L DIS + NL+ L
Sbjct: 291 ENQL----EDISPISNLKNL 306
>pdb|3OJA|A Chain A, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 487
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 39/71 (54%), Gaps = 10/71 (14%)
Query: 18 NLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGDISLLINLRT 77
N++ LD+S N L S+I A DL FT L L ++ N L + D+ L LRT
Sbjct: 35 NVKELDLSGNPL----SQISAA-----DLAPFTKLELLNLSSNVLYE-TLDLESLSTLRT 84
Query: 78 LDISNNKLRYL 88
LD++NN ++ L
Sbjct: 85 LDLNNNYVQEL 95
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 17/80 (21%)
Query: 11 GDISLLINLRTLDISNNKLRYLPS----------EIGA--VKNLSPDLWQFTHLTALYMN 58
G ++ L NL LD++NN++ L ++GA + N+SP L T LT L +N
Sbjct: 232 GTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP-LAGLTALTNLELN 290
Query: 59 DNNLTRLSGDISLLINLRTL 78
+N L DIS + NL+ L
Sbjct: 291 ENQL----EDISPISNLKNL 306
>pdb|2R9U|A Chain A, Crystal Structure Of Lamprey Variable Lymphocyte
Receptor 2913 Ectodomain
pdb|2R9U|B Chain B, Crystal Structure Of Lamprey Variable Lymphocyte
Receptor 2913 Ectodomain
pdb|2R9U|C Chain C, Crystal Structure Of Lamprey Variable Lymphocyte
Receptor 2913 Ectodomain
pdb|2R9U|D Chain D, Crystal Structure Of Lamprey Variable Lymphocyte
Receptor 2913 Ectodomain
Length = 174
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 27/41 (65%), Gaps = 1/41 (2%)
Query: 55 LYMNDNNLTRLS-GDISLLINLRTLDISNNKLRYLPSEIGD 94
L++N+N +T+L G L+NL+ L ++NKL +P+ + D
Sbjct: 38 LWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFD 78
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 10/66 (15%)
Query: 1 MNDNNLTRLS-GDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMND 59
+N+N +T+L G L+NL+ L ++NKL +P+ + + T LT L +ND
Sbjct: 40 LNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFD---------KLTQLTQLDLND 90
Query: 60 NNLTRL 65
N+L +
Sbjct: 91 NHLKSI 96
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 42/88 (47%), Gaps = 13/88 (14%)
Query: 10 SGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGDI 69
+ DI L LR L IS+N+++YL + L L ++ N L ++S
Sbjct: 38 TSDILSLSKLRILIISHNRIQYLDISVFKFNQ---------ELEYLDLSHNKLVKISCHP 88
Query: 70 SLLINLRTLDISNNKLRYLP--SEIGDL 95
+ +NL+ LD+S N LP E G++
Sbjct: 89 T--VNLKHLDLSFNAFDALPICKEFGNM 114
>pdb|2V70|A Chain A, Third Lrr Domain Of Human Slit2
pdb|2V70|B Chain B, Third Lrr Domain Of Human Slit2
pdb|2V70|C Chain C, Third Lrr Domain Of Human Slit2
pdb|2V70|D Chain D, Third Lrr Domain Of Human Slit2
Length = 220
Score = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 14/67 (20%)
Query: 21 TLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL--SGDISLLINLRTL 78
T+D SN KL +P I Q+T L +N+N T L +G L LR +
Sbjct: 15 TVDCSNQKLNKIPEHIP----------QYT--AELRLNNNEFTVLEATGIFKKLPQLRKI 62
Query: 79 DISNNKL 85
+ SNNK+
Sbjct: 63 NFSNNKI 69
>pdb|1XCD|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 1
pdb|1XEC|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
pdb|1XEC|B Chain B, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
Length = 329
Score = 27.3 bits (59), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 55/127 (43%), Gaps = 18/127 (14%)
Query: 17 INLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALY-MNDNNLTRLS-GDISLLIN 74
+LR + S+ L +P K+L PD TAL + +N +T + GD L N
Sbjct: 31 CHLRVVQCSDLGLEKVP------KDLPPD-------TALLDLQNNKITEIKDGDFKNLKN 77
Query: 75 LRTLDISNNKLRYL-PSEIGDLIYXXXXXXXXXXXXXXPYELGKLFQIQILGLHGNPLSK 133
L TL + NNK+ + P L+ P ++ K +Q L +H N ++K
Sbjct: 78 LHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELPEKMPK--TLQELRVHENEITK 135
Query: 134 DYMKIYN 140
++N
Sbjct: 136 VRKSVFN 142
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 27.3 bits (59), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 55/127 (43%), Gaps = 18/127 (14%)
Query: 17 INLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALY-MNDNNLTRLS-GDISLLIN 74
+LR + S+ L +P K+L PD TAL + +N +T + GD L N
Sbjct: 31 CHLRVVQCSDLGLEKVP------KDLPPD-------TALLDLQNNKITEIKDGDFKNLKN 77
Query: 75 LRTLDISNNKLRYL-PSEIGDLIYXXXXXXXXXXXXXXPYELGKLFQIQILGLHGNPLSK 133
L TL + NNK+ + P L+ P ++ K +Q L +H N ++K
Sbjct: 78 LHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELPEKMPK--TLQELRVHENEITK 135
Query: 134 DYMKIYN 140
++N
Sbjct: 136 VRKSVFN 142
>pdb|2Z80|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
pdb|2Z80|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 353
Score = 27.3 bits (59), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 10/73 (13%)
Query: 19 LRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGD-ISLLINLRT 77
+++LD+SNN++ Y+ + DL + +L AL + N + + D S L +L
Sbjct: 54 VKSLDLSNNRITYISNS---------DLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEH 104
Query: 78 LDISNNKLRYLPS 90
LD+S N L L S
Sbjct: 105 LDLSYNYLSNLSS 117
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 27.3 bits (59), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 44/92 (47%), Gaps = 9/92 (9%)
Query: 1 MNDNNLTRLSGDISLLIN--LRTLDISNNKLRYLPSEIGAVKNLSPDLWQ-FTHLTALYM 57
+N N + SGD + N L L + N L ++ L D+++ +HL LY+
Sbjct: 433 LNQNRFSSCSGDQTPSENPSLEQLFLGENML-----QLAWETELCWDVFEGLSHLQVLYL 487
Query: 58 NDNNLTRL-SGDISLLINLRTLDISNNKLRYL 88
N N L L G S L LR L +++N+L L
Sbjct: 488 NHNYLNSLPPGVFSHLTALRGLSLNSNRLTVL 519
>pdb|1M0Z|A Chain A, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
pdb|1M0Z|B Chain B, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
Length = 290
Score = 26.9 bits (58), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 50/105 (47%), Gaps = 16/105 (15%)
Query: 1 MNDNNLTRLSGDISLLINLRTLDISNNKLRYLP---SEIGAVKNLSPDLWQFT------- 50
++ LT+L D +L + L TLD+S+N+L+ LP + A+ L + T
Sbjct: 62 LDRCELTKLQVDGTLPV-LGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGAL 120
Query: 51 ----HLTALYMNDNNLTRL-SGDISLLINLRTLDISNNKLRYLPS 90
L LY+ N L L G ++ L L ++NN+L LP+
Sbjct: 121 RGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPA 165
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 26.9 bits (58), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 40/84 (47%), Gaps = 19/84 (22%)
Query: 8 RLSGDI--SLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL 65
++SGD+ S +NL LD+S+N N S + +AL D + +L
Sbjct: 186 KISGDVDVSRCVNLEFLDVSSN-------------NFSTGIPFLGDCSALQHLDISGNKL 232
Query: 66 SGD----ISLLINLRTLDISNNKL 85
SGD IS L+ L+IS+N+
Sbjct: 233 SGDFSRAISTCTELKLLNISSNQF 256
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 26.9 bits (58), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 50/105 (47%), Gaps = 16/105 (15%)
Query: 1 MNDNNLTRLSGDISLLINLRTLDISNNKLRYLP---SEIGAVKNLSPDLWQFT------- 50
++ LT+L D +L + L TLD+S+N+L+ LP + A+ L + T
Sbjct: 62 LDRCELTKLQVDGTLPV-LGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGAL 120
Query: 51 ----HLTALYMNDNNLTRL-SGDISLLINLRTLDISNNKLRYLPS 90
L LY+ N L L G ++ L L ++NN+L LP+
Sbjct: 121 RGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPA 165
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced
By Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 26.9 bits (58), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 10/73 (13%)
Query: 19 LRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGD-ISLLINLRT 77
+++LD+SNN++ Y+ + DL + +L AL + N + + D S L +L
Sbjct: 28 VKSLDLSNNRITYISNS---------DLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEH 78
Query: 78 LDISNNKLRYLPS 90
LD+S N L L S
Sbjct: 79 LDLSYNYLSNLSS 91
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 26.9 bits (58), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 50/105 (47%), Gaps = 16/105 (15%)
Query: 1 MNDNNLTRLSGDISLLINLRTLDISNNKLRYLP---SEIGAVKNLSPDLWQFT------- 50
++ LT+L D +L + L TLD+S+N+L+ LP + A+ L + T
Sbjct: 62 LDRCELTKLQVDGTLPV-LGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGAL 120
Query: 51 ----HLTALYMNDNNLTRL-SGDISLLINLRTLDISNNKLRYLPS 90
L LY+ N L L G ++ L L ++NN+L LP+
Sbjct: 121 RGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPA 165
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 26.9 bits (58), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 50/105 (47%), Gaps = 16/105 (15%)
Query: 1 MNDNNLTRLSGDISLLINLRTLDISNNKLRYLP---SEIGAVKNLSPDLWQFT------- 50
++ LT+L D +L + L TLD+S+N+L+ LP + A+ L + T
Sbjct: 62 LDRCELTKLQVDGTLPV-LGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGAL 120
Query: 51 ----HLTALYMNDNNLTRL-SGDISLLINLRTLDISNNKLRYLPS 90
L LY+ N L L G ++ L L ++NN+L LP+
Sbjct: 121 RGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPA 165
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 40/84 (47%), Gaps = 19/84 (22%)
Query: 8 RLSGDI--SLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL 65
++SGD+ S +NL LD+S+N N S + +AL D + +L
Sbjct: 189 KISGDVDVSRCVNLEFLDVSSN-------------NFSTGIPFLGDCSALQHLDISGNKL 235
Query: 66 SGD----ISLLINLRTLDISNNKL 85
SGD IS L+ L+IS+N+
Sbjct: 236 SGDFSRAISTCTELKLLNISSNQF 259
>pdb|1SQ0|B Chain B, Crystal Structure Of The Complex Of The Wild-Type Von
Willebrand Factor A1 Domain And Glycoprotein Ib Alpha At
2.6 Angstrom Resolution
Length = 288
Score = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 45/86 (52%), Gaps = 12/86 (13%)
Query: 5 NLTRLSGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTR 64
LT+L D +L + L TLD+S+N+L+ LP +G LT L ++ N LT
Sbjct: 66 ELTKLQVDGTLPV-LGTLDLSHNQLQSLPL-LGQT---------LPALTVLDVSFNRLTS 114
Query: 65 LS-GDISLLINLRTLDISNNKLRYLP 89
L G + L L+ L + N+L+ LP
Sbjct: 115 LPLGALRGLGELQELYLKGNELKTLP 140
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 26.9 bits (58), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 30/85 (35%), Positives = 45/85 (52%), Gaps = 12/85 (14%)
Query: 6 LTRLSGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL 65
LT+L D +L + L TLD+S+N+L+ LP +G LT L ++ N LT L
Sbjct: 68 LTKLQVDGTLPV-LGTLDLSHNQLQSLPL-LGQT---------LPALTVLDVSFNRLTSL 116
Query: 66 S-GDISLLINLRTLDISNNKLRYLP 89
G + L L+ L + N+L+ LP
Sbjct: 117 PLGALRGLGELQELYLKGNELKTLP 141
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 26.9 bits (58), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 30/85 (35%), Positives = 45/85 (52%), Gaps = 12/85 (14%)
Query: 6 LTRLSGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL 65
LT+L D +L + L TLD+S+N+L+ LP +G LT L ++ N LT L
Sbjct: 67 LTKLQVDGTLPV-LGTLDLSHNQLQSLPL-LGQT---------LPALTVLDVSFNRLTSL 115
Query: 66 S-GDISLLINLRTLDISNNKLRYLP 89
G + L L+ L + N+L+ LP
Sbjct: 116 PLGALRGLGELQELYLKGNELKTLP 140
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 26.6 bits (57), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 30/85 (35%), Positives = 45/85 (52%), Gaps = 12/85 (14%)
Query: 6 LTRLSGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL 65
LT+L D +L + L TLD+S+N+L+ LP +G LT L ++ N LT L
Sbjct: 67 LTKLQVDGTLPV-LGTLDLSHNQLQSLPL-LGQT---------LPALTVLDVSFNRLTSL 115
Query: 66 S-GDISLLINLRTLDISNNKLRYLP 89
G + L L+ L + N+L+ LP
Sbjct: 116 PLGALRGLGELQELYLKGNELKTLP 140
>pdb|1P9A|G Chain G, Crystal Structure Of N-terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-alpha At 1.7 Angstrom
Resolution
pdb|1QYY|A Chain A, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
pdb|1QYY|G Chain G, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
Length = 290
Score = 26.6 bits (57), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 30/85 (35%), Positives = 45/85 (52%), Gaps = 12/85 (14%)
Query: 6 LTRLSGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRL 65
LT+L D +L + L TLD+S+N+L+ LP +G LT L ++ N LT L
Sbjct: 67 LTKLQVDGTLPV-LGTLDLSHNQLQSLPL-LGQT---------LPALTVLDVSFNRLTSL 115
Query: 66 S-GDISLLINLRTLDISNNKLRYLP 89
G + L L+ L + N+L+ LP
Sbjct: 116 PLGALRGLGELQELYLKGNELKTLP 140
>pdb|4ECO|A Chain A, Crystal Structure Of A Hypothetical Protein (Bacegg_03329)
From Bacteroides Eggerthii Dsm 20697 At 2.70 A
Resolution
pdb|4ECO|B Chain B, Crystal Structure Of A Hypothetical Protein (Bacegg_03329)
From Bacteroides Eggerthii Dsm 20697 At 2.70 A
Resolution
Length = 636
Score = 26.6 bits (57), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 35/74 (47%)
Query: 19 LRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGDISLLINLRTL 78
+ L ++NKL+Y+P+ A F++ ++ N L IN+ ++
Sbjct: 379 VENLSFAHNKLKYIPNIFDAKSVSVXSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSI 438
Query: 79 DISNNKLRYLPSEI 92
++SNN++ P E+
Sbjct: 439 NLSNNQISKFPKEL 452
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 26.6 bits (57), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 47/90 (52%), Gaps = 12/90 (13%)
Query: 1 MNDNNLTRLSGDISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDN 60
++ LT+L D +L + L TLD+S+N+L+ LP +G LT L ++ N
Sbjct: 62 LDRCELTKLQVDGTLPV-LGTLDLSHNQLQSLPL-LGQT---------LPALTVLDVSFN 110
Query: 61 NLTRLS-GDISLLINLRTLDISNNKLRYLP 89
LT L G + L L+ L + N+L+ LP
Sbjct: 111 RLTSLPLGALRGLGELQELYLKGNELKTLP 140
>pdb|3NAZ|A Chain A, Basal State Form Of Yeast Glycogen Synthase
pdb|3NAZ|B Chain B, Basal State Form Of Yeast Glycogen Synthase
pdb|3NAZ|C Chain C, Basal State Form Of Yeast Glycogen Synthase
pdb|3NAZ|D Chain D, Basal State Form Of Yeast Glycogen Synthase
pdb|3NCH|A Chain A, Yeast Glycogen Synthase (Gsy2p) Basal State Conformation
pdb|3NCH|B Chain B, Yeast Glycogen Synthase (Gsy2p) Basal State Conformation
pdb|3NCH|C Chain C, Yeast Glycogen Synthase (Gsy2p) Basal State Conformation
pdb|3NCH|D Chain D, Yeast Glycogen Synthase (Gsy2p) Basal State Conformation
pdb|3O3C|A Chain A, Glycogen Synthase Basal State Udp Complex
pdb|3O3C|B Chain B, Glycogen Synthase Basal State Udp Complex
pdb|3O3C|C Chain C, Glycogen Synthase Basal State Udp Complex
pdb|3O3C|D Chain D, Glycogen Synthase Basal State Udp Complex
pdb|3RSZ|A Chain A, Maltodextran Bound Basal State Conformation Of Yeast
Glycogen Synthase Isoform 2
pdb|3RSZ|B Chain B, Maltodextran Bound Basal State Conformation Of Yeast
Glycogen Synthase Isoform 2
pdb|3RSZ|C Chain C, Maltodextran Bound Basal State Conformation Of Yeast
Glycogen Synthase Isoform 2
pdb|3RSZ|D Chain D, Maltodextran Bound Basal State Conformation Of Yeast
Glycogen Synthase Isoform 2
Length = 725
Score = 26.6 bits (57), Expect = 6.7, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 37/82 (45%), Gaps = 11/82 (13%)
Query: 22 LDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGDISLLINLRTLDI- 80
LD L Y+ + A++ PD QF L +ND+N+ L+G L + R L +
Sbjct: 617 LDWKRMGLEYVKARQLALRRGYPD--QFRELVGEELNDSNMDALAGGKKLKV-ARPLSVP 673
Query: 81 -------SNNKLRYLPSEIGDL 95
SN+ + P ++G L
Sbjct: 674 GSPRDLRSNSTVYMTPGDLGTL 695
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 26.2 bits (56), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 14/67 (20%)
Query: 21 TLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGD--ISLLINLRTL 78
T+D + L+ +P +I H T L +NDN L R+S D L +L L
Sbjct: 12 TVDCTGRGLKEIPRDIP------------LHTTELLLNDNELGRISSDGLFGRLPHLVKL 59
Query: 79 DISNNKL 85
++ N+L
Sbjct: 60 ELKRNQL 66
>pdb|3NB0|A Chain A, Glucose-6-Phosphate Activated Form Of Yeast Glycogen
Synthase
pdb|3NB0|B Chain B, Glucose-6-Phosphate Activated Form Of Yeast Glycogen
Synthase
pdb|3NB0|C Chain C, Glucose-6-Phosphate Activated Form Of Yeast Glycogen
Synthase
pdb|3NB0|D Chain D, Glucose-6-Phosphate Activated Form Of Yeast Glycogen
Synthase
pdb|3RT1|A Chain A, Maltodextarn Bound Activated State Form Of Yeast Glycogen
Synthase Isoform 2
pdb|3RT1|B Chain B, Maltodextarn Bound Activated State Form Of Yeast Glycogen
Synthase Isoform 2
pdb|3RT1|C Chain C, Maltodextarn Bound Activated State Form Of Yeast Glycogen
Synthase Isoform 2
pdb|3RT1|D Chain D, Maltodextarn Bound Activated State Form Of Yeast Glycogen
Synthase Isoform 2
Length = 725
Score = 26.2 bits (56), Expect = 7.2, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 37/82 (45%), Gaps = 11/82 (13%)
Query: 22 LDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGDISLLINLRTLDI- 80
LD L Y+ + A++ PD QF L +ND+N+ L+G L + R L +
Sbjct: 617 LDWKRMGLEYVKARQLALRRGYPD--QFRELVGEELNDSNMDALAGGKKLKV-ARPLSVP 673
Query: 81 -------SNNKLRYLPSEIGDL 95
SN+ + P ++G L
Sbjct: 674 GSPRDLRSNSTVYMTPGDLGTL 695
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 25.8 bits (55), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 39/86 (45%), Gaps = 13/86 (15%)
Query: 12 DISLLINLRTLDISNNKLRYLPSEIGAVKNLSPDLWQFTHLTALYMNDNNLTRLSGDISL 71
DIS L LR L +S+N++R L + L L ++ N L +S
Sbjct: 71 DISFLSELRVLRLSHNRIRSLDFHVFLFNQ---------DLEYLDVSHNRLQNIS--CCP 119
Query: 72 LINLRTLDISNNKLRYLP--SEIGDL 95
+ +LR LD+S N LP E G+L
Sbjct: 120 MASLRHLDLSFNDFDVLPVCKEFGNL 145
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.139 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,168,652
Number of Sequences: 62578
Number of extensions: 141139
Number of successful extensions: 514
Number of sequences better than 100.0: 67
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 61
Number of HSP's that attempted gapping in prelim test: 394
Number of HSP's gapped (non-prelim): 138
length of query: 157
length of database: 14,973,337
effective HSP length: 91
effective length of query: 66
effective length of database: 9,278,739
effective search space: 612396774
effective search space used: 612396774
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)