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= 001897
(998 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 48/154 (31%), Positives = 71/154 (46%), Gaps = 24/154 (15%)
Query: 230 IAERLNLDVKMEESMQRLGIRLHERLLRESNFLLILDDVWETIDLDSLGVPQPEDHGGSK 289
++RL L++ EE+ RL I + L + LLILDDVW++ L + +
Sbjct: 212 FSQRLPLNI--EEAKDRLRILM---LRKHPRSLLILDDVWDSWVLKAFD-------SQCQ 259
Query: 290 IILTSRSLEV---CMAMKTDVEVRVDLLNDD--EAWQLFSQNAGVAASKDPIKPFAQAIA 344
I+LT+R V M K V V L + E LF V K + A +I
Sbjct: 260 ILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLF-----VNMKKADLPEQAHSII 314
Query: 345 RECKGLPLAIITMGTAMRGKTNVKLWKHALKEWQ 378
+ECKG PL + +G +R N W++ LK+ Q
Sbjct: 315 KECKGSPLVVSLIGALLRDFPN--RWEYYLKQLQ 346
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 48/154 (31%), Positives = 71/154 (46%), Gaps = 24/154 (15%)
Query: 230 IAERLNLDVKMEESMQRLGIRLHERLLRESNFLLILDDVWETIDLDSLGVPQPEDHGGSK 289
++RL L++ EE+ RL I + L + LLILDDVW++ L + +
Sbjct: 218 FSQRLPLNI--EEAKDRLRILM---LRKHPRSLLILDDVWDSWVLKAFD-------SQCQ 265
Query: 290 IILTSRSLEV---CMAMKTDVEVRVDLLNDD--EAWQLFSQNAGVAASKDPIKPFAQAIA 344
I+LT+R V M K V V L + E LF V K + A +I
Sbjct: 266 ILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLF-----VNMKKADLPEQAHSII 320
Query: 345 RECKGLPLAIITMGTAMRGKTNVKLWKHALKEWQ 378
+ECKG PL + +G +R N W++ LK+ Q
Sbjct: 321 KECKGSPLVVSLIGALLRDFPN--RWEYYLKQLQ 352
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 54/187 (28%), Positives = 83/187 (44%), Gaps = 36/187 (19%)
Query: 209 SGMVIWATVSKE-----------LNLRWVQAQ-IAERLNLDVKMEESMQRLGIRLHERLL 256
SG V W ++ K+ L +R Q + ++RL L++ EE+ RL + + L
Sbjct: 179 SGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNI--EEAKDRLRVLM---LR 233
Query: 257 RESNFLLILDDVWETIDLDSLGVPQPEDHGGSKIILTSRSLEV---CMAMKTDVEVRVDL 313
+ LLILDDVW+ L + +I+LT+R V M K V V L
Sbjct: 234 KHPRSLLILDDVWDPWVLKAFD-------NQCQILLTTRDKSVTDSVMGPKHVVPVESGL 286
Query: 314 LNDD--EAWQLFSQNAGVAASKDPIKPFAQAIARECKGLPLAIITMGTAMRGKTNVKLWK 371
+ E LF V K+ + A +I +ECKG PL + +G +R N W
Sbjct: 287 GREKGLEILSLF-----VNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPN--RWA 339
Query: 372 HALKEWQ 378
+ L++ Q
Sbjct: 340 YYLRQLQ 346
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 53/187 (28%), Positives = 82/187 (43%), Gaps = 36/187 (19%)
Query: 209 SGMVIWATVSKE-----------LNLRWVQAQ-IAERLNLDVKMEESMQRLGIRLHERLL 256
SG V W ++ K+ L +R Q + ++RL L++ EE+ RL + + L
Sbjct: 186 SGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNI--EEAKDRLRVLM---LR 240
Query: 257 RESNFLLILDDVWETIDLDSLGVPQPEDHGGSKIILTSRSLEV---CMAMKTDVEVRVDL 313
+ LLILDDVW+ L + +I+LT+ V M K V V L
Sbjct: 241 KHPRSLLILDDVWDPWVLKAFD-------NQCQILLTTSDKSVTDSVMGPKHVVPVESGL 293
Query: 314 LNDD--EAWQLFSQNAGVAASKDPIKPFAQAIARECKGLPLAIITMGTAMRGKTNVKLWK 371
+ E LF V K+ + A +I +ECKG PL + +G +R N W
Sbjct: 294 GREKGLEILSLF-----VNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPN--RWA 346
Query: 372 HALKEWQ 378
+ L++ Q
Sbjct: 347 YYLRQLQ 353
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 38/150 (25%), Positives = 64/150 (42%), Gaps = 4/150 (2%)
Query: 516 KRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFPALRVLNLSGTRIHS 575
K++ +N ++ LP H L LL + L +P L L ++ ++ +
Sbjct: 40 KKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQA 99
Query: 576 LPLSLL-QLHNCRALLLRDCFYLEDLP--ALGGLTKLQDLDLSATSIRELPRGMEXXXXX 632
LP+ + QL N L L D L+ LP LTKL L L ++ LP+G+
Sbjct: 100 LPIGVFDQLVNLAELRL-DRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTS 158
Query: 633 XXXXXXXTHYLKKIQAGIICRLSSLEILDM 662
+ LK++ G +L+ L+ L +
Sbjct: 159 LKELRLYNNQLKRVPEGAFDKLTELKTLKL 188
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 40.4 bits (93), Expect = 0.005, Method: Composition-based stats.
Identities = 36/123 (29%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 500 GAGLTEVSETELVNSLKRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDG 559
G G+T + + +N+L + +N IT L K + + L L GN PL V + G
Sbjct: 50 GTGVTTIEGVQYLNNLIGLELKDNQITDLAPLK-NLTKITELELSGN-PLKNVSA--IAG 105
Query: 560 FPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFYLEDLPALGGLTKLQDLDLSATSI 619
+++ L+L+ T+I + L L N + L L D + ++ L GLT LQ L + +
Sbjct: 106 LQSIKTLDLTSTQITDVT-PLAGLSNLQVLYL-DLNQITNISPLAGLTNLQYLSIGNAQV 163
Query: 620 REL 622
+L
Sbjct: 164 SDL 166
>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 = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 46/202 (22%), Positives = 84/202 (41%), Gaps = 6/202 (2%)
Query: 462 LLEDGASEGTVKIHDVVRDVAIWIASSLENRCKSLVRSGAGLTEVSETELVNSLKRVSFM 521
+ D A T+K + + V + + N ++ + + + V + + +++ ++
Sbjct: 12 IFPDDAFAETIKANLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVRYLALG 71
Query: 522 NNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFPALRVLNLSGTRIHSLPLSLL 581
N + + K L+L GN L +P D L+ L L ++ SLP +
Sbjct: 72 GNKLHDISALK-ELTNLTYLILTGN-QLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVF 129
Query: 582 -QLHNCRALLLRDCFYLEDLP--ALGGLTKLQDLDLSATSIRELPRGMEXXXXXXXXXXX 638
+L N L L L+ LP LT L +LDLS ++ LP G+
Sbjct: 130 DKLTNLTYLNLAHN-QLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRL 188
Query: 639 XTHYLKKIQAGIICRLSSLEIL 660
+ LK + G+ RL+SL+ +
Sbjct: 189 YQNQLKSVPDGVFDRLTSLQYI 210
>pdb|1XWD|C Chain C, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
pdb|1XWD|F Chain F, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
Length = 252
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 42/89 (47%), Gaps = 2/89 (2%)
Query: 523 NSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFPALRVLNLSGTRIHSLPLSLLQ 582
N I ++ +C + + L L N L +P G +L++S TRIHSLP L+
Sbjct: 164 NGIQEIHNCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLE 223
Query: 583 LHNCRALLLRDCFYLEDLPALGGLTKLQD 611
N + L R + L+ LP L L L +
Sbjct: 224 --NLKKLRARSTYNLKKLPTLEKLVALME 250
>pdb|4ARN|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|C Chain C, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|D Chain D, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARR|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
pdb|4ARR|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
Length = 279
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 52/110 (47%), Gaps = 5/110 (4%)
Query: 552 VPEKFLDGFPALRVLNLSGTRIHSLPLSLL-QLHNCRALLLRDCFYLEDLPA--LGGLTK 608
+ + LD L+ + R+ +P +LL + N L LR +E++P+ L
Sbjct: 114 ITRQHLDRLHGLKRFRFTTRRLTHIPANLLTDMRNLSHLELRA--NIEEMPSHLFDDLEN 171
Query: 609 LQDLDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLE 658
L+ ++ + +R++PRG+ ++ LK + GI RL+SL+
Sbjct: 172 LESIEFGSNKLRQMPRGIFGKMPKLKQLNLASNQLKSVPDGIFDRLTSLQ 221
>pdb|4AY9|X Chain X, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Y Chain Y, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Z Chain Z, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
Length = 350
Score = 37.7 bits (86), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 43/96 (44%), Gaps = 2/96 (2%)
Query: 523 NSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFPALRVLNLSGTRIHSLPLSLLQ 582
N I ++ + + + L L N L +P G +L++S TRIHSLP
Sbjct: 164 NGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLP--SYG 221
Query: 583 LHNCRALLLRDCFYLEDLPALGGLTKLQDLDLSATS 618
L N + L R + L+ LP L L L + L+ S
Sbjct: 222 LENLKKLRARSTYNLKKLPTLEKLVALMEASLTYPS 257
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 37.4 bits (85), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 91/386 (23%), Positives = 146/386 (37%), Gaps = 99/386 (25%)
Query: 502 GLTEVSETELVNSLKRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFP 561
G+ + E +N+L +++F NN +T + K + + + +L+ N P L
Sbjct: 52 GIKSIDGVEYLNNLTQINFSNNQLTDITPLK-NLTKLVDILMNNNQIADITPLANLTNLT 110
Query: 562 ALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFYLEDLPALGGLTKLQDLDLSATSIRE 621
L + N T I L L N L L + D+ AL GLT LQ L+ S+ + +
Sbjct: 111 GLTLFNNQITDIDPLK----NLTNLNRLELS-SNTISDISALSGLTSLQQLNFSSNQVTD 165
Query: 622 LPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEILDMT---LSDYHWRVKGQEDEG 678
L + L++LE LD++ +SD K
Sbjct: 166 LKP--------------------------LANLTTLERLDISSNKVSDISVLAK------ 193
Query: 679 QTNFEELGCLERLLVLSIRLENIPSQGTEDLTWIGRLRSFQFFIGPTANSLPTKHDERRV 738
L LE L+ + ++ D+T +G L T DE
Sbjct: 194 ------LTNLESLIATNNQI--------SDITPLGIL---------------TNLDE--- 221
Query: 739 TISGIDLSGEWIGWLLTNASSLILNNCWGLDQMLETLVIDSVGAFASLKSLTI------- 791
+ L+G + + T AS L N LD L + + A L LT
Sbjct: 222 ----LSLNGNQLKDIGTLAS---LTNLTDLD-----LANNQISNLAPLSGLTKLTELKLG 269
Query: 792 AGSRSSLRPIGGCAAHDDLLPNLEELHLHDLAYLGNISGLVGYLGLRFSKLR-LMEVTQC 850
A S++ P+ G A +L L E L D++ + N+ L YL L F+ + + V+
Sbjct: 270 ANQISNISPLAGLTALTNL--ELNENQLEDISPISNLKNLT-YLTLYFNNISDISPVSSL 326
Query: 851 PRLKYLLTYG---SFILALPNLQEIK 873
+L+ L Y S + +L NL I
Sbjct: 327 TKLQRLFFYNNKVSDVSSLANLTNIN 352
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 36.6 bits (83), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 45/199 (22%), Positives = 80/199 (40%), Gaps = 6/199 (3%)
Query: 462 LLEDGASEGTVKIHDVVRDVAIWIASSLENRCKSLVRSGAGLTEVSETELVNSLKRVSFM 521
+ D A T+K + + V + + N ++ + + + V + + +++ ++
Sbjct: 12 IFPDDAFAETIKANLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVRYLALG 71
Query: 522 NNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFPALRVLNLSGTRIHSLPLSLL 581
N + + K L+L GN L +P D L+ L L ++ SLP +
Sbjct: 72 GNKLHDISALK-ELTNLTYLILTGN-QLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVF 129
Query: 582 -QLHNCRALLLRDCFYLEDLP--ALGGLTKLQDLDLSATSIRELPRGMEXXXXXXXXXXX 638
+L N L L L+ LP LT L LDL ++ LP G+
Sbjct: 130 DKLTNLTYLYLYHN-QLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSL 188
Query: 639 XTHYLKKIQAGIICRLSSL 657
+ LK + G+ RL+SL
Sbjct: 189 NDNQLKSVPDGVFDRLTSL 207
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 36.6 bits (83), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 91/386 (23%), Positives = 145/386 (37%), Gaps = 99/386 (25%)
Query: 502 GLTEVSETELVNSLKRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFP 561
G+ + E +N+L +++F NN +T + K + + + +L+ N P L
Sbjct: 52 GIKSIDGVEYLNNLTQINFSNNQLTDITPLK-NLTKLVDILMNNNQIADITPLANLTNLT 110
Query: 562 ALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFYLEDLPALGGLTKLQDLDLSATSIRE 621
L + N T I L L N L L + D+ AL GLT LQ L S+ + +
Sbjct: 111 GLTLFNNQITDIDPLK----NLTNLNRLELS-SNTISDISALSGLTSLQQLSFSSNQVTD 165
Query: 622 LPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEILDMT---LSDYHWRVKGQEDEG 678
L + L++LE LD++ +SD K
Sbjct: 166 LKP--------------------------LANLTTLERLDISSNKVSDISVLAK------ 193
Query: 679 QTNFEELGCLERLLVLSIRLENIPSQGTEDLTWIGRLRSFQFFIGPTANSLPTKHDERRV 738
L LE L+ + ++ D+T +G L T DE
Sbjct: 194 ------LTNLESLIATNNQI--------SDITPLGIL---------------TNLDE--- 221
Query: 739 TISGIDLSGEWIGWLLTNASSLILNNCWGLDQMLETLVIDSVGAFASLKSLTI------- 791
+ L+G + + T AS L N LD L + + A L LT
Sbjct: 222 ----LSLNGNQLKDIGTLAS---LTNLTDLD-----LANNQISNLAPLSGLTKLTELKLG 269
Query: 792 AGSRSSLRPIGGCAAHDDLLPNLEELHLHDLAYLGNISGLVGYLGLRFSKLR-LMEVTQC 850
A S++ P+ G A +L L E L D++ + N+ L YL L F+ + + V+
Sbjct: 270 ANQISNISPLAGLTALTNL--ELNENQLEDISPISNLKNLT-YLTLYFNNISDISPVSSL 326
Query: 851 PRLKYLLTYG---SFILALPNLQEIK 873
+L+ L Y S + +L NL I
Sbjct: 327 TKLQRLFFYNNKVSDVSSLANLTNIN 352
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 33/121 (27%), Positives = 53/121 (43%), Gaps = 6/121 (4%)
Query: 502 GLTEVSETELVNSLKRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFP 561
G+ + E +N+L +++F NN +T + K + + + +L+ N P L
Sbjct: 52 GIKSIDGVEYLNNLTQINFSNNQLTDITPLK-NLTKLVDILMNNNQIADITPLANLTNLT 110
Query: 562 ALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFYLEDLPALGGLTKLQDLDLSATSIRE 621
L + N T I L L N L L + D+ AL GLT LQ L S+ + +
Sbjct: 111 GLTLFNNQITDIDPLK----NLTNLNRLELS-SNTISDISALSGLTSLQQLSFSSNQVTD 165
Query: 622 L 622
L
Sbjct: 166 L 166
>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 = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 55/138 (39%), Gaps = 22/138 (15%)
Query: 523 NSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFPALRVLNLSGTRIHSLPLSLLQ 582
NS+ LP+ +LT L G L +P + +L LNLS ++ SLP +
Sbjct: 38 NSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFD 97
Query: 583 LHNCRALLLRDCFYLEDLPALGGLTKLQDLDLSATSIRELPRGMEXXXXXXXXXXXXTHY 642
LT+L++L L+ ++ LP G+ +
Sbjct: 98 ----------------------KLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQ 135
Query: 643 LKKIQAGIICRLSSLEIL 660
LK + G+ RL+SL+ +
Sbjct: 136 LKSVPDGVFDRLTSLQYI 153
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 53/109 (48%), Gaps = 8/109 (7%)
Query: 557 LDG-FPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFY--LEDLP--ALGGLTKLQD 611
+DG P L L+LS ++ SLPL L AL + D + L LP AL GL +LQ+
Sbjct: 72 VDGTLPVLGTLDLSHNQLQSLPLLGQTL---PALTVLDVSFNRLTSLPLGALRGLGELQE 128
Query: 612 LDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEIL 660
L L ++ LP G+ + L ++ AG++ L +L+ L
Sbjct: 129 LYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTL 177
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 35.8 bits (81), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 53/109 (48%), Gaps = 8/109 (7%)
Query: 557 LDG-FPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFY--LEDLP--ALGGLTKLQD 611
+DG P L L+LS ++ SLPL L AL + D + L LP AL GL +LQ+
Sbjct: 72 VDGTLPVLGTLDLSHNQLQSLPLLGQTL---PALTVLDVSFNRLTSLPLGALRGLGELQE 128
Query: 612 LDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEIL 660
L L ++ LP G+ + L ++ AG++ L +L+ L
Sbjct: 129 LYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTL 177
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 35/74 (47%), Gaps = 10/74 (13%)
Query: 560 FPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFYLEDLP-------ALG---GLTKL 609
F L L L+ + +LP S+ L+ R L +R C L +LP A G GL L
Sbjct: 126 FAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNL 185
Query: 610 QDLDLSATSIRELP 623
Q L L T IR LP
Sbjct: 186 QSLRLEWTGIRSLP 199
Score = 30.8 bits (68), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 42/92 (45%)
Query: 512 VNSLKRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFPALRVLNLSGT 571
+ +LK + N+ ++ L H P+ L L+G L P F P R++ +
Sbjct: 205 LQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCS 264
Query: 572 RIHSLPLSLLQLHNCRALLLRDCFYLEDLPAL 603
+ +LPL + +L L LR C L LP+L
Sbjct: 265 NLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL 296
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 53/109 (48%), Gaps = 8/109 (7%)
Query: 557 LDG-FPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFY--LEDLP--ALGGLTKLQD 611
+DG P L L+LS ++ SLPL L AL + D + L LP AL GL +LQ+
Sbjct: 72 VDGTLPVLGTLDLSHNQLQSLPLLGQTL---PALTVLDVSFNRLTSLPLGALRGLGELQE 128
Query: 612 LDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEIL 660
L L ++ LP G+ + L ++ AG++ L +L+ L
Sbjct: 129 LYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTL 177
>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 = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 53/109 (48%), Gaps = 8/109 (7%)
Query: 557 LDG-FPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFY--LEDLP--ALGGLTKLQD 611
+DG P L L+LS ++ SLPL L AL + D + L LP AL GL +LQ+
Sbjct: 72 VDGTLPVLGTLDLSHNQLQSLPLLGQTL---PALTVLDVSFNRLTSLPLGALRGLGELQE 128
Query: 612 LDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEIL 660
L L ++ LP G+ + L ++ AG++ L +L+ L
Sbjct: 129 LYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTL 177
>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 = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 53/109 (48%), Gaps = 8/109 (7%)
Query: 557 LDG-FPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFY--LEDLP--ALGGLTKLQD 611
+DG P L L+LS ++ SLPL L AL + D + L LP AL GL +LQ+
Sbjct: 72 VDGTLPVLGTLDLSHNQLQSLPLLGQTL---PALTVLDVSFNRLTSLPLGALRGLGELQE 128
Query: 612 LDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEIL 660
L L ++ LP G+ + L ++ AG++ L +L+ L
Sbjct: 129 LYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTL 177
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 53/109 (48%), Gaps = 8/109 (7%)
Query: 557 LDG-FPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFY--LEDLP--ALGGLTKLQD 611
+DG P L L+LS ++ SLPL L AL + D + L LP AL GL +LQ+
Sbjct: 72 VDGTLPVLGTLDLSHNQLQSLPLLGQTL---PALTVLDVSFNRLTSLPLGALRGLGELQE 128
Query: 612 LDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEIL 660
L L ++ LP G+ + L ++ AG++ L +L+ L
Sbjct: 129 LYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTL 177
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 45/188 (23%), Positives = 81/188 (43%), Gaps = 10/188 (5%)
Query: 444 EDSFNRGISLIENLKDHCLLEDGASEGTVKIHDVVRDVAIWIASSLEN----RCKSLVRS 499
+ F++ I + +NL++ + DG S T ++ + I +S ++ L R+
Sbjct: 42 SNQFSKVICVRKNLRE---VPDGISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRN 98
Query: 500 GAGLTEVSETELVNSLKRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDG 559
E+ + +L + +N +T +P+ L L N P+ +P +
Sbjct: 99 HIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNR 158
Query: 560 FPALRVLNLSG-TRIHSLPLSLLQ-LHNCRALLLRDCFYLEDLPALGGLTKLQDLDLSAT 617
P+LR L+L R+ + + L N R L L C L ++P L L KL +LDLS
Sbjct: 159 IPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMC-NLREIPNLTPLIKLDELDLSGN 217
Query: 618 SIRELPRG 625
+ + G
Sbjct: 218 HLSAIRPG 225
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 53/109 (48%), Gaps = 8/109 (7%)
Query: 557 LDG-FPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFY--LEDLP--ALGGLTKLQD 611
+DG P L L+LS ++ SLPL L AL + D + L LP AL GL +LQ+
Sbjct: 72 VDGTLPVLGTLDLSHNQLQSLPLLGQTL---PALTVLDVSFNRLTSLPLGALRGLGELQE 128
Query: 612 LDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEIL 660
L L ++ LP G+ + L ++ AG++ L +L+ L
Sbjct: 129 LYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTL 177
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 53/109 (48%), Gaps = 8/109 (7%)
Query: 557 LDG-FPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFY--LEDLP--ALGGLTKLQD 611
+DG P L L+LS ++ SLPL L AL + D + L LP AL GL +LQ+
Sbjct: 73 VDGTLPVLGTLDLSHNQLQSLPLLGQTL---PALTVLDVSFNRLTSLPLGALRGLGELQE 129
Query: 612 LDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEIL 660
L L ++ LP G+ + L ++ AG++ L +L+ L
Sbjct: 130 LYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTL 178
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 58/122 (47%), Gaps = 8/122 (6%)
Query: 557 LDG-FPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFY--LEDLP--ALGGLTKLQD 611
+DG P L L+LS ++ SLPL L AL + D + L LP AL GL +LQ+
Sbjct: 72 VDGTLPVLGTLDLSHNQLQSLPLLGQTL---PALTVLDVSFNRLTSLPLGALRGLGELQE 128
Query: 612 LDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEILDMTLSDYHWRV 671
L L ++ LP G+ + L ++ AG++ L +L+ L + + +
Sbjct: 129 LYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLLLQENSLYTIP 188
Query: 672 KG 673
KG
Sbjct: 189 KG 190
>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 = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 53/109 (48%), Gaps = 8/109 (7%)
Query: 557 LDG-FPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFY--LEDLP--ALGGLTKLQD 611
+DG P L L+LS ++ SLPL L AL + D + L LP AL GL +LQ+
Sbjct: 72 VDGTLPVLGTLDLSHNQLQSLPLLGQTL---PALTVLDVSFNRLTSLPLGALRGLGELQE 128
Query: 612 LDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEIL 660
L L ++ LP G+ + L ++ AG++ L +L+ L
Sbjct: 129 LYLKGNELKTLPPGLLTPTPKLEKLSLANNDLTELPAGLLNGLENLDTL 177
>pdb|3B2D|A Chain A, Crystal Structure Of Human Rp105MD-1 Complex
pdb|3B2D|B Chain B, Crystal Structure Of Human Rp105MD-1 Complex
Length = 603
Score = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 41/86 (47%), Gaps = 13/86 (15%)
Query: 606 LTKLQDLDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEILDMTLS 665
T+LQ+LDL+AT ++ LP GM+ H+ + +C++S+ +T
Sbjct: 274 FTQLQELDLTATHLKGLPSGMKGLNLLKKLVLSVNHFDQ------LCQISAANFPSLT-- 325
Query: 666 DYHWRVKGQEDEGQTNFEELGCLERL 691
H ++G + +GCLE+L
Sbjct: 326 --HLYIRGNVKKLHLG---VGCLEKL 346
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 33.1 bits (74), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 87/396 (21%), Positives = 151/396 (38%), Gaps = 116/396 (29%)
Query: 502 GLTEVSETELVNSLKRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFP 561
G+ + E +N+L +++F NN +T + K + + + +L+ N + D P
Sbjct: 52 GIKSIDGVEYLNNLTQINFSNNQLTDITPLK-NLTKLVDILMNNN--------QIADITP 102
Query: 562 ALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFYLEDLPALGGLTKLQDLDLSATSIRE 621
+ NL+G L L N + + D+ L LT L L+LS+ +I +
Sbjct: 103 LANLTNLTG----------LTLFNNQ---------ITDIDPLKNLTNLNRLELSSNTISD 143
Query: 622 LPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEILDMTLSDYHWRVKGQEDEGQTN 681
+ + L+SL+ L+ G +
Sbjct: 144 I--------------------------SALSGLTSLQQLNF----------GNQVTDLKP 167
Query: 682 FEELGCLERLLVLSIRLENIPSQGTEDLTWIGRLRSFQFFIGPTANSLPTKHDERRVTIS 741
L LERL +I S D++ + +L + + I T + +T
Sbjct: 168 LANLTTLERL--------DISSNKVSDISVLAKLTNLESLIA-------TNNQISDITPL 212
Query: 742 GIDLSGEWIGWLLTNASSLILNNCWGLDQMLETLVIDSVGAFASLKSLT---IAGSR-SS 797
GI LTN L LN + +G ASL +LT +A ++ S+
Sbjct: 213 GI----------LTNLDELSLNGNQ----------LKDIGTLASLTNLTDLDLANNQISN 252
Query: 798 LRPIGGCAAHDDLLPNLEELHL--HDLAYLGNISGLVGYLGLRFSKLRLMEVTQCPRLKY 855
L P+ G L L EL L + ++ + ++GL L ++ +L +++ LK
Sbjct: 253 LAPLSG-------LTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKN 305
Query: 856 LLTYGSFILALPNLQEIK-VSFCDNLVELFCYYSEL 890
LTY L N+ +I VS L LF Y +++
Sbjct: 306 -LTY--LTLYFNNISDISPVSSLTKLQRLFFYNNKV 338
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
Novel E3 Ligase
Length = 622
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 35/112 (31%), Positives = 53/112 (47%), Gaps = 24/112 (21%)
Query: 523 NSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFPAL----RVLNLSGTRIHSLPL 578
+ +T LPDC P +T L+ +P+ L PAL R L +SG ++ SLP+
Sbjct: 50 SGLTTLPDC---LPAHITTLV--------IPDNNLTSLPALPPELRTLEVSGNQLTSLPV 98
Query: 579 ---SLLQLHNCRALLLRDCFYLEDLPALGGLTKLQDLDLSATSIRELPRGME 627
LL+L ++ +L LP+ GL KL TS+ LP G++
Sbjct: 99 LPPGLLEL----SIFSNPLTHLPALPS--GLCKLWIFGNQLTSLPVLPPGLQ 144
>pdb|4HBW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazoline Ligand
Length = 127
Score = 32.7 bits (73), Expect = 1.1, Method: Composition-based stats.
Identities = 23/90 (25%), Positives = 39/90 (43%), Gaps = 7/90 (7%)
Query: 894 PETVVPNLRNLELKNLPKL-----RTICRQKESWQCLEQVKVIKCNL--LRELPLTAQNA 946
PET PN E L L +T+ + + +W + V +K NL ++ T +
Sbjct: 7 PETSNPNKPKRETNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDM 66
Query: 947 DTVKEIIGELQWWNLLNCDQDTKSSLHPCF 976
T+K+ + +WN C QD + C+
Sbjct: 67 GTIKKRLENNYYWNAQECIQDFNTMFTNCY 96
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 87/396 (21%), Positives = 150/396 (37%), Gaps = 116/396 (29%)
Query: 502 GLTEVSETELVNSLKRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFP 561
G+ + E +N+L +++F NN +T + K + + + +L+ N + D P
Sbjct: 57 GIKSIDGVEYLNNLTQINFSNNQLTDITPLK-NLTKLVDILMNNN--------QIADITP 107
Query: 562 ALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFYLEDLPALGGLTKLQDLDLSATSIRE 621
+ NL+G L L N + + D+ L LT L L+LS+ +I +
Sbjct: 108 LANLTNLTG----------LTLFNNQ---------ITDIDPLKNLTNLNRLELSSNTISD 148
Query: 622 LPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEILDMTLSDYHWRVKGQEDEGQTN 681
+ + L+SL+ L G +
Sbjct: 149 I--------------------------SALSGLTSLQQLSF----------GNQVTDLKP 172
Query: 682 FEELGCLERLLVLSIRLENIPSQGTEDLTWIGRLRSFQFFIGPTANSLPTKHDERRVTIS 741
L LERL +I S D++ + +L + + I T + +T
Sbjct: 173 LANLTTLERL--------DISSNKVSDISVLAKLTNLESLIA-------TNNQISDITPL 217
Query: 742 GIDLSGEWIGWLLTNASSLILNNCWGLDQMLETLVIDSVGAFASLKSLT---IAGSR-SS 797
GI LTN L LN + +G ASL +LT +A ++ S+
Sbjct: 218 GI----------LTNLDELSLNGNQ----------LKDIGTLASLTNLTDLDLANNQISN 257
Query: 798 LRPIGGCAAHDDLLPNLEELHL--HDLAYLGNISGLVGYLGLRFSKLRLMEVTQCPRLKY 855
L P+ G L L EL L + ++ + ++GL L ++ +L +++ LK
Sbjct: 258 LAPLSG-------LTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKN 310
Query: 856 LLTYGSFILALPNLQEIK-VSFCDNLVELFCYYSEL 890
LTY L N+ +I VS L LF Y +++
Sbjct: 311 -LTY--LTLYFNNISDISPVSSLTKLQRLFFYNNKV 343
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 49/113 (43%), Gaps = 6/113 (5%)
Query: 502 GLTEVSETELVNSLKRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFP 561
G+ + E +N+L +++F NN +T + K + + + +L+ N P L
Sbjct: 52 GIKSIDGVEYLNNLTQINFSNNQLTDITPLK-NLTKLVDILMNNNQIADITPLANLTNLT 110
Query: 562 ALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFYLEDLPALGGLTKLQDLDL 614
L + N T I L L N L L + D+ AL GLT LQ L+
Sbjct: 111 GLTLFNNQITDIDPLK----NLTNLNRLELS-SNTISDISALSGLTSLQQLNF 158
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 48/111 (43%), Gaps = 6/111 (5%)
Query: 502 GLTEVSETELVNSLKRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFP 561
G+ + E +N+L +++F NN +T + K + + + +L+ N P L
Sbjct: 56 GIKSIDGVEYLNNLTQINFSNNQLTDITPLK-NLTKLVDILMNNNQIADITPLANLTNLT 114
Query: 562 ALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFYLEDLPALGGLTKLQDL 612
L + N T I L L N L L + D+ AL GLT LQ L
Sbjct: 115 GLTLFNNQITDIDPLK----NLTNLNRLELS-SNTISDISALSGLTSLQQL 160
>pdb|4DON|A Chain A, Brd4 Bromodomain 1 Complex With A Fragment
3,4-dihydro-3-methyl-2(1h)- Quinazolinon
Length = 145
Score = 31.6 bits (70), Expect = 2.3, Method: Composition-based stats.
Identities = 22/90 (24%), Positives = 39/90 (43%), Gaps = 7/90 (7%)
Query: 894 PETVVPNLRNLELKNLPKL-----RTICRQKESWQCLEQVKVIKCNL--LRELPLTAQNA 946
PET PN + L L +T+ + + +W + V +K NL ++ T +
Sbjct: 27 PETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDM 86
Query: 947 DTVKEIIGELQWWNLLNCDQDTKSSLHPCF 976
T+K+ + +WN C QD + C+
Sbjct: 87 GTIKKRLENNYYWNAQECIQDFNTMFTNCY 116
>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 = 2.3, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 38/76 (50%), Gaps = 11/76 (14%)
Query: 510 ELVNS--LKRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFPALRVL- 566
EL NS LK + NNS+ KLPD P +L + GN L +PE L P L +
Sbjct: 148 ELQNSSFLKIIDVDNNSLKKLPD----LPPSLEFIAAGNNQLEELPE--LQNLPFLTAIY 201
Query: 567 --NLSGTRIHSLPLSL 580
N S ++ LPLSL
Sbjct: 202 ADNNSLKKLPDLPLSL 217
Score = 29.6 bits (65), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 41/127 (32%), Positives = 58/127 (45%), Gaps = 15/127 (11%)
Query: 503 LTEVSETELVNSLKRVSFMNNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFPA 562
L E+ E + + L + NNS+ KLPD P +L ++ GN L +PE L P
Sbjct: 185 LEELPELQNLPFLTAIYADNNSLKKLPD----LPLSLESIVAGNNILEELPE--LQNLPF 238
Query: 563 LRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFYLEDLPALGGLTKLQDLDLSA---TSI 619
L + + +LP L AL +RD YL DLP L L LD+S + +
Sbjct: 239 LTTIYADNNLLKTLPDLPPSL---EALNVRDN-YLTDLPELP--QSLTFLDVSENIFSGL 292
Query: 620 RELPRGM 626
ELP +
Sbjct: 293 SELPPNL 299
>pdb|3JVJ|A Chain A, Crystal Structure Of The Bromodomain 1 In Mouse Brd4
pdb|3JVK|A Chain A, Crystal Structure Of Bromodomain 1 Of Mouse Brd4 In
Complex With Histone H3-K(Ac)14
pdb|3MUK|A Chain A, Crystal Structure Of Brd4 Bromodomain 1 With Propionylated
Histone H3- K(Prop)23
pdb|3MUL|A Chain A, Crystal Structure Of Brd4 Bromodomain 1 With Butyrylated
Histone H3- K(Buty)14
Length = 131
Score = 31.6 bits (70), Expect = 2.5, Method: Composition-based stats.
Identities = 22/90 (24%), Positives = 39/90 (43%), Gaps = 7/90 (7%)
Query: 894 PETVVPNLRNLELKNLPKL-----RTICRQKESWQCLEQVKVIKCNL--LRELPLTAQNA 946
PET PN + L L +T+ + + +W + V +K NL ++ T +
Sbjct: 11 PETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDM 70
Query: 947 DTVKEIIGELQWWNLLNCDQDTKSSLHPCF 976
T+K+ + +WN C QD + C+
Sbjct: 71 GTIKKRLENNYYWNAQECIQDFNTMFTNCY 100
>pdb|2OSS|A Chain A, Crystal Structure Of The Bromo Domain 1 In Human
Bromodomain Containing Protein 4 (Brd4)
pdb|3MXF|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With The Inhibitor Jq1
pdb|3P5O|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Ibet Inhibitor
pdb|2YEL|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
With The Inhibitor Gw841819x
pdb|3SVF|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Dihydro-Quinazolin Ligand
pdb|3SVG|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A 3,5-Dimethylisoxazol Ligand
pdb|3ZYU|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With I-Bet151(Gsk1210151a)
pdb|3ZYU|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With I-Bet151(Gsk1210151a)
pdb|3U5J|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Alprazolam
pdb|3U5K|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Midazolam
pdb|3U5K|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Midazolam
pdb|3U5K|C Chain C, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Midazolam
pdb|3U5K|D Chain D, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Midazolam
pdb|3U5L|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Benzo-Triazepine Ligand (Bzt-7)
pdb|4A9L|A Chain A, N-Terminal Bromodomain Of Human Brd4 With 1,3-Dimethyl-6-(
Morpholine-4-Sulfonyl)-1,2,3,
4-Tetrahydroquinazolin-2-One
pdb|3UVW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k5ack8ac)
pdb|3UVY|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k16ack20ac)
pdb|3UVX|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k12ack16ac)
pdb|3UW9|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k8ack12ac)
pdb|3UW9|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k8ack12ac)
pdb|3UW9|C Chain C, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k8ack12ac)
pdb|3UW9|D Chain D, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k8ack12ac)
pdb|4E96|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With The Inhibitor Pfi-1
pdb|4F3I|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Ms417 Inhibitor
pdb|4GPJ|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Isoxazolylbenzimidazole Ligand
pdb|4HBV|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazolin Ligand
pdb|4HBX|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazolin Ligand
pdb|4HBY|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazolin Ligand
pdb|4J0R|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A 3,5-dimethylisoxazol Ligand
pdb|4J0S|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A 3,5-dimethylisoxazol Ligand
Length = 127
Score = 31.2 bits (69), Expect = 2.7, Method: Composition-based stats.
Identities = 22/90 (24%), Positives = 39/90 (43%), Gaps = 7/90 (7%)
Query: 894 PETVVPNLRNLELKNLPKL-----RTICRQKESWQCLEQVKVIKCNL--LRELPLTAQNA 946
PET PN + L L +T+ + + +W + V +K NL ++ T +
Sbjct: 7 PETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDM 66
Query: 947 DTVKEIIGELQWWNLLNCDQDTKSSLHPCF 976
T+K+ + +WN C QD + C+
Sbjct: 67 GTIKKRLENNYYWNAQECIQDFNTMFTNCY 96
>pdb|4H5H|A Chain A, Crystal Structure Of Porcine Aminopeptidase-N Complexed
With Cleaved Poly-Alanine
pdb|4HOM|A Chain A, Crystal Structure Of Porcine Aminopeptidase-N Complexed
With Substance P
Length = 908
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 45/106 (42%), Gaps = 8/106 (7%)
Query: 716 RSFQFFIGPTANSLPTKHDERRVTISGIDLSGEWIGWLLTNASSLILNNCW---GLDQML 772
R P ++S+ K ER VT+ +L+ +W G L+T A N+ W G +
Sbjct: 296 RENALLFDPQSSSISNK--ERVVTVIAHELAHQWFGNLVTLA---WWNDLWLNEGFASYV 350
Query: 773 ETLVIDSVGAFASLKSLTIAGSRSSLRPIGGCAAHDDLLPNLEELH 818
E L D +LK L + G + + A+ L EE++
Sbjct: 351 EYLGADHAEPTWNLKDLIVPGDVYRVMAVDALASSHPLTTPAEEVN 396
>pdb|4F5C|A Chain A, Crystal Structure Of The Spike Receptor Binding Domain Of
A Porcine Respiratory Coronavirus In Complex With The
Pig Aminopeptidase N Ectodomain
pdb|4F5C|B Chain B, Crystal Structure Of The Spike Receptor Binding Domain Of
A Porcine Respiratory Coronavirus In Complex With The
Pig Aminopeptidase N Ectodomain
Length = 959
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 45/106 (42%), Gaps = 8/106 (7%)
Query: 716 RSFQFFIGPTANSLPTKHDERRVTISGIDLSGEWIGWLLTNASSLILNNCW---GLDQML 772
R P ++S+ K ER VT+ +L+ +W G L+T A N+ W G +
Sbjct: 340 RENALLFDPQSSSISNK--ERVVTVIAHELAHQWFGNLVTLA---WWNDLWLNEGFASYV 394
Query: 773 ETLVIDSVGAFASLKSLTIAGSRSSLRPIGGCAAHDDLLPNLEELH 818
E L D +LK L + G + + A+ L EE++
Sbjct: 395 EYLGADHAEPTWNLKDLIVPGDVYRVMAVDALASSHPLTTPAEEVN 440
>pdb|4FKE|A Chain A, Crystal Structure Of Porcine Aminopeptidase-N
pdb|4FKH|A Chain A, Crystal Structure Of Porcine Aminopeptidase-N Complexed
With Alanine
pdb|4FKK|A Chain A, Crystal Structure Of Porcine Aminopeptidase-N Complexed
With Bestatin
Length = 909
Score = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 45/106 (42%), Gaps = 8/106 (7%)
Query: 716 RSFQFFIGPTANSLPTKHDERRVTISGIDLSGEWIGWLLTNASSLILNNCW---GLDQML 772
R P ++S+ K ER VT+ +L+ +W G L+T A N+ W G +
Sbjct: 297 RENALLFDPQSSSISNK--ERVVTVIAHELAHQWFGNLVTLA---WWNDLWLNEGFASYV 351
Query: 773 ETLVIDSVGAFASLKSLTIAGSRSSLRPIGGCAAHDDLLPNLEELH 818
E L D +LK L + G + + A+ L EE++
Sbjct: 352 EYLGADHAEPTWNLKDLIVPGDVYRVMAVDALASSHPLTTPAEEVN 397
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 30.4 bits (67), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 26/108 (24%), Positives = 44/108 (40%), Gaps = 2/108 (1%)
Query: 557 LDGFPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFYLEDLPA--LGGLTKLQDLDL 614
D L L L+ ++ SLPL + L L+ LP+ LTKL++L L
Sbjct: 79 FDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRL 138
Query: 615 SATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEILDM 662
+ ++ +P G T+ L+ + G RL L+ + +
Sbjct: 139 NTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITL 186
>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 = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 26/108 (24%), Positives = 44/108 (40%), Gaps = 2/108 (1%)
Query: 557 LDGFPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCFYLEDLPA--LGGLTKLQDLDL 614
D L L L+ ++ SLPL + L L+ LP+ LTKL++L L
Sbjct: 79 FDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRL 138
Query: 615 SATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLSSLEILDM 662
+ ++ +P G T+ L+ + G RL L+ + +
Sbjct: 139 NTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITL 186
>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
Length = 697
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 43/164 (26%), Positives = 62/164 (37%), Gaps = 39/164 (23%)
Query: 561 PALRVLNLSGTRIHSL-PLSLLQLHNCRALLLRDCF----------------------YL 597
P+LR L+L I L P S L N R L L+ F YL
Sbjct: 272 PSLRYLSLEYNNIQRLSPRSFYGLSNLRYLSLKRAFTKQSVSLASHPNIDDFSFQWLKYL 331
Query: 598 E-------DLPA-----LGGLTKLQDLDLSAT--SIRELPRG--MEXXXXXXXXXXXXTH 641
E ++P+ GL L+ L LS T S++ L + +
Sbjct: 332 EYLNMDDNNIPSTKSNTFTGLVSLKYLSLSKTFTSLQTLTNETFVSLAHSPLLTLNLTKN 391
Query: 642 YLKKIQAGIICRLSSLEILDMTLSDYHWRVKGQEDEGQTNFEEL 685
++ KI G L L ILD+ L++ ++ GQE G N E+
Sbjct: 392 HISKIANGTFSWLGQLRILDLGLNEIEQKLSGQEWRGLRNIFEI 435
>pdb|3F41|A Chain A, Structure Of The Tandemly Repeated Protein Tyrosine
Phosphatase Like Phytase From Mitsuokella Multacida
pdb|3F41|B Chain B, Structure Of The Tandemly Repeated Protein Tyrosine
Phosphatase Like Phytase From Mitsuokella Multacida
Length = 629
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 743 IDLSGEWIGWLLTNASSLILNNCWGLDQMLETLVID-SVGAFASLKSLTI 791
+DL GE G+L A S N+ WG D E ++I ASLK T+
Sbjct: 116 VDLRGESHGYLNGTAVSWFANHDWGNDGRTEDIIIPLEKEQLASLKGSTV 165
>pdb|4HOL|A Chain A, Crystal Structure Of Porcine Aminopeptidase-N Complexed
With Poly- Alanine
Length = 908
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 44/106 (41%), Gaps = 8/106 (7%)
Query: 716 RSFQFFIGPTANSLPTKHDERRVTISGIDLSGEWIGWLLTNASSLILNNCW---GLDQML 772
R P ++S+ K ER VT+ L+ +W G L+T A N+ W G +
Sbjct: 296 RENALLFDPQSSSISNK--ERVVTVIAHQLAHQWFGNLVTLA---WWNDLWLNEGFASYV 350
Query: 773 ETLVIDSVGAFASLKSLTIAGSRSSLRPIGGCAAHDDLLPNLEELH 818
E L D +LK L + G + + A+ L EE++
Sbjct: 351 EYLGADHAEPTWNLKDLIVPGDVYRVMAVDALASSHPLTTPAEEVN 396
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 30.0 bits (66), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 36/136 (26%), Positives = 49/136 (36%), Gaps = 23/136 (16%)
Query: 522 NNSITKLPDCKVHCPETLTLLLQGNFPLGRVPEKFLDGFPALRVLNLSGTRIHSLPLSLL 581
+N ITKL L L G+ LG +P D L VL+L ++ LP ++
Sbjct: 49 DNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVF 108
Query: 582 QLHNCRALLLRDCFYLEDLPALGGLTKLQDLDLSATSIRELPRGMEXXXXXXXXXXXXTH 641
L L++L + + ELPRG+E
Sbjct: 109 D----------------------RLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQ 146
Query: 642 YLKKIQAGIICRLSSL 657
LK I G RLSSL
Sbjct: 147 -LKSIPHGAFDRLSSL 161
>pdb|2O6R|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B61
Length = 177
Score = 29.6 bits (65), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 32/123 (26%), Positives = 45/123 (36%), Gaps = 22/123 (17%)
Query: 536 PETLTLLLQGNFPLGRVPEKFLDGFPALRVLNLSGTRIHSLPLSLLQLHNCRALLLRDCF 595
P + T L + L +P D L L+LS +I SLP +
Sbjct: 27 PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFD------------- 73
Query: 596 YLEDLPALGGLTKLQDLDLSATSIRELPRGMEXXXXXXXXXXXXTHYLKKIQAGIICRLS 655
LTKL L L ++ LP G+ T+ LK + GI RL+
Sbjct: 74 ---------KLTKLTILYLHENKLQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLT 124
Query: 656 SLE 658
SL+
Sbjct: 125 SLQ 127
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
0.320 0.136 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,293,040
Number of Sequences: 62578
Number of extensions: 1139534
Number of successful extensions: 2418
Number of sequences better than 100.0: 55
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 46
Number of HSP's that attempted gapping in prelim test: 2333
Number of HSP's gapped (non-prelim): 100
length of query: 998
length of database: 14,973,337
effective HSP length: 108
effective length of query: 890
effective length of database: 8,214,913
effective search space: 7311272570
effective search space used: 7311272570
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)