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= 001407
(1083 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 63.5 bits (153), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 92/343 (26%), Positives = 146/343 (42%), Gaps = 54/343 (15%)
Query: 10 VGIWGMGGIGKTTLA-KAIFDQFSHEFEGSCFVSDVR----GNSETAGGLEHLQKQMLST 64
V I+GM G GK+ LA +A+ D H CF V G + +G L LQ +
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRD---HSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRL 206
Query: 65 TLSEKLEVAGPNIPHFTKERVRRMKL------LIVLDDVNEVGQLKRLIGELDQFGQGSR 118
E P K+R+R + L L++LDDV + LK F +
Sbjct: 207 DQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLK-------AFDNQCQ 259
Query: 119 IVVTTRDKRVLEKFRGEEKKIYRVNGLEFEEAFEHFCNFAFKENHCPEDLNWHSRSVVSY 178
I++TTRDK V + G + + +GL E+ E F N EDL + S++
Sbjct: 260 ILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV---NMKKEDLPAEAHSIIKE 316
Query: 179 TKGNPLVLEVLGSSLCLKRKSHWGKVLHDLN-----RICESEIHD---IYDILKISFNKL 230
KG+PLV+ ++G +L + W L L RI +S +D + + + IS L
Sbjct: 317 CKGSPLVVSLIG-ALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEML 375
Query: 231 TPRVKSIFLDIACFFEGEDKDF-----VASILDDSES----DVLDILIDKSLVSISGNFL 281
+K + D++ KD V +L D E+ D+L ++KSL+ + N
Sbjct: 376 REDIKDYYTDLSIL----QKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGK 431
Query: 282 N----MHDI----LQEMGRQIVRQESEKEPGKRSRLWDPKEIS 316
+ +HD+ L E R ++ K + R + P +S
Sbjct: 432 SFCYYLHDLQVDFLTEKNRSQLQDLHRKMVTQFQRYYQPHTLS 474
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 61.2 bits (147), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 91/343 (26%), Positives = 145/343 (42%), Gaps = 54/343 (15%)
Query: 10 VGIWGMGGIGKTTLA-KAIFDQFSHEFEGSCFVSDVR----GNSETAGGLEHLQKQMLST 64
V I+GM G GK+ LA +A+ D H CF V G + +G L LQ +
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRD---HSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRL 213
Query: 65 TLSEKLEVAGPNIPHFTKERVRRMKL------LIVLDDVNEVGQLKRLIGELDQFGQGSR 118
E P K+R+R + L L++LDDV + LK F +
Sbjct: 214 DQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLK-------AFDNQCQ 266
Query: 119 IVVTTRDKRVLEKFRGEEKKIYRVNGLEFEEAFEHFCNFAFKENHCPEDLNWHSRSVVSY 178
I++TT DK V + G + + +GL E+ E F N EDL + S++
Sbjct: 267 ILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV---NMKKEDLPAEAHSIIKE 323
Query: 179 TKGNPLVLEVLGSSLCLKRKSHWGKVLHDLN-----RICESEIHD---IYDILKISFNKL 230
KG+PLV+ ++G +L + W L L RI +S +D + + + IS L
Sbjct: 324 CKGSPLVVSLIG-ALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEML 382
Query: 231 TPRVKSIFLDIACFFEGEDKDF-----VASILDDSES----DVLDILIDKSLVSISGNFL 281
+K + D++ KD V +L D E+ D+L ++KSL+ + N
Sbjct: 383 REDIKDYYTDLSIL----QKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGK 438
Query: 282 N----MHDI----LQEMGRQIVRQESEKEPGKRSRLWDPKEIS 316
+ +HD+ L E R ++ K + R + P +S
Sbjct: 439 SFCYYLHDLQVDFLTEKNRSQLQDLHRKMVTQFQRYYQPHTLS 481
>pdb|3CVR|A Chain A, Crystal Structure Of The Full Length Ipah3
Length = 571
Score = 60.1 bits (144), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 53/134 (39%), Positives = 68/134 (50%), Gaps = 9/134 (6%)
Query: 686 LYLSGNNFESLP-AIIKQMSQLRFIHLEDFNMLQSLPELPLCLKYLHLIDCKMLQSLPVL 744
L L+ N SLP + Q++ L N L SLPELP L+YL D + L +LP L
Sbjct: 64 LQLNRLNLSSLPDNLPPQITVLEITQ----NALISLPELPASLEYLDACDNR-LSTLPEL 118
Query: 745 PFCLESLDLTGCNMLRSLPELPLCLQYLNLEDCNMXXXXXXXXXXXXXXTVRNCNRLQSL 804
P L+ LD+ N L LPELP L+Y+N D N +VRN N+L L
Sbjct: 119 PASLKHLDVDN-NQLTXLPELPALLEYINA-DNNQLTXLPELPTSLEVLSVRN-NQLTFL 175
Query: 805 PEILLCLQELDASV 818
PE+ L+ LD S
Sbjct: 176 PELPESLEALDVST 189
>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 = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 81/293 (27%), Positives = 123/293 (41%), Gaps = 46/293 (15%)
Query: 10 VGIWGMGGIGKTTLA-KAIFDQFSHEFEGSCFVSDVR----GNSETAGGLEHLQKQMLST 64
V I GM G GK+ LA +A+ D H CF V G + +G L LQ
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRD---HSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRL 206
Query: 65 TLSEKLEVAGPNIPHFTKERVRRMKL------LIVLDDVNEVGQLKRLIGELDQFGQGSR 118
E P K+R+R + L L++LDDV + LK F +
Sbjct: 207 DQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLK-------AFDSQCQ 259
Query: 119 IVVTTRDKRVLEKFRGEEKKIYRVNGLEFEEAFEHFCNFAFKENHCPEDLNWHSRSVVSY 178
I++TTRDK V + G + + + L E+ E F N DL + S++
Sbjct: 260 ILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFV---NMKKADLPEQAHSIIKE 316
Query: 179 TKGNPLVLEVLGSSLCLKRKSHWGKVLHDLN-----RICESEIHD---IYDILKISFNKL 230
KG+PLV+ ++G +L + W L L RI +S +D + + + IS L
Sbjct: 317 CKGSPLVVSLIG-ALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEML 375
Query: 231 TPRVKSIFLDIACFFEGEDKDF-----VASILDDSES----DVLDILIDKSLV 274
+K + D++ KD V IL D E+ D+L ++KSL+
Sbjct: 376 REDIKDYYTDLSIL----QKDVKVPTKVLCILWDMETEEVEDILQEFVNKSLL 424
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 54.7 bits (130), Expect = 2e-07, Method: Composition-based stats.
Identities = 61/228 (26%), Positives = 88/228 (38%), Gaps = 38/228 (16%)
Query: 552 LEHFPEILEKMEHLKRIYSDRTPITELPSSFENLPGLEVLFVEDCSKLDNLPDNIGXXXX 611
L FP+ ++ HL+ D + ELP + + GLE L + + L LP +I
Sbjct: 93 LPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRALPASI----- 146
Query: 612 XXXXXXXXXXXXXXXXXVALSNMLRSLDSSHCKGLESFPRTFL--------LGLSAMGLL 663
A N LR L C L P GL + L
Sbjct: 147 ------------------ASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSL 188
Query: 664 HISDYAVREIPQEIAYLSSLEILYLSGNNFESLPAIIKQMSQLRFIHLEDFNMLQSLPEL 723
+ +R +P IA L +L+ L + + +L I + +L + L L++ P +
Sbjct: 189 RLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPI 248
Query: 724 ---PLCLKYLHLIDCKMLQSLPV---LPFCLESLDLTGCNMLRSLPEL 765
LK L L DC L +LP+ LE LDL GC L LP L
Sbjct: 249 FGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL 296
Score = 47.8 bits (112), Expect = 3e-05, Method: Composition-based stats.
Identities = 49/169 (28%), Positives = 67/169 (39%), Gaps = 13/169 (7%)
Query: 440 VPSSIQNFKYLSALSFKGCQSLRSFPSNLHFVCPVTINFSYCVNLIEFPQISGKVTRLYL 499
+P+SI + L LS + C L P L + VNL L L
Sbjct: 142 LPASIASLNRLRELSIRACPELTELPEPLAST-DASGEHQGLVNL----------QSLRL 190
Query: 500 GQSAIEEVPSSIECLTDLEVLDLRGCKRLKRISTSFCKLRSLVTLILLGCLNLEHFPEIL 559
+ I +P+SI L +L+ L +R L + + L L L L GC L ++P I
Sbjct: 191 EWTGIRSLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPIF 249
Query: 560 EKMEHLKR-IYSDRTPITELPSSFENLPGLEVLFVEDCSKLDNLPDNIG 607
LKR I D + + LP L LE L + C L LP I
Sbjct: 250 GGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIA 298
Score = 42.4 bits (98), Expect = 0.001, Method: Composition-based stats.
Identities = 36/136 (26%), Positives = 59/136 (43%), Gaps = 13/136 (9%)
Query: 484 LIEFP----QISGKVTRLYLGQSAIEEVPSSIECLTDLEVLDLRGCKRLKRISTSFCKL- 538
L E P Q +G T L L ++ + +P+SI L L L +R C L +
Sbjct: 116 LXELPDTXQQFAGLET-LTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTD 174
Query: 539 -----RSLVTL--ILLGCLNLEHFPEILEKMEHLKRIYSDRTPITELPSSFENLPGLEVL 591
+ LV L + L + P + +++LK + +P++ L + +LP LE L
Sbjct: 175 ASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEEL 234
Query: 592 FVEDCSKLDNLPDNIG 607
+ C+ L N P G
Sbjct: 235 DLRGCTALRNYPPIFG 250
>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 = 53.5 bits (127), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 81/293 (27%), Positives = 123/293 (41%), Gaps = 46/293 (15%)
Query: 10 VGIWGMGGIGKTTLA-KAIFDQFSHEFEGSCFVSDVR----GNSETAGGLEHLQKQMLST 64
V I GM G GK+ LA +A+ D H CF V G + +G L LQ
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRD---HSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRL 212
Query: 65 TLSEKLEVAGPNIPHFTKERVRRMKL------LIVLDDVNEVGQLKRLIGELDQFGQGSR 118
E P K+R+R + L L++LDDV + LK F +
Sbjct: 213 DQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLK-------AFDSQCQ 265
Query: 119 IVVTTRDKRVLEKFRGEEKKIYRVNGLEFEEAFEHFCNFAFKENHCPEDLNWHSRSVVSY 178
I++TTRDK V + G + + + L E+ E F N DL + S++
Sbjct: 266 ILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFV---NMKKADLPEQAHSIIKE 322
Query: 179 TKGNPLVLEVLGSSLCLKRKSHWGKVLHDLN-----RICESEIHD---IYDILKISFNKL 230
KG+PLV+ ++G +L + W L L RI +S +D + + + IS L
Sbjct: 323 CKGSPLVVSLIG-ALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEML 381
Query: 231 TPRVKSIFLDIACFFEGEDKDF-----VASILDDSES----DVLDILIDKSLV 274
+K + D++ KD V IL D E+ D+L ++KSL+
Sbjct: 382 REDIKDYYTDLSIL----QKDVKVPTKVLCILWDMETEEVEDILQEFVNKSLL 430
>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 = 52.0 bits (123), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 95/362 (26%), Positives = 152/362 (41%), Gaps = 82/362 (22%)
Query: 457 GCQSLRSFPSNLHFVCPVTINFSYCVNLIEFPQISGKVTRLYLGQS---AIEEVPSSIEC 513
G SL P +L + + C +L E P++ + L + + A+ ++P +E
Sbjct: 82 GLSSLPELPPHLESLV------ASCNSLTELPELPQSLKSLLVDNNNLKALSDLPPLLEY 135
Query: 514 L----TDLEVL-DLRGCKRLKRISTSFCKLRSLVTL------ILLGCLNLEHFPEILEKM 562
L LE L +L+ LK I L+ L L I G LE PE L+ +
Sbjct: 136 LGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPE-LQNL 194
Query: 563 EHLKRIYSDRTPITELPSSFENLP-GLEVL-----FVEDCSKLDNLPDNIGXXXXXXXXX 616
L IY+D + +LP +LP LE + +E+ +L NLP
Sbjct: 195 PFLTAIYADNNSLKKLP----DLPLSLESIVAGNNILEELPELQNLP------------- 237
Query: 617 XXXXXXXXXXXXVALSNMLRSLDSSHCKGLESFP--RTFLLGL----SAMGLLHISD--- 667
A +N+L++L LE+ +L L ++ L +S+
Sbjct: 238 -------FLTTIYADNNLLKTL-PDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIF 289
Query: 668 YAVREIPQEIAYLS--------------SLEILYLSGNNFESLPAIIKQMSQLRFIHLED 713
+ E+P + YL+ SLE L +S N LPA+ ++ +L +
Sbjct: 290 SGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPRLERL----IAS 345
Query: 714 FNMLQSLPELPLCLKYLHLIDCKMLQSLPVLPFCLESLDLTGCNMLRSLPELPLCLQYLN 773
FN L +PELP LK LH ++ L+ P +P +E DL + L +PELP L+ L+
Sbjct: 346 FNHLAEVPELPQNLKQLH-VEYNPLREFPDIPESVE--DLRMNSHLAEVPELPQNLKQLH 402
Query: 774 LE 775
+E
Sbjct: 403 VE 404
Score = 40.4 bits (93), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 53/191 (27%), Positives = 87/191 (45%), Gaps = 37/191 (19%)
Query: 646 LESFPRTFLLGLSAMGLLHISDYAVREIPQEIAYLSSLEILYLSGNNFESLPAIIKQMSQ 705
LE P L S + ++ + + +++++P SLE + N E LP + + +
Sbjct: 143 LEKLPE--LQNSSFLKIIDVDNNSLKKLPD---LPPSLEFIAAGNNQLEELPEL-QNLPF 196
Query: 706 LRFIHLEDFNMLQSLPELPLCLKYLHLIDCKMLQSLPVL---PFCLESLDLTGCNMLRSL 762
L I+ D N L+ LP+LPL L+ + + +L+ LP L PF + N+L++L
Sbjct: 197 LTAIY-ADNNSLKKLPDLPLSLESI-VAGNNILEELPELQNLPFL--TTIYADNNLLKTL 252
Query: 763 PELPLCLQYLNLEDCNMXXXXXXXXXXXXXXTVRNCNRLQSLPEILLCLQELDAS--VLE 820
P+LP L+ LN+ D N L LPE+ L LD S +
Sbjct: 253 PDLPPSLEALNVRD----------------------NYLTDLPELPQSLTFLDVSENIFS 290
Query: 821 KLSKHSPDLQW 831
LS+ P+L +
Sbjct: 291 GLSELPPNLYY 301
Score = 37.4 bits (85), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 37/98 (37%), Positives = 49/98 (50%), Gaps = 7/98 (7%)
Query: 738 LQSLPVLPFCLESLDLTGCNMLRSLPELPLCLQYLNLEDCNMXXXXXXXXXXXXXXTVRN 797
L SLP LP LESL + CN L LPELP L+ L L D N V N
Sbjct: 83 LSSLPELPPHLESL-VASCNSLTELPELPQSLKSL-LVDNNNLKALSDLPPLLEYLGVSN 140
Query: 798 CNRLQSLPEI----LLCLQELDASVLEKLSKHSPDLQW 831
N+L+ LPE+ L + ++D + L+KL P L++
Sbjct: 141 -NQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEF 177
Score = 34.7 bits (78), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 43/151 (28%), Positives = 65/151 (43%), Gaps = 32/151 (21%)
Query: 710 HLEDF----NMLQSLPELPLCLKYLHLIDCKMLQSLPVLPFCLESLDLTG---------- 755
HLE N L LPELP LK L L+D L++L LP LE L ++
Sbjct: 92 HLESLVASCNSLTELPELPQSLKSL-LVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQ 150
Query: 756 -----------CNMLRSLPELPLCLQYLNLEDCNMXXXXXXXXXXXXXXTVRNCNRLQSL 804
N L+ LP+LP L+++ + + + N L+ L
Sbjct: 151 NSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKL 210
Query: 805 PEILLCLQELDA--SVLEKLSKHSPDLQWAP 833
P++ L L+ + A ++LE+L P+LQ P
Sbjct: 211 PDLPLSLESIVAGNNILEEL----PELQNLP 237
Score = 30.4 bits (67), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 36/134 (26%), Positives = 57/134 (42%), Gaps = 19/134 (14%)
Query: 446 NFKYLSALSFKGCQSLRSFPSNLHFVCPVTINFSYCVNLIEFPQISGKVTRLYLGQSAIE 505
N YL+A S +SL P +L +N S LIE P + ++ RL + +
Sbjct: 298 NLYYLNA-SSNEIRSLCDLPPSLE-----ELNVSNN-KLIELPALPPRLERLIASFNHLA 350
Query: 506 EVPSSIECLTDLEVLDLRGCKRLKRISTSFCKLRSLVTLILLGCLNLEHFPEILEKMEHL 565
EVP + L L V + + I S LR +N H E+ E ++L
Sbjct: 351 EVPELPQNLKQLHV-EYNPLREFPDIPESVEDLR----------MN-SHLAEVPELPQNL 398
Query: 566 KRIYSDRTPITELP 579
K+++ + P+ E P
Sbjct: 399 KQLHVETNPLREFP 412
Score = 30.0 bits (66), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 393 LPKKLRYLHWDTYPLRTLPSNFKPKNLVELNLRCSKVEQPWE 434
LP+ L+ LH +T PLR P P+++ +L + +V P+E
Sbjct: 394 LPQNLKQLHVETNPLREFPD--IPESVEDLRMNSERVVDPYE 433
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
Novel E3 Ligase
Length = 622
Score = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 38/94 (40%), Positives = 52/94 (55%), Gaps = 6/94 (6%)
Query: 681 SSLEILYLSGNNFESLPAIIKQMSQLRFIHLEDFNMLQSLPELPLCLKYLHLIDCKMLQS 740
S L+ L +S N SLP + ++ +L + N L SLP LP LK L ++ L S
Sbjct: 181 SGLQELSVSDNQLASLPTLPSELYKLWAYN----NRLTSLPALPSGLKEL-IVSGNRLTS 235
Query: 741 LPVLPFCLESLDLTGCNMLRSLPELPLCLQYLNL 774
LPVLP L+ L ++G N L SLP LP L L++
Sbjct: 236 LPVLPSELKELMVSG-NRLTSLPMLPSGLLSLSV 268
>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 = 43.1 bits (100), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 34/83 (40%), Positives = 44/83 (53%), Gaps = 5/83 (6%)
Query: 663 LHISDYAVREIPQEIAYLSSLEILYLSGNNFESLPAIIKQMSQLRFIHLEDFNMLQSLP- 721
L +S+ + I I L LYL+GN+ LPA IK +S LR + L N L SLP
Sbjct: 229 LDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLS-HNRLTSLPA 287
Query: 722 ELPLC--LKYLHLIDCKMLQSLP 742
EL C LKY + D M+ +LP
Sbjct: 288 ELGSCFQLKYFYFFD-NMVTTLP 309
Score = 36.6 bits (83), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 33/101 (32%), Positives = 45/101 (44%), Gaps = 25/101 (24%)
Query: 494 VTRLYLGQSAIEEVPSSIECLTDLEVLDLRGCKRLKRISTSFCKLRSLVTLILLGCLNLE 553
+TRLYL +++ E+P+ I+ L++L VLDL S +L SL
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDL-----------SHNRLTSL------------ 285
Query: 554 HFPEILEKMEHLKRIYSDRTPITELPSSFENLPGLEVLFVE 594
P L LK Y +T LP F NL L+ L VE
Sbjct: 286 --PAELGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVE 324
Score = 30.0 bits (66), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 561 KMEHLKRIYSDRTPITELPSSFENLPGLEVLFVEDCSKLDNLPDNIG 607
K + L R+Y + +TELP+ +NL L VL + ++L +LP +G
Sbjct: 245 KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSH-NRLTSLPAELG 290
>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 = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 47/135 (34%), Positives = 67/135 (49%), Gaps = 21/135 (15%)
Query: 639 DSSHCKGLESFPRTFLLGLSAMGLLHISDYAVREIPQEIAYLSSLEILYLSGNNFESLP- 697
D +G++ P L L L IS A++E L++L L L+GN +SLP
Sbjct: 52 DIKSVQGIQYLPNVRYLALGGNKLHDIS--ALKE-------LTNLTYLILTGNQLQSLPN 102
Query: 698 AIIKQMSQLRFIHLEDFNMLQSLPELPL----CLKYLHLIDCKMLQSLPVLPF----CLE 749
+ +++ L+ + L + N LQSLP+ L YL+L LQSLP F L
Sbjct: 103 GVFDKLTNLKELVLVE-NQLQSLPDGVFDKLTNLTYLNLAH-NQLQSLPKGVFDKLTNLT 160
Query: 750 SLDLTGCNMLRSLPE 764
LDL+ N L+SLPE
Sbjct: 161 ELDLS-YNQLQSLPE 174
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 47/135 (34%), Positives = 66/135 (48%), Gaps = 21/135 (15%)
Query: 639 DSSHCKGLESFPRTFLLGLSAMGLLHISDYAVREIPQEIAYLSSLEILYLSGNNFESLP- 697
D +G++ P L L L IS A++E L++L L L+GN +SLP
Sbjct: 52 DIKSVQGIQYLPNVRYLALGGNKLHDIS--ALKE-------LTNLTYLILTGNQLQSLPN 102
Query: 698 AIIKQMSQLRFIHLEDFNMLQSLPELPL----CLKYLHLIDCKMLQSLPVLPF----CLE 749
+ +++ L+ + L + N LQSLP+ L YL+L LQSLP F L
Sbjct: 103 GVFDKLTNLKELVLVE-NQLQSLPDGVFDKLTNLTYLYLYH-NQLQSLPKGVFDKLTNLT 160
Query: 750 SLDLTGCNMLRSLPE 764
LDL N L+SLPE
Sbjct: 161 RLDLDN-NQLQSLPE 174
>pdb|2O6R|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B61
Length = 177
Score = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 44/79 (55%), Gaps = 3/79 (3%)
Query: 646 LESFPRTFLLGLSAMGLLHISDYAVREIPQEI-AYLSSLEILYLSGNNFESLP-AIIKQM 703
L+S P L+ + L +S ++ +P + L+ L ILYL N +SLP + ++
Sbjct: 40 LQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKL 99
Query: 704 SQLRFIHLEDFNMLQSLPE 722
+QL+ + L D N L+S+P+
Sbjct: 100 TQLKELAL-DTNQLKSVPD 117
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 38.1 bits (87), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 43/67 (64%), Gaps = 3/67 (4%)
Query: 657 LSAMGLLHISDYAVREIPQEI-AYLSSLEILYLSGNNFESLPA-IIKQMSQLRFIHLEDF 714
L+ +G L +++ + +P + +L+ L+ LYL GN +SLP+ + ++++L+ + L +
Sbjct: 82 LTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRL-NT 140
Query: 715 NMLQSLP 721
N LQS+P
Sbjct: 141 NQLQSIP 147
>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 = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 43/67 (64%), Gaps = 3/67 (4%)
Query: 657 LSAMGLLHISDYAVREIPQEI-AYLSSLEILYLSGNNFESLPA-IIKQMSQLRFIHLEDF 714
L+ +G L +++ + +P + +L+ L+ LYL GN +SLP+ + ++++L+ + L +
Sbjct: 82 LTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRL-NT 140
Query: 715 NMLQSLP 721
N LQS+P
Sbjct: 141 NQLQSIP 147
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 37.4 bits (85), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 34/108 (31%), Positives = 55/108 (50%), Gaps = 9/108 (8%)
Query: 656 GLSAMGLLHISDYAVREIP-QEIAYLSSLEILYLSGNNFESLPA-IIKQMSQLRFIHLED 713
GL ++ L + D + +P Q YLS L L+L N ES+P+ ++ LR + L +
Sbjct: 81 GLPSLNTLELFDNRLTTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGE 140
Query: 714 FNMLQSLPELP----LCLKYLHLIDCKMLQSLPVLPFC--LESLDLTG 755
L+ + E + L+YL+L C L+ +P L LE L+L+G
Sbjct: 141 LKRLEYISEAAFEGLVNLRYLNLGMCN-LKDIPNLTALVRLEELELSG 187
>pdb|3ZYN|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
pdb|3ZYN|B Chain B, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
Length = 321
Score = 37.0 bits (84), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 34/108 (31%), Positives = 55/108 (50%), Gaps = 9/108 (8%)
Query: 656 GLSAMGLLHISDYAVREIP-QEIAYLSSLEILYLSGNNFESLPA-IIKQMSQLRFIHLED 713
GL ++ L + D + +P Q YLS L L+L N ES+P+ ++ LR + L +
Sbjct: 81 GLPSLNTLELFDNRLTTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGE 140
Query: 714 FNMLQSLPELP----LCLKYLHLIDCKMLQSLPVLPFC--LESLDLTG 755
L+ + E + L+YL+L C L+ +P L LE L+L+G
Sbjct: 141 LKRLEYISEAAFEGLVNLRYLNLGMCN-LKDIPNLTALVRLEELELSG 187
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 52/107 (48%), Gaps = 7/107 (6%)
Query: 656 GLSAMGLLHISDYAVREIPQ-EIAYLSSLEILYLSGNNFESLPA-IIKQMSQLRFIHLED 713
GL+ + L + D + IP YLS L+ L+L N ES+P+ ++ LR + L +
Sbjct: 110 GLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGE 169
Query: 714 FNMLQSLPELPL----CLKYLHLIDCKMLQSLPVLPFC-LESLDLTG 755
L + E L+YL+L C + + + P L+ LDL+G
Sbjct: 170 LKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLSG 216
Score = 32.7 bits (73), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 34/110 (30%), Positives = 51/110 (46%), Gaps = 12/110 (10%)
Query: 635 LRSLDSSHCKGLESFPRTFLLGLSAMGLLHISDYAVREIPQEIAYLSSLEILYLSGNNFE 694
LR LD K L GLS + L+++ +REIP + L L+ L LSGN+
Sbjct: 162 LRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPN-LTPLIKLDELDLSGNHLS 220
Query: 695 SL-PAIIKQM----------SQLRFIHLEDFNMLQSLPELPLCLKYLHLI 733
++ P + + SQ++ I F+ LQSL E+ L L L+
Sbjct: 221 AIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLTLL 270
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 35.8 bits (81), Expect = 0.12, Method: Composition-based stats.
Identities = 46/157 (29%), Positives = 66/157 (42%), Gaps = 17/157 (10%)
Query: 634 MLRSLDSSHCKGLESFPRTFLLGLSAMGLLHISDYAVREI-PQEIAYLSSLEILYLSGNN 692
+L LD S L T GL + LH+ ++E+ P L++L+ LYL NN
Sbjct: 80 LLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNN 139
Query: 693 FESLP-AIIKQMSQLRFIHLEDFNMLQSLPELPLCLKYLHLIDCKMLQS---LPVLPFCL 748
++LP + + L + L N + S+PE + LH +D +L V P
Sbjct: 140 LQALPDNTFRDLGNLTHLFLHG-NRIPSVPE--HAFRGLHSLDRLLLHQNHVARVHPHAF 196
Query: 749 ESLD-----LTGCNMLRSLPE---LPL-CLQYLNLED 776
L N L LP +PL LQYL L D
Sbjct: 197 RDLGRLMTLYLFANNLSMLPAEVLVPLRSLQYLRLND 233
>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 = 0.14, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 47/86 (54%), Gaps = 8/86 (9%)
Query: 663 LHISDYAVREIPQEI-AYLSSLEILYLSGNNFESLP-AIIKQMSQLRFIHLEDFNMLQSL 720
L + +++ +P + L+SL LYL GN +SLP + +++ L +++L N LQSL
Sbjct: 33 LDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLST-NQLQSL 91
Query: 721 P----ELPLCLKYLHLIDCKMLQSLP 742
P + LK L L + LQSLP
Sbjct: 92 PNGVFDKLTQLKELAL-NTNQLQSLP 116
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 35.4 bits (80), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 37/95 (38%), Positives = 53/95 (55%), Gaps = 14/95 (14%)
Query: 680 LSSLEILYLSGNNFESLPA-IIKQMSQLRFIHLEDFNMLQSLP----ELPLCLKYLHLID 734
L+ L +LYL+ N ++LPA I K++ L + + D N LQ+LP + + L L L D
Sbjct: 60 LTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTD-NKLQALPIGVFDQLVNLAELRL-D 117
Query: 735 CKMLQSLPVLPFCLESL-DLT----GCNMLRSLPE 764
L+SLP P +SL LT G N L+SLP+
Sbjct: 118 RNQLKSLP--PRVFDSLTKLTYLSLGYNELQSLPK 150
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 34.7 bits (78), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 36/110 (32%), Positives = 51/110 (46%), Gaps = 18/110 (16%)
Query: 680 LSSLEILYLSGNNFES--LPAIIKQMSQLRFIHLED----------FNMLQSLPELPLCL 727
LSSLE+L ++GN+F+ LP I ++ L F+ L FN L SL L +
Sbjct: 468 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 527
Query: 728 KYLHLIDC---KMLQSLPVLPFCLESLDLTGCNMLRSLPELPLCLQYLNL 774
+D K L SL VL + SL+ + + L P L +LNL
Sbjct: 528 NNFFSLDTFPYKCLNSLQVLDY---SLNHIMTSKKQELQHFPSSLAFLNL 574
Score = 29.6 bits (65), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 332 FLDLSKIKGINLDPRAFTNMSNLRLFKFYVPKFYEIEKLP--SMSTEEQLSYSKVQLPNG 389
FLDLS+ + L P AF ++S+L++ F+ ++ P +++ + L YS +
Sbjct: 498 FLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTS 557
Query: 390 ----LDYLPKKLRYLH 401
L + P L +L+
Sbjct: 558 KKQELQHFPSSLAFLN 573
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 33.9 bits (76), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 36/110 (32%), Positives = 51/110 (46%), Gaps = 18/110 (16%)
Query: 680 LSSLEILYLSGNNFES--LPAIIKQMSQLRFIHLED----------FNMLQSLPELPLCL 727
LSSLE+L ++GN+F+ LP I ++ L F+ L FN L SL L +
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 503
Query: 728 KYLHLIDC---KMLQSLPVLPFCLESLDLTGCNMLRSLPELPLCLQYLNL 774
+D K L SL VL + SL+ + + L P L +LNL
Sbjct: 504 NNFFSLDTFPYKCLNSLQVLDY---SLNHIMTSKKQELQHFPSSLAFLNL 550
>pdb|2Z66|A Chain A, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|B Chain B, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|C Chain C, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|D Chain D, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 306
Score = 33.9 bits (76), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 36/110 (32%), Positives = 51/110 (46%), Gaps = 18/110 (16%)
Query: 680 LSSLEILYLSGNNFES--LPAIIKQMSQLRFIHLED----------FNMLQSLPELPLCL 727
LSSLE+L ++GN+F+ LP I ++ L F+ L FN L SL L +
Sbjct: 149 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 208
Query: 728 KYLHLIDC---KMLQSLPVLPFCLESLDLTGCNMLRSLPELPLCLQYLNL 774
+D K L SL VL + SL+ + + L P L +LNL
Sbjct: 209 NNFFSLDTFPYKCLNSLQVLDY---SLNHIMTSKKQELQHFPSSLAFLNL 255
Score = 30.8 bits (68), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 332 FLDLSKIKGINLDPRAFTNMSNLRLFKFYVPKFYEIEKLP--SMSTEEQLSYSKVQLPNG 389
FLDLS+ + L P AF ++S+L++ F+ ++ P +++ + L YS +
Sbjct: 179 FLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTS 238
Query: 390 ----LDYLPKKLRYLH 401
L + P L +L+
Sbjct: 239 KKQELQHFPSSLAFLN 254
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 33.5 bits (75), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 2/81 (2%)
Query: 673 IPQEIAYLSSLEILYLSGNN--FESLPAIIKQMSQLRFIHLEDFNMLQSLPELPLCLKYL 730
IP +A L L LY+ G N +P I +++QL ++++ N+ ++P+ +K L
Sbjct: 68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL 127
Query: 731 HLIDCKMLQSLPVLPFCLESL 751
+D LP + SL
Sbjct: 128 VTLDFSYNALSGTLPPSISSL 148
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 32.0 bits (71), Expect = 1.8, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 635 LRSLDSSHCKGLESFPRTFLLGLSAMGLLHISDYAVREIPQEIAY-LSSLEILYLSGNNF 693
L +L C GL+ GL+A+ L++ D A++ +P + L +L L+L GN
Sbjct: 106 LHTLHLDRC-GLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRI 164
Query: 694 ESLP 697
S+P
Sbjct: 165 SSVP 168
>pdb|1OZN|A Chain A, 1.5a Crystal Structure Of The Nogo Receptor Ligand Binding
Domain Reveals A Convergent Recognition Scaffold
Mediating Inhibition Of Myelination
Length = 285
Score = 32.0 bits (71), Expect = 2.0, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 635 LRSLDSSHCKGLESFPRTFLLGLSAMGLLHISDYAVREIPQEIAY-LSSLEILYLSGNNF 693
L +L C GL+ GL+A+ L++ D A++ +P + L +L L+L GN
Sbjct: 107 LHTLHLDRC-GLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRI 165
Query: 694 ESLP 697
S+P
Sbjct: 166 SSVP 169
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 650 PRTFLLGLSAMGLLHISDYAVREIPQEI-AYLSSLEILYLSGNNFESLPAII 700
P FL GLS + +L++ EIP E+ L L+I+ L NN +LPA +
Sbjct: 528 PIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASV 579
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 650 PRTFLLGLSAMGLLHISDYAVREIPQEI-AYLSSLEILYLSGNNFESLPAII 700
P FL GLS + +L++ EIP E+ L L+I+ L NN +LPA +
Sbjct: 533 PIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASV 584
>pdb|3ULU|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 694
Score = 31.6 bits (70), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 650 PRTFLLGLSAMGLLHISDYAVREIPQEI-AYLSSLEILYLSGNNFESLPAII 700
P FL GLS + +L++ EIP E+ L L+I+ L NN +LPA +
Sbjct: 538 PIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASV 589
>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 = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 672 EIPQEIAYLSSLEILYLSGNNFES-LPAIIKQMSQLRFIHLEDFNMLQSLPE 722
EIPQE+ Y+ +LE L L N+ +P+ + + L +I L + + +P+
Sbjct: 454 EIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK 505
>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 = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 672 EIPQEIAYLSSLEILYLSGNNFES-LPAIIKQMSQLRFIHLEDFNMLQSLPE 722
EIPQE+ Y+ +LE L L N+ +P+ + + L +I L + + +P+
Sbjct: 457 EIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK 508
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 30.8 bits (68), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 31/107 (28%), Positives = 51/107 (47%), Gaps = 7/107 (6%)
Query: 656 GLSAMGLLHISDYAVREIPQ-EIAYLSSLEILYLSGNNFESLPA-IIKQMSQLRFIHLED 713
GL+++ L + D + IP YLS L L+L N ES+P+ ++ L + L +
Sbjct: 121 GLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGE 180
Query: 714 FNMLQSLPELP----LCLKYLHLIDCKMLQSLPVLPFC-LESLDLTG 755
L+ + E LKYL+L C + + P LE L+++G
Sbjct: 181 LKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSG 227
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/53 (24%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 662 LLHISDYAVREIPQEIAYLSSLEILYLSGNNFESLP-AIIKQMSQLRFIHLED 713
+L + + + IP+++ +L +L+ L ++ N +S+P + +++ L++I L D
Sbjct: 454 VLDLHNNRIMSIPKDVTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIWLHD 506
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 30.8 bits (68), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 57/111 (51%), Gaps = 13/111 (11%)
Query: 634 MLRSLDSSHCKGLESFPRTFLLG--LSAMGLLHISDYAVREIP-QEIAYLSSLEILYLSG 690
+L +LD SH + L+S P LLG L A+ +L +S + +P + L L+ LYL G
Sbjct: 78 VLGTLDLSHNQ-LQSLP---LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG 133
Query: 691 NNFESL-PAIIKQMSQLRFIHLEDFNMLQSLPELPL-CLKYLHLIDCKMLQ 739
N ++L P ++ +L + L + N L ELP L L +D +LQ
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANNN----LTELPAGLLNGLENLDTLLLQ 180
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 30.4 bits (67), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 57/111 (51%), Gaps = 13/111 (11%)
Query: 634 MLRSLDSSHCKGLESFPRTFLLG--LSAMGLLHISDYAVREIP-QEIAYLSSLEILYLSG 690
+L +LD SH + L+S P LLG L A+ +L +S + +P + L L+ LYL G
Sbjct: 78 VLGTLDLSHNQ-LQSLP---LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG 133
Query: 691 NNFESL-PAIIKQMSQLRFIHLEDFNMLQSLPELPL-CLKYLHLIDCKMLQ 739
N ++L P ++ +L + L + N L ELP L L +D +LQ
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANNN----LTELPAGLLNGLENLDTLLLQ 180
>pdb|1Z25|A Chain A, Structure Of P.Furiosus Argonaute With Bound Mn2+
pdb|1Z26|A Chain A, Structure Of Pyrococcus Furiosus Argonaute With Bound
Tungstate
Length = 771
Score = 30.4 bits (67), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 82/203 (40%), Gaps = 25/203 (12%)
Query: 22 TLAKAIFDQFSHEFEGSCFVSDVRGNSETAGGLEHLQKQ-MLSTTLSEKLEVAGP-NIPH 79
+L++ ++ + E E V D +GNS L + Q +L T S K V P +P
Sbjct: 316 SLSEIEVEKIAQELENKIRVRDDKGNSVPISQLNVQKSQLLLWTNYSRKYPVILPYEVPE 375
Query: 80 FTKERVRRMKLLIVLDDVNEVGQLKRLIGELDQFGQGS-RIVVTTRDKRVLEKFRGEEKK 138
+ ++R + + I+LD L+ ++ F R +V + + +K+ KK
Sbjct: 376 KFR-KIREIPMFIILDS--------GLLADIQNFATNEFRELVKSMYYSLAKKYNSLAKK 426
Query: 139 IYRVNGLEFEEAFEHFCNFAFKENHCPEDLNWHS------RSVVSYTKGNPLVLEVLGS- 191
N + F +F KE EDLN V S+ KG L L + +
Sbjct: 427 ARSTNEIGLP-----FLDFRGKEKVITEDLNSDKGIIEVVEQVSSFMKGKELGLAFIAAR 481
Query: 192 -SLCLKRKSHWGKVLHDLNRICE 213
L ++ + L +LN I +
Sbjct: 482 NKLSSEKFEEIKRRLFNLNVISQ 504
>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 = 30.4 bits (67), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 57/111 (51%), Gaps = 13/111 (11%)
Query: 634 MLRSLDSSHCKGLESFPRTFLLG--LSAMGLLHISDYAVREIP-QEIAYLSSLEILYLSG 690
+L +LD SH + L+S P LLG L A+ +L +S + +P + L L+ LYL G
Sbjct: 78 VLGTLDLSHNQ-LQSLP---LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG 133
Query: 691 NNFESL-PAIIKQMSQLRFIHLEDFNMLQSLPELPL-CLKYLHLIDCKMLQ 739
N ++L P ++ +L + L + N L ELP L L +D +LQ
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANNN----LTELPAGLLNGLENLDTLLLQ 180
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 30.4 bits (67), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 49/92 (53%), Gaps = 9/92 (9%)
Query: 634 MLRSLDSSHCKGLESFPRTFLLG--LSAMGLLHISDYAVREIP-QEIAYLSSLEILYLSG 690
+L +LD SH + L+S P LLG L A+ +L +S + +P + L L+ LYL G
Sbjct: 78 VLGTLDLSHNQ-LQSLP---LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG 133
Query: 691 NNFESL-PAIIKQMSQLRFIHLEDFNMLQSLP 721
N ++L P ++ +L + L + N L LP
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLAN-NQLTELP 164
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 30.0 bits (66), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 680 LSSLEILYLSGNNFES--LPAIIKQMSQLRFIHLEDFNMLQSLPELPLCLKYLHLID--C 735
LSSLE+L ++GN+F+ LP I ++ L F+ L + Q P L L +++
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS 503
Query: 736 KMLQSLP 742
L+S+P
Sbjct: 504 NQLKSVP 510
>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 = 30.0 bits (66), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 49/92 (53%), Gaps = 9/92 (9%)
Query: 634 MLRSLDSSHCKGLESFPRTFLLG--LSAMGLLHISDYAVREIP-QEIAYLSSLEILYLSG 690
+L +LD SH + L+S P LLG L A+ +L +S + +P + L L+ LYL G
Sbjct: 78 VLGTLDLSHNQ-LQSLP---LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG 133
Query: 691 NNFESL-PAIIKQMSQLRFIHLEDFNMLQSLP 721
N ++L P ++ +L + L + N L LP
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLAN-NQLTELP 164
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 57/111 (51%), Gaps = 13/111 (11%)
Query: 634 MLRSLDSSHCKGLESFPRTFLLG--LSAMGLLHISDYAVREIP-QEIAYLSSLEILYLSG 690
+L +LD SH + L+S P LLG L A+ +L +S + +P + L L+ LYL G
Sbjct: 79 VLGTLDLSHNQ-LQSLP---LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG 134
Query: 691 NNFESL-PAIIKQMSQLRFIHLEDFNMLQSLPELPL-CLKYLHLIDCKMLQ 739
N ++L P ++ +L + L + N L ELP L L +D +LQ
Sbjct: 135 NELKTLPPGLLTPTPKLEKLSLANNN----LTELPAGLLNGLENLDTLLLQ 181
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 30.0 bits (66), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 49/92 (53%), Gaps = 9/92 (9%)
Query: 634 MLRSLDSSHCKGLESFPRTFLLG--LSAMGLLHISDYAVREIP-QEIAYLSSLEILYLSG 690
+L +LD SH + L+S P LLG L A+ +L +S + +P + L L+ LYL G
Sbjct: 78 VLGTLDLSHNQ-LQSLP---LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG 133
Query: 691 NNFESL-PAIIKQMSQLRFIHLEDFNMLQSLP 721
N ++L P ++ +L + L + N L LP
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLAN-NQLTELP 164
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 30.0 bits (66), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 49/92 (53%), Gaps = 9/92 (9%)
Query: 634 MLRSLDSSHCKGLESFPRTFLLG--LSAMGLLHISDYAVREIP-QEIAYLSSLEILYLSG 690
+L +LD SH + L+S P LLG L A+ +L +S + +P + L L+ LYL G
Sbjct: 78 VLGTLDLSHNQ-LQSLP---LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG 133
Query: 691 NNFESL-PAIIKQMSQLRFIHLEDFNMLQSLP 721
N ++L P ++ +L + L + N L LP
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLAN-NQLTELP 164
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 30.0 bits (66), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 57/111 (51%), Gaps = 13/111 (11%)
Query: 634 MLRSLDSSHCKGLESFPRTFLLG--LSAMGLLHISDYAVREIP-QEIAYLSSLEILYLSG 690
+L +LD SH + L+S P LLG L A+ +L +S + +P + L L+ LYL G
Sbjct: 78 VLGTLDLSHNQ-LQSLP---LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG 133
Query: 691 NNFESL-PAIIKQMSQLRFIHLEDFNMLQSLPELPL-CLKYLHLIDCKMLQ 739
N ++L P ++ +L + L + N L ELP L L +D +LQ
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANNN----LTELPAGLLNGLENLDTLLLQ 180
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
0.321 0.138 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,746,834
Number of Sequences: 62578
Number of extensions: 1276227
Number of successful extensions: 3319
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 55
Number of HSP's that attempted gapping in prelim test: 3196
Number of HSP's gapped (non-prelim): 135
length of query: 1083
length of database: 14,973,337
effective HSP length: 109
effective length of query: 974
effective length of database: 8,152,335
effective search space: 7940374290
effective search space used: 7940374290
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (26.6 bits)