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= 043855
(946 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 = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 55/232 (23%), Positives = 97/232 (41%), Gaps = 45/232 (19%)
Query: 295 FVLDDVWNESYNDWVELSHPFEAGAPGSKIIVTTRNQGVA-AIMG---TVPA-YQLKKLS 349
+LDDVW+ WV +A +I++TTR++ V ++MG VP L K
Sbjct: 240 LILDDVWD----SWV-----LKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEK 290
Query: 350 DHDCLALFARHSLGTRDFSSHKSLEKIGREIVTKCDGLPLAAKTLGGLLRGHHDKCDWEG 409
+ L+LF +H I+ +C G PL +G LLR ++ WE
Sbjct: 291 GLEILSLFVNMKKADLPEQAH--------SIIKECKGSPLVVSLIGALLRDFPNR--WEY 340
Query: 410 VLRA---KIWELPEERASFIPD-----LAISYRHLPPTLKQCFAYCSLFPKGYEFEEKEI 461
L+ K ++ + +S+ + ++IS L +K + S+ K + K +
Sbjct: 341 YLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVL 400
Query: 462 ILLWSAVGFLDHVQSGNASEDLGRDIFRELCARS-FFQESGEDTSGFVMHDL 512
+LW +E++ DI +E +S F + + + +HDL
Sbjct: 401 CILWDM-----------ETEEV-EDILQEFVNKSLLFCDRNGKSFRYYLHDL 440
>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 = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 55/232 (23%), Positives = 97/232 (41%), Gaps = 45/232 (19%)
Query: 295 FVLDDVWNESYNDWVELSHPFEAGAPGSKIIVTTRNQGVA-AIMG---TVPA-YQLKKLS 349
+LDDVW+ WV +A +I++TTR++ V ++MG VP L K
Sbjct: 246 LILDDVWDS----WV-----LKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEK 296
Query: 350 DHDCLALFARHSLGTRDFSSHKSLEKIGREIVTKCDGLPLAAKTLGGLLRGHHDKCDWEG 409
+ L+LF L + I+ +C G PL +G LLR ++ WE
Sbjct: 297 GLEILSLFVN--------MKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNR--WEY 346
Query: 410 VLRA---KIWELPEERASFIPD-----LAISYRHLPPTLKQCFAYCSLFPKGYEFEEKEI 461
L+ K ++ + +S+ + ++IS L +K + S+ K + K +
Sbjct: 347 YLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVL 406
Query: 462 ILLWSAVGFLDHVQSGNASEDLGRDIFRELCARS-FFQESGEDTSGFVMHDL 512
+LW +E++ DI +E +S F + + + +HDL
Sbjct: 407 CILWDM-----------ETEEV-EDILQEFVNKSLLFCDRNGKSFRYYLHDL 446
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 60/254 (23%), Positives = 104/254 (40%), Gaps = 55/254 (21%)
Query: 295 FVLDDVWNESYNDWVELSHPFEAGAPGSKIIVTTRNQGVA-AIMG---TVPAYQ-LKKLS 349
+LDDVW+ WV +A +I++TTR++ V ++MG VP L +
Sbjct: 240 LILDDVWDP----WV-----LKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREK 290
Query: 350 DHDCLALFARHSLGTRDFSSHKSLEKIGREIVTKCDGLPLAAKTLGGLLRGHHDKCDWEG 409
+ L+LF ++ D + I+ +C G PL +G LLR ++ W
Sbjct: 291 GLEILSLFV--NMKKEDLPAE------AHSIIKECKGSPLVVSLIGALLRDFPNR--WAY 340
Query: 410 VLRA---KIWELPEERASFIPD-----LAISYRHLPPTLKQCFAYCSLFPKGYEFEEKEI 461
LR K ++ + +S+ + ++IS L +K + S+ K + K +
Sbjct: 341 YLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVL 400
Query: 462 ILLWSAVGFLDHVQSGNASEDLGRDIFRELCARS-FFQESGEDTSGFVMHDLVNGLAQWA 520
+LW +E++ DI +E +S F + + +HDL
Sbjct: 401 CVLWDL-----------ETEEV-EDILQEFVNKSLLFCNRNGKSFCYYLHDL-------- 440
Query: 521 GGQIYFRMEDNRQQ 534
Q+ F E NR Q
Sbjct: 441 --QVDFLTEKNRSQ 452
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 59/254 (23%), Positives = 103/254 (40%), Gaps = 55/254 (21%)
Query: 295 FVLDDVWNESYNDWVELSHPFEAGAPGSKIIVTTRNQGVA-AIMG---TVPAYQ-LKKLS 349
+LDDVW+ WV +A +I++TT ++ V ++MG VP L +
Sbjct: 247 LILDDVWDP----WV-----LKAFDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREK 297
Query: 350 DHDCLALFARHSLGTRDFSSHKSLEKIGREIVTKCDGLPLAAKTLGGLLRGHHDKCDWEG 409
+ L+LF ++ D + I+ +C G PL +G LLR ++ W
Sbjct: 298 GLEILSLFV--NMKKEDLPAE------AHSIIKECKGSPLVVSLIGALLRDFPNR--WAY 347
Query: 410 VLRA---KIWELPEERASFIPD-----LAISYRHLPPTLKQCFAYCSLFPKGYEFEEKEI 461
LR K ++ + +S+ + ++IS L +K + S+ K + K +
Sbjct: 348 YLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVL 407
Query: 462 ILLWSAVGFLDHVQSGNASEDLGRDIFRELCARS-FFQESGEDTSGFVMHDLVNGLAQWA 520
+LW +E++ DI +E +S F + + +HDL
Sbjct: 408 CVLWDL-----------ETEEV-EDILQEFVNKSLLFCNRNGKSFCYYLHDL-------- 447
Query: 521 GGQIYFRMEDNRQQ 534
Q+ F E NR Q
Sbjct: 448 --QVDFLTEKNRSQ 459
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 32.7 bits (73), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%)
Query: 605 IFELPDSIGELRHLRYLNLSRTLIEVLPESVNKLYKLQTLLLEDCDRLKKL 655
+ ELPD+ + L L L+R + LP S+ L +L+ L + C L +L
Sbjct: 116 LXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTEL 166
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 39/88 (44%)
Query: 605 IFELPDSIGELRHLRYLNLSRTLIEVLPESVNKLYKLQTLLLEDCDRLKKLCAXXXXXXX 664
I LP SI L++L+ L + + + L +++ L KL+ L L C L+
Sbjct: 195 IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP 254
Query: 665 XXXXXXXXTDSLEEMPIGIGKLTSLQTL 692
+L +P+ I +LT L+ L
Sbjct: 255 LKRLILKDCSNLLTLPLDIHRLTQLEKL 282
>pdb|2CG8|A Chain A, The Bifunctional Dihydroneopterin Aldolase
6-Hydroxymethyl- 7,8-Dihydropterin Synthase From
Streptococcus Pneumoniae
pdb|2CG8|B Chain B, The Bifunctional Dihydroneopterin Aldolase
6-Hydroxymethyl- 7,8-Dihydropterin Synthase From
Streptococcus Pneumoniae
pdb|2CG8|C Chain C, The Bifunctional Dihydroneopterin Aldolase
6-Hydroxymethyl- 7,8-Dihydropterin Synthase From
Streptococcus Pneumoniae
pdb|2CG8|D Chain D, The Bifunctional Dihydroneopterin Aldolase
6-Hydroxymethyl- 7,8-Dihydropterin Synthase From
Streptococcus Pneumoniae
Length = 270
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 5/75 (6%)
Query: 442 QCFAYCSLFPKGYEFEEKEIILLWSAVGFLDHVQSGNASEDLGRDIFRELCAR--SFFQE 499
+ FAY LFP E +K I+ SA+ D ++ + + ELC + ++FQE
Sbjct: 10 EMFAYHGLFPSEKELGQKFIV---SAILSYDMTKAATDLDLTASVHYGELCQQWTTWFQE 66
Query: 500 SGEDTSGFVMHDLVN 514
+ ED V + LV
Sbjct: 67 TSEDLIETVAYKLVE 81
>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 = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 608 LPDSIGELRHLRYLNLSRTLIEVL-PESVNKLYKLQTL 644
LPD ELR+L +L+LS+ +E L P + N L LQ L
Sbjct: 167 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL 204
>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 = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 608 LPDSIGELRHLRYLNLSRTLIEVL-PESVNKLYKLQTL 644
LPD ELR+L +L+LS+ +E L P + N L LQ L
Sbjct: 486 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL 523
>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 = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 48/94 (51%), Gaps = 4/94 (4%)
Query: 600 LCGYEIFELPDSI-GELRHLRYLNLSRTLIEVLPESV-NKLYKLQTLLLEDCDRLKKLCA 657
L G ++ LP+ + +L L YLNLS ++ LP V +KL +L+ L L + ++L+ L
Sbjct: 59 LGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELAL-NTNQLQSLPD 117
Query: 658 XXXXXXXXXXXXXXXTDSLEEMPIGI-GKLTSLQ 690
+ L+ +P G+ +LTSLQ
Sbjct: 118 GVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQ 151
>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 = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 608 LPDSIGELRHLRYLNLSRTLIEVL-PESVNKLYKLQTL 644
LPD ELR+L +L+LS+ +E L P + N L LQ L
Sbjct: 462 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL 499
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 608 LPDSIGELRHLRYLNLSRTLIEVL-PESVNKLYKLQTL 644
LPD ELR+L +L+LS+ +E L P + N L LQ L
Sbjct: 462 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL 499
>pdb|3ZYV|A Chain A, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
pdb|3ZYV|B Chain B, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
pdb|3ZYV|C Chain C, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
pdb|3ZYV|D Chain D, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
Length = 1335
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 13/67 (19%)
Query: 202 RDDLMNDGGFSVLPIVGMG--------GLGKTTLAQLVYNDD-----RVRDHFDLKAWTC 248
R D++ DG FS+ P V +G GLG TL +L Y+ + R + + + T
Sbjct: 1180 RTDIVMDGSFSINPAVDIGQIEGAFVQGLGLYTLEELKYSPEGVLYTRGPHQYKIASVTD 1239
Query: 249 VSDDFDV 255
+ ++F V
Sbjct: 1240 IPEEFHV 1246
>pdb|3QFL|A Chain A, Coiled-Coil Domain-Dependent Homodimerization Of
Intracellular Mla Immune Receptors Defines A Minimal
Functional Module For Triggering Cell Death
Length = 115
Score = 30.4 bits (67), Expect = 4.9, Method: Composition-based stats.
Identities = 20/78 (25%), Positives = 39/78 (50%), Gaps = 2/78 (2%)
Query: 11 ASVDLLLNKLASDEIRSFARQEQIQADLMKWEEMLVMSKAVLDDAEE--KKKTDNSVKLW 68
A++ L+ KL F + ++ ++ + L A L E +++ D+ KLW
Sbjct: 1 AAISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESXNAALIKIGEVPREQLDSQDKLW 60
Query: 69 LGELQSLVYDVEDLLDEF 86
E++ L Y +ED++D+F
Sbjct: 61 ADEVRELSYVIEDVVDKF 78
>pdb|3HKM|A Chain A, Crystal Structure Of Rice(Oryza Sativa) Rrp46
pdb|3HKM|B Chain B, Crystal Structure Of Rice(Oryza Sativa) Rrp46
pdb|3HKM|C Chain C, Crystal Structure Of Rice(Oryza Sativa) Rrp46
Length = 246
Score = 30.0 bits (66), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 711 LKHLHGTLNISKLENVKCIVD---AEEAQLDGKKNLKVLLLRWTCSTDDSSLREAETEKG 767
LKHL + LE+ + I+D AEE QL +L R + S+ + + +E ++E+G
Sbjct: 134 LKHLAVAIGCGVLEDGEVILDTNKAEEQQLKSFAHLVFPNSRKSASSKEPNQKEEDSERG 193
Query: 768 VLTML 772
++T +
Sbjct: 194 LITSI 198
>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 = 29.6 bits (65), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 30/45 (66%), Gaps = 1/45 (2%)
Query: 609 PDSIGELRHLRYLNLSRTLIEVLPESVNKLYKLQTLLLEDCDRLK 653
P++ L +L+YL +S T I+ LP+ V+K++ LQ +LL+ D +
Sbjct: 97 PEAFQNLPNLQYLLISNTGIKHLPD-VHKIHSLQKVLLDIQDNIN 140
>pdb|1X54|A Chain A, Crystal Structure Of Asparaginyl-trna Synthetase From
Pyrococcus Horikoshii Complexed With
Asparaginyl-adenylate
pdb|1X55|A Chain A, Crystal Structure Of Asparaginyl-Trna Synthetase From
Pyrococcus Horikoshii Complexed With
Asparaginyl-Adenylate Analogue
pdb|1X56|A Chain A, Crystal Structure Of Asparaginyl-Trna Synthetase From
Pyrococcus Horikoshii
Length = 434
Score = 29.6 bits (65), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 37/82 (45%), Gaps = 5/82 (6%)
Query: 355 ALFARHSLGTRDFSSHKSLEKIGREIVTKCDGLPLAAKTLGGLLRGHHDKCDWEGVLRAK 414
A+ A++ +G F K K+GRE +G+ A + G H +K E +
Sbjct: 48 AVVAKNVVGEETFEKAK---KLGRESSVIVEGIVKADERAPGGAEVHVEKL--EVIQAVS 102
Query: 415 IWELPEERASFIPDLAISYRHL 436
+ +PE P+L + YRHL
Sbjct: 103 EFPIPENPEQASPELLLDYRHL 124
>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 = 29.6 bits (65), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 30/45 (66%), Gaps = 1/45 (2%)
Query: 609 PDSIGELRHLRYLNLSRTLIEVLPESVNKLYKLQTLLLEDCDRLK 653
P++ L +L+YL +S T I+ LP+ V+K++ LQ +LL+ D +
Sbjct: 97 PEAFQNLPNLQYLLISNTGIKHLPD-VHKIHSLQKVLLDIQDNIN 140
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
0.322 0.139 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,059,223
Number of Sequences: 62578
Number of extensions: 1092949
Number of successful extensions: 2396
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 2388
Number of HSP's gapped (non-prelim): 23
length of query: 946
length of database: 14,973,337
effective HSP length: 108
effective length of query: 838
effective length of database: 8,214,913
effective search space: 6884097094
effective search space used: 6884097094
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: 56 (26.2 bits)