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= 038637
(962 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 = 52.8 bits (125), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 64/244 (26%), Positives = 99/244 (40%), Gaps = 59/244 (24%)
Query: 311 LLVLDDVWNKNYNYWSILSCPFGAGAPGSKIVVTTRNLDVANLTRAYPKYGLKELSDDDC 370
LL+LDDVW+ S A +I++TTR+ V + PKY
Sbjct: 239 LLILDDVWD---------SWVLKAFDSQCQILLTTRDKSVTDSVMG-PKY---------- 278
Query: 371 LRVVIQHSLGAT------GFSTNQSLKDVGEK---IAKKCKGLPLAAKTLGGLLRGKDDL 421
V ++ SLG N D+ E+ I K+CKG PL +G LLR D
Sbjct: 279 -VVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLR--DFP 335
Query: 422 TDWEFVLNTDIWKLQEENYGII------------PALRVSYHFLPSQLKQCFAYCSLFPK 469
WE+ L +LQ + + I A+ +S L +K + S+ K
Sbjct: 336 NRWEYYLK----QLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQK 391
Query: 470 DYEFQEEEIILLWTAEGFLDQEYNGRKMEDLGREFVRELHSRSLFQQSSRDASRFVMHDL 529
D + + + +LW E ++ED+ +EFV + LF + + R+ +HDL
Sbjct: 392 DVKVPTKVLCILWDME--------TEEVEDILQEFVNK---SLLFCDRNGKSFRYYLHDL 440
Query: 530 INDL 533
D
Sbjct: 441 QVDF 444
>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 = 52.8 bits (125), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 64/244 (26%), Positives = 99/244 (40%), Gaps = 59/244 (24%)
Query: 311 LLVLDDVWNKNYNYWSILSCPFGAGAPGSKIVVTTRNLDVANLTRAYPKYGLKELSDDDC 370
LL+LDDVW+ S A +I++TTR+ V + PKY
Sbjct: 245 LLILDDVWD---------SWVLKAFDSQCQILLTTRDKSVTDSVMG-PKY---------- 284
Query: 371 LRVVIQHSLGAT------GFSTNQSLKDVGEK---IAKKCKGLPLAAKTLGGLLRGKDDL 421
V ++ SLG N D+ E+ I K+CKG PL +G LLR D
Sbjct: 285 -VVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLR--DFP 341
Query: 422 TDWEFVLNTDIWKLQEENYGII------------PALRVSYHFLPSQLKQCFAYCSLFPK 469
WE+ L +LQ + + I A+ +S L +K + S+ K
Sbjct: 342 NRWEYYLK----QLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQK 397
Query: 470 DYEFQEEEIILLWTAEGFLDQEYNGRKMEDLGREFVRELHSRSLFQQSSRDASRFVMHDL 529
D + + + +LW E ++ED+ +EFV + LF + + R+ +HDL
Sbjct: 398 DVKVPTKVLCILWDME--------TEEVEDILQEFVNK---SLLFCDRNGKSFRYYLHDL 446
Query: 530 INDL 533
D
Sbjct: 447 QVDF 450
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 58/241 (24%), Positives = 95/241 (39%), Gaps = 53/241 (21%)
Query: 311 LLVLDDVWNKNYNYWSILSCPFGAGAPGSKIVVTTRNLDVANLTRAYPKY------GLKE 364
LL+LDDVW+ W + A +I++TTR+ V + PK+ GL
Sbjct: 239 LLILDDVWDP----WVL-----KAFDNQCQILLTTRDKSVTDSVMG-PKHVVPVESGLGR 288
Query: 365 LSDDDCLRVVIQHSLGATGFSTNQSLKDVGEKIAKKCKGLPLAAKTLGGLLRGKDDLTDW 424
+ L + + + L I K+CKG PL +G LLR D W
Sbjct: 289 EKGLEILSLFVNMK--------KEDLPAEAHSIIKECKGSPLVVSLIGALLR--DFPNRW 338
Query: 425 EFVLNTDIWKLQEENYGII------------PALRVSYHFLPSQLKQCFAYCSLFPKDYE 472
+ L +LQ + + I A+ +S L +K + S+ KD +
Sbjct: 339 AYYLR----QLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVK 394
Query: 473 FQEEEIILLWTAEGFLDQEYNGRKMEDLGREFVRELHSRSLFQQSSRDASRFVMHDLIND 532
+ + +LW E ++ED+ +EFV + LF + + + +HDL D
Sbjct: 395 VPTKVLCVLWDLE--------TEEVEDILQEFVNK---SLLFCNRNGKSFCYYLHDLQVD 443
Query: 533 L 533
Sbjct: 444 F 444
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 38.1 bits (87), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 38/152 (25%), Positives = 62/152 (40%), Gaps = 29/152 (19%)
Query: 394 GEKIAKKCKGLPLAAKTLGGLLRGKDDLTDWEFVLNTDIWKLQEENYGII---------- 443
I K+CKG PL +G LLR D W + L +LQ + + I
Sbjct: 317 AHSIIKECKGSPLVVSLIGALLR--DFPNRWAYYLR----QLQNKQFKRIRKSSSYDYEA 370
Query: 444 --PALRVSYHFLPSQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGFLDQEYNGRKMEDLG 501
A+ +S L +K + S+ KD + + + +LW E ++ED+
Sbjct: 371 LDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLE--------TEEVEDIL 422
Query: 502 REFVRELHSRSLFQQSSRDASRFVMHDLINDL 533
+EFV + LF + + + +HDL D
Sbjct: 423 QEFVNK---SLLFCNRNGKSFCYYLHDLQVDF 451
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 33.9 bits (76), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 39/88 (44%)
Query: 625 YCNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLENCWELKKLCKDMGN 684
+ I +LP I NL++L+ L + + + L +I+ L L + L C L+ G
Sbjct: 192 WTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGG 251
Query: 685 LTKLRHLRNSDAGLLEEMPKGFGKLTSL 712
L+ L D L +P +LT L
Sbjct: 252 RAPLKRLILKDCSNLLTLPLDIHRLTQL 279
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 33.9 bits (76), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 35/105 (33%), Positives = 47/105 (44%), Gaps = 17/105 (16%)
Query: 696 AGLLEEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELK-----SLTHLQGTLRISKLENVE 750
A L E+P G L L TL + V+ + L ++ SLTHL +LE
Sbjct: 287 ATHLSELPSG---LVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLE--- 340
Query: 751 DVGDACEAQLNNKVNLRTLLLDWSARDVQNLDQCEFETRVLSMLK 795
+G C L N NLR L D S D++ D C + R LS L+
Sbjct: 341 -LGTGC---LENLENLREL--DLSHDDIETSDCCNLQLRNLSHLQ 379
>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 = 32.3 bits (72), Expect = 1.5, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 2/78 (2%)
Query: 11 ASVQMLLEKLAPEGVELLTRHEKLKADFIKWKGMLEMIRAVLADAED--RRTKEKSVKMW 68
A++ L+ KL E H+ +K + LE A L + R + K+W
Sbjct: 1 AAISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESXNAALIKIGEVPREQLDSQDKLW 60
Query: 69 LDNLQNLAYDLEDILDEF 86
D ++ L+Y +ED++D+F
Sbjct: 61 ADEVRELSYVIEDVVDKF 78
>pdb|1K4U|S Chain S, Solution Structure Of The C-Terminal Sh3 Domain Of P67phox
Complexed With The C-Terminal Tail Region Of P47phox
Length = 62
Score = 32.0 bits (71), Expect = 1.9, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 28/43 (65%), Gaps = 2/43 (4%)
Query: 455 SQLKQCFAYCSLFPKDYEFQEEEIILLWTA--EGFLDQEYNGR 495
SQ++ F+Y + P+D EFQE +IIL+ + E +L+ E G+
Sbjct: 6 SQVEALFSYEATQPEDLEFQEGDIILVLSKVNEEWLEGESKGK 48
>pdb|3A8P|A Chain A, Crystal Structure Of The Tiam2 Phccex Domain
pdb|3A8P|B Chain B, Crystal Structure Of The Tiam2 Phccex Domain
pdb|3A8P|C Chain C, Crystal Structure Of The Tiam2 Phccex Domain
pdb|3A8P|D Chain D, Crystal Structure Of The Tiam2 Phccex Domain
pdb|3A8Q|A Chain A, Low-Resolution Crystal Structure Of The Tiam2 Phccex
Domain
pdb|3A8Q|B Chain B, Low-Resolution Crystal Structure Of The Tiam2 Phccex
Domain
pdb|3A8Q|C Chain C, Low-Resolution Crystal Structure Of The Tiam2 Phccex
Domain
pdb|3A8Q|D Chain D, Low-Resolution Crystal Structure Of The Tiam2 Phccex
Domain
Length = 263
Score = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 40 KWKGMLEMIRAVLADAEDRRTKEKSVKMWLDNLQNLAYDL 79
K K M E+ +V++D ++R+ E ++ W NL+ DL
Sbjct: 156 KMKKMAELQLSVVSDPKNRKAIENQIRQWEQNLEKFHMDL 195
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 0.136 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,759,763
Number of Sequences: 62578
Number of extensions: 1079679
Number of successful extensions: 2489
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 2466
Number of HSP's gapped (non-prelim): 35
length of query: 962
length of database: 14,973,337
effective HSP length: 108
effective length of query: 854
effective length of database: 8,214,913
effective search space: 7015535702
effective search space used: 7015535702
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)