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= 045012
(576 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 = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 59/232 (25%), Positives = 102/232 (43%), Gaps = 39/232 (16%)
Query: 270 VLDDVWNENYNSWCTLSCPFGAGASGSKIVVTHRNQDVAATMRAVSGKTLKE--LSDDDC 327
+LDDVW+ SW A S +I++T R++ V ++ E L +
Sbjct: 241 ILDDVWD----SWV-----LKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKG 291
Query: 328 LRVLIQHSLGAGVFNIRQS-LKEVAEKIAKKCKGLPLAAKTLGGLLSVKDDLNDWEFVL- 385
L +L + N++++ L E A I K+CKG PL +G LL +D N WE+ L
Sbjct: 292 LEIL------SLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALL--RDFPNRWEYYLK 343
Query: 386 ---NTNLWDLQE----DKCDIVPALRVSYHFLPPQLKRCFAYCSLFPKDYEFQEEEIILL 438
N +++ D + A+ +S L +K + S+ KD + + + +L
Sbjct: 344 QLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCIL 403
Query: 439 WAAEGFLHQENSGRKMEDLGRKFVRELHSRSLFQQSSKDASRFVMHDLINDL 490
W E ++ED+ ++FV + LF + + R+ +HDL D
Sbjct: 404 WDME--------TEEVEDILQEFVNK---SLLFCDRNGKSFRYYLHDLQVDF 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 = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 59/232 (25%), Positives = 102/232 (43%), Gaps = 39/232 (16%)
Query: 270 VLDDVWNENYNSWCTLSCPFGAGASGSKIVVTHRNQDVAATMRAVSGKTLKE--LSDDDC 327
+LDDVW+ SW A S +I++T R++ V ++ E L +
Sbjct: 247 ILDDVWD----SWV-----LKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKG 297
Query: 328 LRVLIQHSLGAGVFNIRQS-LKEVAEKIAKKCKGLPLAAKTLGGLLSVKDDLNDWEFVL- 385
L +L + N++++ L E A I K+CKG PL +G LL +D N WE+ L
Sbjct: 298 LEIL------SLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALL--RDFPNRWEYYLK 349
Query: 386 ---NTNLWDLQE----DKCDIVPALRVSYHFLPPQLKRCFAYCSLFPKDYEFQEEEIILL 438
N +++ D + A+ +S L +K + S+ KD + + + +L
Sbjct: 350 QLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCIL 409
Query: 439 WAAEGFLHQENSGRKMEDLGRKFVRELHSRSLFQQSSKDASRFVMHDLINDL 490
W E ++ED+ ++FV + LF + + R+ +HDL D
Sbjct: 410 WDME--------TEEVEDILQEFVNK---SLLFCDRNGKSFRYYLHDLQVDF 450
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 36.6 bits (83), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 67/155 (43%), Gaps = 21/155 (13%)
Query: 344 RQSLKEVAEKIAKKCKGLPLAAKTLGGLLSVKDDLNDWEFVL----NTNLWDLQE----D 395
++ L A I K+CKG PL +G LL +D N W + L N +++ D
Sbjct: 303 KEDLPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAYYLRQLQNKQFKRIRKSSSYD 360
Query: 396 KCDIVPALRVSYHFLPPQLKRCFAYCSLFPKDYEFQEEEIILLWAAEGFLHQENSGRKME 455
+ A+ +S L +K + S+ KD + + + +LW E ++E
Sbjct: 361 YEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLE--------TEEVE 412
Query: 456 DLGRKFVRELHSRSLFQQSSKDASRFVMHDLINDL 490
D+ ++FV + LF + + + +HDL D
Sbjct: 413 DILQEFVNK---SLLFCNRNGKSFCYYLHDLQVDF 444
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 36.2 bits (82), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 67/155 (43%), Gaps = 21/155 (13%)
Query: 344 RQSLKEVAEKIAKKCKGLPLAAKTLGGLLSVKDDLNDWEFVL----NTNLWDLQE----D 395
++ L A I K+CKG PL +G LL +D N W + L N +++ D
Sbjct: 310 KEDLPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAYYLRQLQNKQFKRIRKSSSYD 367
Query: 396 KCDIVPALRVSYHFLPPQLKRCFAYCSLFPKDYEFQEEEIILLWAAEGFLHQENSGRKME 455
+ A+ +S L +K + S+ KD + + + +LW E ++E
Sbjct: 368 YEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLE--------TEEVE 419
Query: 456 DLGRKFVRELHSRSLFQQSSKDASRFVMHDLINDL 490
D+ ++FV + LF + + + +HDL D
Sbjct: 420 DILQEFVNK---SLLFCNRNGKSFCYYLHDLQVDF 451
>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 = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 4/78 (5%)
Query: 10 ASFELLIKKLASL--ELFTQHEKLKAGFLKWKDNMEMIQAVLADADD--RQTNDKSVKKW 65
A+ LI KL L E F H+ +K +E A L + R+ D K W
Sbjct: 1 AAISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESXNAALIKIGEVPREQLDSQDKLW 60
Query: 66 LDMLQNLAYDVEDILDEF 83
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 = 29.3 bits (64), Expect = 5.5, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 27/42 (64%), Gaps = 2/42 (4%)
Query: 413 QLKRCFAYCSLFPKDYEFQEEEIILLWAA--EGFLHQENSGR 452
Q++ F+Y + P+D EFQE +IIL+ + E +L E+ G+
Sbjct: 7 QVEALFSYEATQPEDLEFQEGDIILVLSKVNEEWLEGESKGK 48
>pdb|1EOV|A Chain A, Free Aspartyl-Trna Synthetase (Asprs) (E.C. 6.1.1.12) From
Yeast
Length = 487
Score = 28.9 bits (63), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 43/85 (50%), Gaps = 2/85 (2%)
Query: 15 LIKKLASLELFTQHEKLKAGFLKWKDNMEMIQAVLADADDRQTNDKSVKKWLDMLQNLAY 74
L++K +E F + K L +K+ +EM++A + D + +K+L L Y
Sbjct: 309 LVRKQYPVEEFKLPKDGKMVRLTYKEGIEMLRAAGKEIGDFEDLSTENEKFLGKLVRDKY 368
Query: 75 DVE-DILDEFETEALRRNFLLQEPA 98
D + ILD+F E +R + + +PA
Sbjct: 369 DTDFYILDKFPLE-IRPFYTMPDPA 392
>pdb|1ASY|A Chain A, Class Ii Aminoacyl Transfer Rna Synthetases: Crystal
Structure Of Yeast Aspartyl-Trna Synthetase Complexed
With Trna Asp
pdb|1ASY|B Chain B, Class Ii Aminoacyl Transfer Rna Synthetases: Crystal
Structure Of Yeast Aspartyl-Trna Synthetase Complexed
With Trna Asp
pdb|1ASZ|A Chain A, The Active Site Of Yeast Aspartyl-Trna Synthetase:
Structural And Functional Aspects Of The Aminoacylation
Reaction
pdb|1ASZ|B Chain B, The Active Site Of Yeast Aspartyl-Trna Synthetase:
Structural And Functional Aspects Of The Aminoacylation
Reaction
Length = 490
Score = 28.9 bits (63), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 43/85 (50%), Gaps = 2/85 (2%)
Query: 15 LIKKLASLELFTQHEKLKAGFLKWKDNMEMIQAVLADADDRQTNDKSVKKWLDMLQNLAY 74
L++K +E F + K L +K+ +EM++A + D + +K+L L Y
Sbjct: 312 LVRKQYPVEEFKLPKDGKMVRLTYKEGIEMLRAAGKEIGDFEDLSTENEKFLGKLVRDKY 371
Query: 75 DVE-DILDEFETEALRRNFLLQEPA 98
D + ILD+F E +R + + +PA
Sbjct: 372 DTDFYILDKFPLE-IRPFYTMPDPA 395
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 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,131,794
Number of Sequences: 62578
Number of extensions: 641404
Number of successful extensions: 1550
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1543
Number of HSP's gapped (non-prelim): 14
length of query: 576
length of database: 14,973,337
effective HSP length: 104
effective length of query: 472
effective length of database: 8,465,225
effective search space: 3995586200
effective search space used: 3995586200
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: 54 (25.4 bits)