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= 041007
(597 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 55/119 (46%), Gaps = 23/119 (19%)
Query: 293 KVLLVLDDLWWNAYPRYWEQLMYSLKSGSEGSRILVTRSGGKNGTNMTEIGLGEKNGTNM 352
+ LL+LDD+W P + LK+ +IL+T S ++T+ +G K+ +
Sbjct: 244 RSLLILDDVW---DP-------WVLKAFDNQCQILLTTSD----KSVTDSVMGPKHVVPV 289
Query: 353 MEIGLGELSEEECRSLFRQIAFHGRSSDYREKFEPIGRRVVGKCKGLPFAVKILGSLLR 411
E GLG E SLF + +E ++ +CKG P V ++G+LLR
Sbjct: 290 -ESGLGREKGLEILSLFVNMK--------KEDLPAEAHSIIKECKGSPLVVSLIGALLR 339
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 35.4 bits (80), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 33/119 (27%), Positives = 54/119 (45%), Gaps = 23/119 (19%)
Query: 293 KVLLVLDDLWWNAYPRYWEQLMYSLKSGSEGSRILVTRSGGKNGTNMTEIGLGEKNGTNM 352
+ LL+LDD+W P + LK+ +IL+T ++T+ +G K+ +
Sbjct: 237 RSLLILDDVW---DP-------WVLKAFDNQCQILLT----TRDKSVTDSVMGPKHVVPV 282
Query: 353 MEIGLGELSEEECRSLFRQIAFHGRSSDYREKFEPIGRRVVGKCKGLPFAVKILGSLLR 411
E GLG E SLF + +E ++ +CKG P V ++G+LLR
Sbjct: 283 -ESGLGREKGLEILSLFVNMK--------KEDLPAEAHSIIKECKGSPLVVSLIGALLR 332
>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 = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 48/191 (25%), Positives = 80/191 (41%), Gaps = 26/191 (13%)
Query: 295 LLVLDDLWWNAYPRYWEQLMYSLKSGSEGSRILVTRSGGKNGTNMTEIGLGEKNGTNMME 354
LL+LDD+W + + LK+ +IL+T ++T+ +G K + E
Sbjct: 239 LLILDDVWDS----------WVLKAFDSQCQILLT----TRDKSVTDSVMGPKYVVPV-E 283
Query: 355 IGLGELSEEECRSLFRQIAFHGRSSDYREKFEPIGRRVVGKCKGLPFAVKILGSLLRFKT 414
LG+ E SLF + + +D E+ ++ +CKG P V ++G+LLR
Sbjct: 284 SSLGKEKGLEILSLFVNM----KKADLPEQ----AHSIIKECKGSPLVVSLIGALLR--D 333
Query: 415 SIKEWQSVLDSEIWNLDSEICKRAGVGYECLSPLL-LSYFDLSPALKKCFLYCSIFPKNY 473
W+ L I K + YE L + +S L +K + SI K+
Sbjct: 334 FPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDV 393
Query: 474 EIEKDRLIKLW 484
++ L LW
Sbjct: 394 KVPTKVLCILW 404
>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 = 32.7 bits (73), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 48/191 (25%), Positives = 80/191 (41%), Gaps = 26/191 (13%)
Query: 295 LLVLDDLWWNAYPRYWEQLMYSLKSGSEGSRILVTRSGGKNGTNMTEIGLGEKNGTNMME 354
LL+LDD+W + + LK+ +IL+T ++T+ +G K + E
Sbjct: 245 LLILDDVWDS----------WVLKAFDSQCQILLT----TRDKSVTDSVMGPKYVVPV-E 289
Query: 355 IGLGELSEEECRSLFRQIAFHGRSSDYREKFEPIGRRVVGKCKGLPFAVKILGSLLRFKT 414
LG+ E SLF + + +D E+ ++ +CKG P V ++G+LLR
Sbjct: 290 SSLGKEKGLEILSLFVNM----KKADLPEQ----AHSIIKECKGSPLVVSLIGALLR--D 339
Query: 415 SIKEWQSVLDSEIWNLDSEICKRAGVGYECLSPLL-LSYFDLSPALKKCFLYCSIFPKNY 473
W+ L I K + YE L + +S L +K + SI K+
Sbjct: 340 FPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDV 399
Query: 474 EIEKDRLIKLW 484
++ L LW
Sbjct: 400 KVPTKVLCILW 410
>pdb|3EYA|A Chain A, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|B Chain B, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|C Chain C, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|D Chain D, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|E Chain E, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|F Chain F, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|G Chain G, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|H Chain H, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|I Chain I, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|J Chain J, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|K Chain K, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|L Chain L, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
Length = 549
Score = 29.6 bits (65), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 45 IREVLDDAEKRQVKDVKDKAVEDWLRELTDTCYAVDDALDEWNTAIQKLLLANETDHKAS 104
+R +L E++ + DKA+ED+ D +DD AI LA + H A+
Sbjct: 316 LRALLPLVEEKADRKFLDKALEDY----RDARKGLDDLAKPSEKAIHPQYLAQQISHFAA 371
Query: 105 KVRSFTC 111
FTC
Sbjct: 372 DDAIFTC 378
>pdb|3EY9|A Chain A, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EY9|B Chain B, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
Length = 572
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 45 IREVLDDAEKRQVKDVKDKAVEDWLRELTDTCYAVDDALDEWNTAIQKLLLANETDHKAS 104
+R +L E++ + DKA+ED+ D +DD AI LA + H A+
Sbjct: 316 LRALLPLVEEKADRKFLDKALEDY----RDARKGLDDLAKPSEKAIHPQYLAQQISHFAA 371
Query: 105 KVRSFTC 111
FTC
Sbjct: 372 DDAIFTC 378
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
0.319 0.135 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,025,853
Number of Sequences: 62578
Number of extensions: 696457
Number of successful extensions: 1940
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1934
Number of HSP's gapped (non-prelim): 13
length of query: 597
length of database: 14,973,337
effective HSP length: 104
effective length of query: 493
effective length of database: 8,465,225
effective search space: 4173355925
effective search space used: 4173355925
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)