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= 002554
(908 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1
Length = 130
Score = 76.3 bits (186), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 48/123 (39%), Positives = 75/123 (60%), Gaps = 10/123 (8%)
Query: 358 LFEKMLSASDAGRIGRLVLPKKCAEAYFP-PISQ--PEGLPLKVQDSKGKEWIFQFRFWP 414
LFEK ++ SD G++ RLV+PK AE +FP P S +G+ L +D GK W F++ +W
Sbjct: 13 LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYW- 71
Query: 415 NNNSRMYVL-EGVTPCIQNMQLQAGDIVTFSRLEPEG-KLVMGFRKASSASASDQDNEAN 472
N+S+ YVL +G + ++ L+AGD+V+FSR + +L +G++ S S SD D
Sbjct: 72 -NSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWK---SRSGSDLDASGP 127
Query: 473 KAG 475
+G
Sbjct: 128 SSG 130
>pdb|2L7P|A Chain A, Ashh2 A Cw Domain
Length = 100
Score = 45.8 bits (107), Expect = 1e-04, Method: Composition-based stats.
Identities = 27/81 (33%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 585 DNVGEKIQWVQCEDCSKWRKVPANA----RLPSKWTCSGNLWDPERSVCSVAQELREEQL 640
D+ + WV+C+DC KWR++PA+ S+W C N D + CS +QE+ E++
Sbjct: 20 DSYSTESAWVRCDDCFKWRRIPASVVGSIDESSRWICMNNS-DKRFADCSKSQEMSNEEI 78
Query: 641 -EDLIAPNNPASSKKLKAAKQ 660
E+L + A + AAK+
Sbjct: 79 NEELGIGQDEADAYDCDAAKR 99
>pdb|1Z2L|A Chain A, Crystal Structure Of Allantoate-Amidohydrolase From E.Coli
K12 In Complex With Substrate Allantoate
pdb|1Z2L|B Chain B, Crystal Structure Of Allantoate-Amidohydrolase From E.Coli
K12 In Complex With Substrate Allantoate
Length = 423
Score = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 826 SPGSD-SGSMIRLLQDATEKYLRQQ---RLSSSGVNTSSVDNEGLQGGVTGEKISNGITL 881
S G+D +G M RLL +QQ R+++SG+ T + L G + G + + L
Sbjct: 20 SFGADPAGGMTRLLYSPEWLETQQQFKKRMAASGLETRFDEVGNLYGRLNGTEYPQEVVL 79
Query: 882 DGSHQDT 888
GSH DT
Sbjct: 80 SGSHIDT 86
>pdb|3LQ2|A Chain A, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
With Low Tdp Concentration
pdb|3LQ2|B Chain B, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
With Low Tdp Concentration
pdb|3LQ4|A Chain A, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
With High Tdp Concentration
pdb|3LQ4|B Chain B, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
With High Tdp Concentration
Length = 886
Score = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 170 SSIPQPELRPRLPYEVDLSAGIDRINASERLS-VPSLEKRKLEDFSERLMNGGLKSGSRD 228
SS P P+L P +S G+ I A + + LE R L+D S++ + L G D
Sbjct: 175 SSYPHPKLMPEFWQFPTVSMGLGPIGAIYQAKFLKYLEHRGLKDTSKQTVYAFLGDGEMD 234
Query: 229 IPENANA 235
PE+ A
Sbjct: 235 APESKGA 241
>pdb|2QTA|A Chain A, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
With Thiamin Diphosphate
pdb|2QTA|B Chain B, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
With Thiamin Diphosphate
pdb|2QTC|A Chain A, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
With Phosphonolactylthiamin Diphosphate
pdb|2QTC|B Chain B, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
With Phosphonolactylthiamin Diphosphate
Length = 886
Score = 29.6 bits (65), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 170 SSIPQPELRPRLPYEVDLSAGIDRINASERLS-VPSLEKRKLEDFSERLMNGGLKSGSRD 228
SS P P+L P +S G+ I A + + LE R L+D S++ + L G D
Sbjct: 175 SSYPHPKLMPEFWQFPTVSMGLGPIGAIYQAKFLKYLEHRGLKDTSKQTVYAFLGDGEMD 234
Query: 229 IPENANA 235
PE+ A
Sbjct: 235 EPESKGA 241
>pdb|3LPL|A Chain A, E. Coli Pyruvate Dehydrogenase Complex E1 Component E571a
Mutant
pdb|3LPL|B Chain B, E. Coli Pyruvate Dehydrogenase Complex E1 Component E571a
Mutant
Length = 886
Score = 29.6 bits (65), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 170 SSIPQPELRPRLPYEVDLSAGIDRINASERLS-VPSLEKRKLEDFSERLMNGGLKSGSRD 228
SS P P+L P +S G+ I A + + LE R L+D S++ + L G D
Sbjct: 175 SSYPHPKLMPEFWQFPTVSMGLGPIGAIYQAKFLKYLEHRGLKDTSKQTVYAFLGDGEMD 234
Query: 229 IPENANA 235
PE+ A
Sbjct: 235 EPESKGA 241
>pdb|1L8A|A Chain A, E. Coli Pyruvate Dehydrogenase
pdb|1L8A|B Chain B, E. Coli Pyruvate Dehydrogenase
pdb|1RP7|A Chain A, E. Coli Pyruvate Dehydrogenase Inhibitor Complex
pdb|1RP7|B Chain B, E. Coli Pyruvate Dehydrogenase Inhibitor Complex
pdb|2G25|A Chain A, E. Coli Pyruvate Dehydrogenase Phosphonolactylthiamin
Diphosphate Complex
pdb|2G25|B Chain B, E. Coli Pyruvate Dehydrogenase Phosphonolactylthiamin
Diphosphate Complex
pdb|2G28|A Chain A, E. Coli Pyruvate Dehydrogenase H407a Variant
Phosphonolactylthiamin Diphosphate Complex
pdb|2G28|B Chain B, E. Coli Pyruvate Dehydrogenase H407a Variant
Phosphonolactylthiamin Diphosphate Complex
pdb|2G67|A Chain A, E. Coli Pyruvate Dehydrogenase E1 Component (Apoenzyme)
pdb|2G67|B Chain B, E. Coli Pyruvate Dehydrogenase E1 Component (Apoenzyme)
pdb|2IEA|A Chain A, E. Coli Pyruvate Dehydrogenase
pdb|2IEA|B Chain B, E. Coli Pyruvate Dehydrogenase
Length = 886
Score = 29.6 bits (65), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 170 SSIPQPELRPRLPYEVDLSAGIDRINASERLS-VPSLEKRKLEDFSERLMNGGLKSGSRD 228
SS P P+L P +S G+ I A + + LE R L+D S++ + L G D
Sbjct: 175 SSYPHPKLMPEFWQFPTVSMGLGPIGAIYQAKFLKYLEHRGLKDTSKQTVYAFLGDGEMD 234
Query: 229 IPENANA 235
PE+ A
Sbjct: 235 EPESKGA 241
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
0.314 0.131 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,664,109
Number of Sequences: 62578
Number of extensions: 1178609
Number of successful extensions: 2238
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 2234
Number of HSP's gapped (non-prelim): 10
length of query: 908
length of database: 14,973,337
effective HSP length: 108
effective length of query: 800
effective length of database: 8,214,913
effective search space: 6571930400
effective search space used: 6571930400
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (26.2 bits)