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= psy1126
(93 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZYA|A Chain A, Dimeric 6-Phosphogluconate Dehydrogenase Complexed With 6-
Phosphogluconate
pdb|2ZYA|B Chain B, Dimeric 6-Phosphogluconate Dehydrogenase Complexed With 6-
Phosphogluconate
pdb|2ZYD|A Chain A, Dimeric 6-Phosphogluconate Dehydrogenase Complexed With
Glucose
pdb|2ZYD|B Chain B, Dimeric 6-Phosphogluconate Dehydrogenase Complexed With
Glucose
Length = 480
Score = 30.4 bits (67), Expect = 0.25, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 11/59 (18%)
Query: 4 IAEDFKEVIKENVTEAVKNATAKIPATPEGMAVAYGSLVAMALLPI--------FFGAH 54
IA+D+++ +++ V AV+N IP AVAY A+LP +FGAH
Sbjct: 408 IADDYQQALRDVVAYAVQNG---IPVPTFSAAVAYYDSYRAAVLPANLIQAQRDYFGAH 463
>pdb|2ZYG|A Chain A, Apo-Form Of Dimeric 6-Phosphogluconate Dehydrogenase
pdb|2ZYG|B Chain B, Apo-Form Of Dimeric 6-Phosphogluconate Dehydrogenase
Length = 480
Score = 30.0 bits (66), Expect = 0.38, Method: Composition-based stats.
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 14/70 (20%)
Query: 4 IAEDFKEVIKENVTEAVKNATAKIPATPEGMAVAYGSLVAMALLPI--------FFGAHR 55
IA+D+++ +++ V AV+N IP A+AY A+LP +FGAH
Sbjct: 408 IADDYQQALRDVVAYAVQNG---IPVPTFSAAIAYYDSYRSAVLPANLIQAQRDYFGAH- 463
Query: 56 SVKYHKNQKQ 65
Y + K+
Sbjct: 464 --TYKRTDKE 471
>pdb|1WOY|A Chain A, Crystal Structure Of Methionyl Trna Synthetase Y225f
Mutant From Thermus Thermophilus
pdb|2D5B|A Chain A, Crystal Structure Of Thermus Thermophilus Methionyl Trna
Synthetase Y225f Mutant Obtained In The Presence Of
Peg6000
Length = 500
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 2 ADIAEDFKEVIKENVTEAVKNATAKIPATPEGMAVAYGSLVAMALLPIFFGAHRSVKYH 60
AD+A+D +++ + A +IP G +A G+ +A L P+ R +K+H
Sbjct: 347 ADLADDLGNLVQRTRAMLFRFAEGRIPEPVAGEELAEGTGLAGRLRPLV----RELKFH 401
>pdb|1A8H|A Chain A, Methionyl-Trna Synthetase From Thermus Thermophilus
Length = 500
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 2 ADIAEDFKEVIKENVTEAVKNATAKIPATPEGMAVAYGSLVAMALLPIFFGAHRSVKYH 60
AD+A+D +++ + A +IP G +A G+ +A L P+ R +K+H
Sbjct: 347 ADLADDLGNLVQRTRAMLFRFAEGRIPEPVAGEELAEGTGLAGRLRPLV----RELKFH 401
>pdb|2D54|A Chain A, Crystal Structure Of Methionyl Trna Synthetase Y225a
Mutant From Thermus Thermophilus
Length = 502
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 2 ADIAEDFKEVIKENVTEAVKNATAKIPATPEGMAVAYGSLVAMALLPIFFGAHRSVKYH 60
AD+A+D +++ + A +IP G +A G+ +A L P+ R +K+H
Sbjct: 347 ADLADDLGNLVQRTRAMLFRFAEGRIPEPVAGEELAEGTGLAGRLRPLV----RELKFH 401
>pdb|1RP3|A Chain A, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma
Complex, Sigma-28FLGM
pdb|1RP3|C Chain C, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma
Complex, Sigma-28FLGM
pdb|1RP3|E Chain E, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma
Complex, Sigma-28FLGM
pdb|1RP3|G Chain G, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma
Complex, Sigma-28FLGM
pdb|1SC5|A Chain A, Sigma-28(Flia)FLGM COMPLEX
Length = 239
Score = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 9 KEVIKENVTEAVKNATAKIP 28
+EVIK +TE VK A +K+P
Sbjct: 170 EEVIKRELTEKVKEAVSKLP 189
>pdb|1XKS|A Chain A, The Crystal Structure Of The N-Terminal Domain Of Nup133
Reveals A Beta-Propeller Fold Common To Several
Nucleoporins
Length = 450
Score = 26.2 bits (56), Expect = 5.6, Method: Composition-based stats.
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 7 DFKEVIKENVTEAVKNATAKIPATPEGMAVAY 38
D +KEN+T+A+ + + A EG+ + Y
Sbjct: 247 DINRALKENITDAIWGSESNYEAIKEGVNIRY 278
>pdb|4DNA|A Chain A, Crystal Structure Of Putative Glutathione Reductase From
Sinorhizobium Meliloti 1021
pdb|4DNA|B Chain B, Crystal Structure Of Putative Glutathione Reductase From
Sinorhizobium Meliloti 1021
Length = 463
Score = 25.8 bits (55), Expect = 6.6, Method: Composition-based stats.
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 22 NATAKIPATPEGMAVAYGSLVAMALLPIFFG 52
N +PA PE + +A G +A+ IF G
Sbjct: 161 NEAFDLPALPESILIAGGGYIAVEFANIFHG 191
>pdb|3L9T|A Chain A, The Crystal Structure Of Smu.31 From Streptococcus Mutans
Ua159
Length = 240
Score = 25.4 bits (54), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 9/28 (32%), Positives = 19/28 (67%)
Query: 1 MADIAEDFKEVIKENVTEAVKNATAKIP 28
+AD+ ED E ++++V A+++ + K P
Sbjct: 183 IADLKEDVSEYVRKSVGNALRDISKKFP 210
>pdb|1UJN|A Chain A, Crystal Structure Of Dehydroquinate Synthase From Thermus
Thermophilus Hb8
pdb|1UJN|B Chain B, Crystal Structure Of Dehydroquinate Synthase From Thermus
Thermophilus Hb8
Length = 348
Score = 25.4 bits (54), Expect = 9.0, Method: Composition-based stats.
Identities = 12/18 (66%), Positives = 12/18 (66%)
Query: 29 ATPEGMAVAYGSLVAMAL 46
A P GMAVAYG L A L
Sbjct: 244 ALPHGMAVAYGLLYAALL 261
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
0.318 0.129 0.365
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,456,381
Number of Sequences: 62578
Number of extensions: 73405
Number of successful extensions: 218
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 213
Number of HSP's gapped (non-prelim): 12
length of query: 93
length of database: 14,973,337
effective HSP length: 60
effective length of query: 33
effective length of database: 11,218,657
effective search space: 370215681
effective search space used: 370215681
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)