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= 030907
(169 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AQ7|A Chain A, Ternary Complex Of E. Coli Leucyl-Trna Synthetase,
Trna(Leu) And Leucyl-Adenylate Analogue In The
Aminoacylation Conformation
pdb|4AQ7|D Chain D, Ternary Complex Of E. Coli Leucyl-Trna Synthetase,
Trna(Leu) And Leucyl-Adenylate Analogue In The
Aminoacylation Conformation
pdb|4ARC|A Chain A, Ternary Complex Of E. Coli Leucyl-Trna Synthetase,
Trna(Leu) And Leucine In The Editing Conformation
pdb|4ARI|A Chain A, Ternary Complex Of E. Coli Leucyl-Trna Synthetase,
Trna(Leu) And The Benzoxaborole An2679 In The Editing
Conformation
pdb|4AS1|A Chain A, Ternary Complex Of E. Coli Leucyl-Trna Synthetase,
Trna(Leu) And The Benzoxaborole An2679 In The Editing
Conformation
pdb|3ZGZ|A Chain A, Ternary Complex Of E. Coli Leucyl-trna Synthetase,
Trna(leu) And Toxic Moiety From Agrocin 84 (tm84) In
Aminoacylation- Like Conformation
pdb|3ZGZ|D Chain D, Ternary Complex Of E. Coli Leucyl-trna Synthetase,
Trna(leu) And Toxic Moiety From Agrocin 84 (tm84) In
Aminoacylation- Like Conformation
Length = 880
Score = 28.1 bits (61), Expect = 2.4, Method: Composition-based stats.
Identities = 24/94 (25%), Positives = 39/94 (41%), Gaps = 15/94 (15%)
Query: 40 GIAQANHRITTRMQRRIYGHATGGEIRPLNEE--------------KAVQAAVDLIGEIF 85
G+ AN R R+ + +Y H G++ LN + K + D IG
Sbjct: 682 GVEGAN-RFLKRVWKLVYEHTAKGDVAALNVDALTENQKALRRDVHKTIAKVTDDIGRRQ 740
Query: 86 IFTVAGAAVIFEVQRSARSEARKEEIRKQELEAL 119
F A AA++ + + A++ E+ R EAL
Sbjct: 741 TFNTAIAAIMELMNKLAKAPTDGEQDRALMQEAL 774
>pdb|3BEZ|A Chain A, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Semet Crystals
pdb|3BEZ|B Chain B, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Semet Crystals
pdb|3BEZ|C Chain C, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Semet Crystals
pdb|3BEZ|D Chain D, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Semet Crystals
Length = 593
Score = 26.6 bits (57), Expect = 6.4, Method: Composition-based stats.
Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 7/86 (8%)
Query: 15 TLSKPVAAKLKQQAAIHPRFRQSIVGIAQANHRITTRMQRRIYGHATGGEIRPLNEEKAV 74
T + P A+L Q +I +++ I +A A H ++ + GH G ++
Sbjct: 441 TRALPPEAQLXXQLSIENGYKRFITLVADARHSTPEQIDKIAQGHVWTG------QDAKA 494
Query: 75 QAAVDLIGEIFIFTVAGAAVIFEVQR 100
VD +G+ F VA AA + +V++
Sbjct: 495 NGLVDSLGD-FDDAVAKAAELAKVKQ 519
>pdb|3BBO|Z Chain Z, Homology Model For The Spinach Chloroplast 50s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 173
Score = 26.6 bits (57), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 9/57 (15%)
Query: 64 EIRPLNEEKAVQAAVDLIGEIFIFTVAGAAVIFEVQRSARSEARKEEIRKQELEALR 120
EIR E+ + VDL GE+F+ +Q+SAR+E + + R+ + + R
Sbjct: 69 EIRSKTTEQLQEEVVDLKGELFML---------RLQKSARNEFKSSDFRRMKKQVAR 116
>pdb|3BF0|A Chain A, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Native Crystals
pdb|3BF0|B Chain B, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Native Crystals
pdb|3BF0|C Chain C, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Native Crystals
pdb|3BF0|D Chain D, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Native Crystals
Length = 593
Score = 26.6 bits (57), Expect = 7.0, Method: Composition-based stats.
Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 7/86 (8%)
Query: 15 TLSKPVAAKLKQQAAIHPRFRQSIVGIAQANHRITTRMQRRIYGHATGGEIRPLNEEKAV 74
T + P A+L Q +I +++ I +A A H ++ + GH G ++
Sbjct: 441 TRALPPEAQLMMQLSIENGYKRFITLVADARHSTPEQIDKIAQGHVWTG------QDAKA 494
Query: 75 QAAVDLIGEIFIFTVAGAAVIFEVQR 100
VD +G+ F VA AA + +V++
Sbjct: 495 NGLVDSLGD-FDDAVAKAAELAKVKQ 519
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 0.133 0.351
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,921,128
Number of Sequences: 62578
Number of extensions: 130248
Number of successful extensions: 528
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 510
Number of HSP's gapped (non-prelim): 27
length of query: 169
length of database: 14,973,337
effective HSP length: 92
effective length of query: 77
effective length of database: 9,216,161
effective search space: 709644397
effective search space used: 709644397
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)