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= psy1520
(107 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ZIU|A Chain A, Crystal Structure Of Mycoplasma Mobile Leucyl-trna
Synthetase With Leu-ams In The Active Site
pdb|3ZIU|B Chain B, Crystal Structure Of Mycoplasma Mobile Leucyl-trna
Synthetase With Leu-ams In The Active Site
Length = 637
Score = 80.1 bits (196), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 36/70 (51%), Positives = 50/70 (71%), Gaps = 2/70 (2%)
Query: 33 WLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMIMGQTYRE--KT 90
WLPVD+YIGG+EHAVLHL YARF L+ P +EPF++L+ QGMI+G+ ++ K+
Sbjct: 355 WLPVDLYIGGQEHAVLHLLYARFWHKILYDLKIVPTKEPFQKLINQGMILGKDGQKMSKS 414
Query: 91 SGKYLKPDEV 100
G + PDE+
Sbjct: 415 LGNVVNPDEI 424
>pdb|2V0C|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Sulphamoyl Analogue Of Leucyl-Adenylate In The
Synthetic Site And An Adduct Of Amp With 5-Fluoro-1,3-
Dihydro-1-Hydroxy-2,1-Benzoxaborole (An2690) In The
Editing Site
Length = 878
Score = 77.4 bits (189), Expect = 2e-15, Method: Composition-based stats.
Identities = 34/66 (51%), Positives = 42/66 (63%)
Query: 20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
N + F+ +KA W+PVD YIGG EHAVLHL Y+RF FLH G EPF+ L QG
Sbjct: 516 NDRLPFDPEKANAWMPVDQYIGGVEHAVLHLLYSRFFTKFLHDLGMVKVEEPFQGLFTQG 575
Query: 80 MIMGQT 85
M++ T
Sbjct: 576 MVLAWT 581
>pdb|1OBH|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Pre-Transfer Editing Substrate Analogue In Both
Synthetic Active Site And Editing Site
pdb|2BTE|A Chain A, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
With A Trnaleu Transcript In The Post-Editing
Conformation And A Post-Transfer Editing Substrate
Analogue
pdb|2BTE|D Chain D, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
With A Trnaleu Transcript In The Post-Editing
Conformation And A Post-Transfer Editing Substrate
Analogue
pdb|2BYT|A Chain A, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
A Trnaleu Transcript In The Post-Editing Conformation
pdb|2BYT|D Chain D, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
A Trnaleu Transcript In The Post-Editing Conformation
pdb|1H3N|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Sulphamoyl Analogue Of Leucyl-Adenylate
pdb|1OBC|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Post-Transfer Editing Substrate Analogue
pdb|2V0G|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Trna(Leu) Transcript With 5-Fluoro-1,3-Dihydro-1-
Hydroxy-2,1-Benzoxaborole (An2690) Forming An Adduct To
The Ribose Of Adenosine-76 In The Enzyme Editing Site.
pdb|2V0G|D Chain D, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Trna(Leu) Transcript With 5-Fluoro-1,3-Dihydro-1-
Hydroxy-2,1-Benzoxaborole (An2690) Forming An Adduct To
The Ribose Of Adenosine-76 In The Enzyme Editing Site
Length = 878
Score = 77.0 bits (188), Expect = 2e-15, Method: Composition-based stats.
Identities = 34/66 (51%), Positives = 42/66 (63%)
Query: 20 NAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQG 79
N + F+ +KA W+PVD YIGG EHAVLHL Y+RF FLH G EPF+ L QG
Sbjct: 516 NDRLPFDPEKANAWMPVDQYIGGVEHAVLHLLYSRFFTKFLHDLGMVKVEEPFQGLFTQG 575
Query: 80 MIMGQT 85
M++ T
Sbjct: 576 MVLAWT 581
>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 = 68.2 bits (165), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 29/65 (44%), Positives = 40/65 (61%)
Query: 22 EVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQGKTPAREPFKRLLVQGMI 81
E +++ A WLPVDIYIGG EHA++HL Y RF + G + EP K+LL QGM+
Sbjct: 530 EGMLDSEAANYWLPVDIYIGGIEHAIMHLLYFRFFHKLMRDAGMVNSDEPAKQLLCQGMV 589
Query: 82 MGQTY 86
+ +
Sbjct: 590 LADAF 594
>pdb|4AE0|A Chain A, Crystal Structure Of Diphtheria Toxin Mutant Crm197
pdb|4AE1|A Chain A, Crystal Structure Of Diphtheria Toxin Mutant Crm197 In
Complex With Nicotinamide
pdb|4AE1|B Chain B, Crystal Structure Of Diphtheria Toxin Mutant Crm197 In
Complex With Nicotinamide
Length = 535
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 6/53 (11%)
Query: 11 KTKTKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQ 63
K + + R I+ +V+F K+ +Y+G HA LH+ + R + +H+
Sbjct: 456 KIRMRCRAIDGDVTFCRPKSP------VYVGNGVHANLHVAFHRSSSEKIHSN 502
>pdb|1MDT|A Chain A, The Refined Structure Of Monomeric Diphtheria Toxin At 2.3
Angstroms Resolution
pdb|1MDT|B Chain B, The Refined Structure Of Monomeric Diphtheria Toxin At 2.3
Angstroms Resolution
pdb|1TOX|A Chain A, Diphtheria Toxin Dimer Complexed With Nad
pdb|1TOX|B Chain B, Diphtheria Toxin Dimer Complexed With Nad
pdb|1XDT|T Chain T, Complex Of Diphtheria Toxin And Heparin-Binding Epidermal
Growth Factor
pdb|1F0L|A Chain A, 1.55 Angstrom Crystal Structure Of Wild Type Diphtheria
Toxin
pdb|1F0L|B Chain B, 1.55 Angstrom Crystal Structure Of Wild Type Diphtheria
Toxin
pdb|1DDT|A Chain A, The Refined Structure Of Dimeric Diphtheria Toxin At 2.0
Angstroms Resolution
pdb|1SGK|A Chain A, Nucleotide-Free Diphtheria Toxin
Length = 535
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 6/53 (11%)
Query: 11 KTKTKSRDINAEVSFNTDKAQDWLPVDIYIGGKEHAVLHLYYARFIAHFLHAQ 63
K + + R I+ +V+F K+ +Y+G HA LH+ + R + +H+
Sbjct: 456 KIRMRCRAIDGDVTFCRPKSP------VYVGNGVHANLHVAFHRSSSEKIHSN 502
>pdb|1EJJ|A Chain A, Crystal Structural Analysis Of Phosphoglycerate Mutase
Cocrystallized With 3-Phosphoglycerate
pdb|1EQJ|A Chain A, Crystal Structure Of Phosphoglycerate Mutase From Bacillus
Stearothermophilus Complexed With 2-Phosphoglycerate
pdb|1O98|A Chain A, 1.4a Crystal Structure Of Phosphoglycerate Mutase From
Bacillus Stearothermophilus Complexed With
2-Phosphoglycerate
Length = 511
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 23/39 (58%)
Query: 58 HFLHAQGKTPAREPFKRLLVQGMIMGQTYREKTSGKYLK 96
H L+A + A+E KR+ + G + G+ +T+ +Y+K
Sbjct: 127 HHLYALLRLAAKEGVKRVYIHGFLDGRDVGPQTAPQYIK 165
>pdb|1O99|A Chain A, Crystal Structure Of The S62a Mutant Of Phosphoglycerate
Mutase From Bacillus Stearothermophilus Complexed With
2-Phosphoglycerate
Length = 511
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 23/39 (58%)
Query: 58 HFLHAQGKTPAREPFKRLLVQGMIMGQTYREKTSGKYLK 96
H L+A + A+E KR+ + G + G+ +T+ +Y+K
Sbjct: 127 HHLYALLRLAAKEGVKRVYIHGFLDGRDVGPQTAPQYIK 165
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
0.320 0.134 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,212,025
Number of Sequences: 62578
Number of extensions: 119989
Number of successful extensions: 353
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 346
Number of HSP's gapped (non-prelim): 9
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
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: 45 (21.9 bits)