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= psy8378
(230 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 94.7 bits (234), Expect = 4e-20, Method: Composition-based stats.
Identities = 50/108 (46%), Positives = 62/108 (57%), Gaps = 16/108 (14%)
Query: 128 WFL-KCRYWGTPIPMVHCPSCGPVPVPYEAXXXXXXXXX---------XXXXASNAEWQH 177
W + + RYWGTPIPMVHC +CG VPVP E ++ E+
Sbjct: 422 WLISRQRYWGTPIPMVHCEACGVVPVPEEELPVLLPDLKDVEDIRPKGKSPLEAHPEFYE 481
Query: 178 CSCPKCGHGGARRETDTMDTFVDSAWYYVRYLGSGGDP-NVRLPDQPD 224
+CPKCG G A+R+TDTMDTF DS+WYY+RY DP N RLP P+
Sbjct: 482 TTCPKCG-GPAKRDTDTMDTFFDSSWYYLRYT----DPHNDRLPFDPE 524
>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 = 94.7 bits (234), Expect = 4e-20, Method: Composition-based stats.
Identities = 50/108 (46%), Positives = 62/108 (57%), Gaps = 16/108 (14%)
Query: 128 WFL-KCRYWGTPIPMVHCPSCGPVPVPYEAXXXXXXXXX---------XXXXASNAEWQH 177
W + + RYWGTPIPMVHC +CG VPVP E ++ E+
Sbjct: 422 WLISRQRYWGTPIPMVHCEACGVVPVPEEELPVLLPDLKDVEDIRPKGKSPLEAHPEFYE 481
Query: 178 CSCPKCGHGGARRETDTMDTFVDSAWYYVRYLGSGGDP-NVRLPDQPD 224
+CPKCG G A+R+TDTMDTF DS+WYY+RY DP N RLP P+
Sbjct: 482 TTCPKCG-GPAKRDTDTMDTFFDSSWYYLRYT----DPHNDRLPFDPE 524
>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 = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 37/83 (44%), Gaps = 8/83 (9%)
Query: 131 KCRYWGTPIPMVHCPSCGPVPVPYEAX-----XXXXXXXXXXXXASNAEWQHCSCPKCGH 185
+ RYWG PIPMV +P P + ++ EW +
Sbjct: 444 RQRYWGAPIPMVTLEDGTVMPTPDDQLPVILPEDVVMDGITSPIKADPEWAKTTVNGMP- 502
Query: 186 GGARRETDTMDTFVDSAWYYVRY 208
A RETDT DTF++S+WYY RY
Sbjct: 503 --ALRETDTFDTFMESSWYYARY 523
>pdb|1GAX|A Chain A, Crystal Structure Of Thermus Thermophilus Valyl-Trna
Synthetase Complexed With Trna(Val) And Valyl-Adenylate
Analogue
pdb|1GAX|B Chain B, Crystal Structure Of Thermus Thermophilus Valyl-Trna
Synthetase Complexed With Trna(Val) And Valyl-Adenylate
Analogue
pdb|1IVS|A Chain A, Crystal Structure Of Thermus Thermophilus Valyl-Trna
Synthetase Complexed With Trna(Val) And Valyl-Adenylate
Analogue
pdb|1IVS|B Chain B, Crystal Structure Of Thermus Thermophilus Valyl-Trna
Synthetase Complexed With Trna(Val) And Valyl-Adenylate
Analogue
pdb|1IYW|A Chain A, Preliminary Structure Of Thermus Thermophilus Ligand-Free
Valyl-Trna Synthetase
pdb|1IYW|B Chain B, Preliminary Structure Of Thermus Thermophilus Ligand-Free
Valyl-Trna Synthetase
Length = 862
Score = 33.9 bits (76), Expect = 0.080, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 28/77 (36%), Gaps = 15/77 (19%)
Query: 134 YWGTPIPMVHCPSCGPVPVPYEAXXXXXXXXXXXXXASNAEWQHCSCPKCGHGGARRETD 193
+WG IP +C C V VP SC CG +R+ D
Sbjct: 407 WWGHQIPAWYCEDCQAVNVPRPERYLE---------------DPTSCEACGSPRLKRDED 451
Query: 194 TMDTFVDSAWYYVRYLG 210
DT+ SA + + LG
Sbjct: 452 VFDTWFSSALWPLSTLG 468
>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 = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 36/92 (39%), Gaps = 10/92 (10%)
Query: 129 FLKCRYWGTPIPMVHCPSCGP------VPVPYEAXXXXXXXXXXXXXASNAEWQHCSCPK 182
F + RYWG P P+ V +P+ A+N EW K
Sbjct: 250 FARQRYWGEPFPVYFDEDNNVYLIDELVELPH-MENIMPSGTGEGPLATNTEWVQY---K 305
Query: 183 CGHGGARRETDTMDTFVDSAWYYVRYLGSGGD 214
+ +R+T+TM + S WYY+ Y+ D
Sbjct: 306 KNNKIFKRDTNTMPQWAGSCWYYLAYIMKQED 337
>pdb|1JZQ|A Chain A, Isoleucyl-Trna Synthetase Complexed With Isoleucyl-
Adenylate Analogue
pdb|1JZS|A Chain A, Isoleucyl-trna Synthetase Complexed With Mupirocin
pdb|1ILE|A Chain A, Isoleucyl-Trna Synthetase
Length = 821
Score = 30.4 bits (67), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 131 KCRYWGTPIPMVHCPSCG 148
+ RYWGTP+P+ C +CG
Sbjct: 448 RNRYWGTPLPIWVCQACG 465
>pdb|3H70|A Chain A, Crystal Structure Of O-Succinylbenzoic Acid Synthetase
From Staphylococcus Aureus Complexed With Mg In The
Active Site
Length = 343
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 7/49 (14%)
Query: 88 LFSNFVGDQYMSVFAICMPCTNPFK---YNHYTVSLAHHVIAVWFLKCR 133
LF + D+ + F C N F+ Y+H T++ HVI WF R
Sbjct: 34 LFIELIDDKGNAYFGEC----NAFQTDWYDHETIASVKHVIEQWFEDNR 78
>pdb|2OKT|A Chain A, Crystal Structure Of O-Succinylbenzoic Acid Synthetase
From Staphylococcus Aureus, Ligand-Free Form
pdb|2OLA|A Chain A, Crystal Structure Of O-Succinylbenzoic Acid Synthetase
From Staphylococcus Aureus, Cubic Crystal Form
Length = 342
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 7/49 (14%)
Query: 88 LFSNFVGDQYMSVFAICMPCTNPFK---YNHYTVSLAHHVIAVWFLKCR 133
LF + D+ + F C N F+ Y+H T++ HVI WF R
Sbjct: 33 LFIELIDDKGNAYFGEC----NAFQTDWYDHETIASVKHVIEQWFEDNR 77
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
0.324 0.138 0.462
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,982,192
Number of Sequences: 62578
Number of extensions: 248849
Number of successful extensions: 594
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 578
Number of HSP's gapped (non-prelim): 13
length of query: 230
length of database: 14,973,337
effective HSP length: 96
effective length of query: 134
effective length of database: 8,965,849
effective search space: 1201423766
effective search space used: 1201423766
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 50 (23.9 bits)