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= psy13331
(143 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X8X|A Chain A, Tyrosyl T-Rna Synthetase From E.Coli Complexed With
Tyrosine
Length = 322
Score = 27.7 bits (60), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 12/63 (19%)
Query: 87 VEPGCQLPQNFSGDWINTANIDADVF----------INETHIIETYYPDEGRYRRTIYVC 136
++P P F WINTA DADV+ I E + +E + G+ R YV
Sbjct: 246 LDPKKTSPYKFYQFWINTA--DADVYRFLKFFTFMSIEEINALEEEDKNSGKAPRAQYVL 303
Query: 137 REQ 139
EQ
Sbjct: 304 AEQ 306
>pdb|1WQ4|A Chain A, Escherichia Coli Tyrosyl-Trna Synthetase Mutant Complexed
With L- Tyrosine
Length = 321
Score = 27.7 bits (60), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 12/63 (19%)
Query: 87 VEPGCQLPQNFSGDWINTANIDADVF----------INETHIIETYYPDEGRYRRTIYVC 136
++P P F WINTA DADV+ I E + +E + G+ R YV
Sbjct: 245 LDPKKTSPYKFYQFWINTA--DADVYRFLKFFTFMSIEEINALEEEDKNSGKAPRAQYVL 302
Query: 137 REQ 139
EQ
Sbjct: 303 AEQ 305
>pdb|1WQ3|A Chain A, Escherichia Coli Tyrosyl-Trna Synthetase Mutant Comlexed
With 3-Iodo- L-Tyrosine
pdb|2YXN|A Chain A, Structual Basis Of Azido-Tyrosine Recognition By
Engineered Bacterial Tyrosyl-Trna Synthetase
Length = 322
Score = 27.7 bits (60), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 12/63 (19%)
Query: 87 VEPGCQLPQNFSGDWINTANIDADVF----------INETHIIETYYPDEGRYRRTIYVC 136
++P P F WINTA DADV+ I E + +E + G+ R YV
Sbjct: 246 LDPKKTSPYKFYQFWINTA--DADVYRFLKFFTFMSIEEINALEEEDKNSGKAPRAQYVL 303
Query: 137 REQ 139
EQ
Sbjct: 304 AEQ 306
>pdb|1VBM|A Chain A, Crystal Structure Of The Escherichia Coli Tyrosyl-Trna
Synthetase Complexed With Tyr-Ams
pdb|1VBM|B Chain B, Crystal Structure Of The Escherichia Coli Tyrosyl-Trna
Synthetase Complexed With Tyr-Ams
Length = 318
Score = 27.7 bits (60), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 12/63 (19%)
Query: 87 VEPGCQLPQNFSGDWINTANIDADVF----------INETHIIETYYPDEGRYRRTIYVC 136
++P P F WINTA DADV+ I E + +E + G+ R YV
Sbjct: 242 LDPKKTSPYKFYQFWINTA--DADVYRFLKFFTFMSIEEINALEEEDKNSGKAPRAQYVL 299
Query: 137 REQ 139
EQ
Sbjct: 300 AEQ 302
>pdb|1VBN|A Chain A, Escherichia Coli Tyrosyl-Trna Synthetase Mutant Complexed
With Tyr-Ams
pdb|1VBN|B Chain B, Escherichia Coli Tyrosyl-Trna Synthetase Mutant Complexed
With Tyr-Ams
Length = 318
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 12/63 (19%)
Query: 87 VEPGCQLPQNFSGDWINTANIDADVF----------INETHIIETYYPDEGRYRRTIYVC 136
++P P F WINTA DADV+ I E + +E + G+ R YV
Sbjct: 242 LDPKKTSPYKFYQFWINTA--DADVYRFLKFFTFMSIEEINALEEEDKNSGKAPRAQYVL 299
Query: 137 REQ 139
EQ
Sbjct: 300 AEQ 302
>pdb|3ERR|A Chain A, Microtubule Binding Domain From Mouse Cytoplasmic Dynein
As A Fusion With Seryl-Trna Synthetase
pdb|3ERR|B Chain B, Microtubule Binding Domain From Mouse Cytoplasmic Dynein
As A Fusion With Seryl-Trna Synthetase
Length = 536
Score = 27.3 bits (59), Expect = 3.2, Method: Composition-based stats.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 119 IETYYPDEGRYRRT 132
IE Y P EGRYR T
Sbjct: 442 IEVYLPSEGRYRET 455
>pdb|2V4J|B Chain B, The Crystal Structure Of Desulfovibrio Vulgaris
Dissimilatory Sulfite Reductase Bound To Dsrc Provides
Novel Insights Into The Mechanism Of Sulfate Respiration
pdb|2V4J|E Chain E, The Crystal Structure Of Desulfovibrio Vulgaris
Dissimilatory Sulfite Reductase Bound To Dsrc Provides
Novel Insights Into The Mechanism Of Sulfate Respiration
Length = 381
Score = 26.2 bits (56), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 85 EVVEPGCQLPQNFSGDWINTANIDADVFINETHIIE 120
E++EPG + SGD + T + A ++ THI E
Sbjct: 45 EILEPGVLMHVAESGDKVYTVRVGAARLMSITHIRE 80
>pdb|1SRY|A Chain A, Refined Crystal Structure Of The Seryl-Trna Synthetase
From Thermus Thermophilus At 2.5 Angstroms Resolution
pdb|1SRY|B Chain B, Refined Crystal Structure Of The Seryl-Trna Synthetase
From Thermus Thermophilus At 2.5 Angstroms Resolution
pdb|1SER|A Chain A, The 2.9 Angstroms Crystal Structure Of T. Thermophilus
Seryl-Trna Synthetase Complexed With Trna Ser
pdb|1SER|B Chain B, The 2.9 Angstroms Crystal Structure Of T. Thermophilus
Seryl-Trna Synthetase Complexed With Trna Ser
pdb|1SES|A Chain A, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
pdb|1SES|B Chain B, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
pdb|1SET|A Chain A, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
pdb|1SET|B Chain B, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
Length = 421
Score = 25.8 bits (55), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 119 IETYYPDEGRYRRT 132
IE Y P EGRYR T
Sbjct: 333 IEVYLPSEGRYRET 346
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 0.135 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,383,410
Number of Sequences: 62578
Number of extensions: 168748
Number of successful extensions: 294
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 291
Number of HSP's gapped (non-prelim): 8
length of query: 143
length of database: 14,973,337
effective HSP length: 89
effective length of query: 54
effective length of database: 9,403,895
effective search space: 507810330
effective search space used: 507810330
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: 46 (22.3 bits)