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= psy676
(159 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4HXH|C Chain C, Structure Of Mrna Stem-loop, Human Stem-loop Binding
Protein And 3'hexo Ternary Complex
Length = 120
Score = 96.3 bits (238), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 46/77 (59%), Positives = 55/77 (71%), Gaps = 1/77 (1%)
Query: 28 YETDPAILLRRQKQIDFGKNTVGYDRYCSMVKREDRTKD-HPKTPPKELKYSRRAWDGLI 86
+ETD ++L+RRQKQI++GKNT+ YDRY V R R HPKTP K KYSRR+WD I
Sbjct: 25 FETDESVLMRRQKQINYGKNTIAYDRYIKEVPRHLRQPGIHPKTPNKFKKYSRRSWDQQI 84
Query: 87 KSWRSRLHFWDPPNENG 103
K W+ LHFWDPP E G
Sbjct: 85 KLWKVALHFWDPPAEEG 101
>pdb|2KJM|A Chain A, Solution Structure Of Slbp Rna Binding Domain Fragment
Length = 30
Score = 42.7 bits (99), Expect = 8e-05, Method: Composition-based stats.
Identities = 19/30 (63%), Positives = 25/30 (83%)
Query: 29 ETDPAILLRRQKQIDFGKNTVGYDRYCSMV 58
ETD ++L+RRQKQI++GKNT+ YDRY V
Sbjct: 1 ETDESVLMRRQKQINYGKNTIAYDRYIKEV 30
>pdb|1F4L|A Chain A, Crystal Structure Of The E.Coli Methionyl-Trna Synthetase
Complexed With Methionine
Length = 551
Score = 30.0 bits (66), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 8/63 (12%)
Query: 36 LRRQKQIDFGKNTVGYDRYCSMVKREDRTKDHPKTPPKELKYSRRAWDGLIKSWRSRLHF 95
+ ++ Q DF + YD Y S E+R EL YSR +G IK+ R+
Sbjct: 77 MSQEHQTDFAGFNISYDNYHSTHSEENRQL-------SELIYSRLKENGFIKN-RTISQL 128
Query: 96 WDP 98
+DP
Sbjct: 129 YDP 131
>pdb|3H9C|A Chain A, Structure Of Methionyl-Trna Synthetase: Crystal Form 2
Length = 547
Score = 30.0 bits (66), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 8/63 (12%)
Query: 36 LRRQKQIDFGKNTVGYDRYCSMVKREDRTKDHPKTPPKELKYSRRAWDGLIKSWRSRLHF 95
+ ++ Q DF + YD Y S E+R EL YSR +G IK+ R+
Sbjct: 76 MSQEHQTDFAGFNISYDNYHSTHSEENRQL-------SELIYSRLKENGFIKN-RTISQL 127
Query: 96 WDP 98
+DP
Sbjct: 128 YDP 130
>pdb|1QQT|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli
Length = 551
Score = 30.0 bits (66), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 8/63 (12%)
Query: 36 LRRQKQIDFGKNTVGYDRYCSMVKREDRTKDHPKTPPKELKYSRRAWDGLIKSWRSRLHF 95
+ ++ Q DF + YD Y S E+R EL YSR +G IK+ R+
Sbjct: 76 MSQEHQTDFAGFNISYDNYHSTHSEENRQL-------SELIYSRLKENGFIKN-RTISQL 127
Query: 96 WDP 98
+DP
Sbjct: 128 YDP 130
>pdb|1P7P|A Chain A, Methionyl-trna Synthetase From Escherichia Coli Complexed
With Methionine Phosphonate
pdb|1PFU|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Methionine Phosphinate
pdb|1PFV|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Difluoromethionine
pdb|1PFW|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Trifluoromethionine
pdb|1PFY|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Methionyl Sulphamoyl Adenosine
pdb|1PG0|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Methioninyl Adenylate
pdb|1PG2|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Methionine And Adenosine
Length = 551
Score = 30.0 bits (66), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 8/63 (12%)
Query: 36 LRRQKQIDFGKNTVGYDRYCSMVKREDRTKDHPKTPPKELKYSRRAWDGLIKSWRSRLHF 95
+ ++ Q DF + YD Y S E+R EL YSR +G IK+ R+
Sbjct: 76 MSQEHQTDFAGFNISYDNYHSTHSEENRQL-------SELIYSRLKENGFIKN-RTISQL 127
Query: 96 WDP 98
+DP
Sbjct: 128 YDP 130
>pdb|3H97|A Chain A, Structure Of A Mutant Methionyl-trna Synthetase With
Modified Specificity
pdb|3H99|A Chain A, Structure Of A Mutant Methionyl-Trna Synthetase With
Modified Specificity Complexed With Methionine
pdb|3H9B|A Chain A, Structure Of A Mutant Methionyl-Trna Synthetase With
Modified Specificity Complexed With Azidonorleucine
Length = 560
Score = 30.0 bits (66), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 8/63 (12%)
Query: 36 LRRQKQIDFGKNTVGYDRYCSMVKREDRTKDHPKTPPKELKYSRRAWDGLIKSWRSRLHF 95
+ ++ Q DF + YD Y S E+R EL YSR +G IK+ R+
Sbjct: 89 MSQEHQTDFAGFNISYDNYHSTHSEENRQL-------SELIYSRLKENGFIKN-RTISQL 140
Query: 96 WDP 98
+DP
Sbjct: 141 YDP 143
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
0.315 0.133 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,259,798
Number of Sequences: 62578
Number of extensions: 143498
Number of successful extensions: 212
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 209
Number of HSP's gapped (non-prelim): 7
length of query: 159
length of database: 14,973,337
effective HSP length: 91
effective length of query: 68
effective length of database: 9,278,739
effective search space: 630954252
effective search space used: 630954252
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)