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= 048356
(82 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 28.1 bits (61), Expect = 1.2, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%)
Query: 41 SFDEELKKKNSGLLYIHIHGQVVGYVMYAWPTSLSAS 77
SFDE KK ++ LY I +V ++ WP L S
Sbjct: 289 SFDEYWKKDSTAELYHFIGKDIVYFLSLFWPAMLEGS 325
>pdb|1BGP|A Chain A, Crystal Structure Of Barley Grain Peroxidase 1
Length = 309
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 4/31 (12%)
Query: 33 PKHESLARSFDEELKKKN----SGLLYIHIH 59
P+ ES+ R F +E +K+ +GLL +H H
Sbjct: 19 PRAESIVREFVQEAVRKDIGLAAGLLRLHFH 49
>pdb|3H9C|A Chain A, Structure Of Methionyl-Trna Synthetase: Crystal Form 2
Length = 547
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 41 SFDEELKKKNSGLLYIHIHGQVVGYVMYAWPTSLSAS 77
SFDE KK ++ LY I +V + WP L S
Sbjct: 276 SFDEYWKKDSTAELYHFIGKDIVYFHSLFWPAMLEGS 312
>pdb|1F4L|A Chain A, Crystal Structure Of The E.Coli Methionyl-Trna Synthetase
Complexed With Methionine
Length = 551
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 41 SFDEELKKKNSGLLYIHIHGQVVGYVMYAWPTSLSAS 77
SFDE KK ++ LY I +V + WP L S
Sbjct: 277 SFDEYWKKDSTAELYHFIGKDIVYFHSLFWPAMLEGS 313
>pdb|1QQT|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli
Length = 551
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 41 SFDEELKKKNSGLLYIHIHGQVVGYVMYAWPTSLSAS 77
SFDE KK ++ LY I +V + WP L S
Sbjct: 276 SFDEYWKKDSTAELYHFIGKDIVYFHSLFWPAMLEGS 312
>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 = 26.6 bits (57), Expect = 3.7, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 41 SFDEELKKKNSGLLYIHIHGQVVGYVMYAWPTSLSAS 77
SFDE KK ++ LY I +V + WP L S
Sbjct: 276 SFDEYWKKDSTAELYHFIGKDIVYFHSLFWPAMLEGS 312
>pdb|1Q8I|A Chain A, Crystal Structure Of Escherichia Coli Dna Polymerase Ii
Length = 783
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 5/41 (12%)
Query: 33 PKHESLARSFDEELKKKNSGLLYIHIHGQVVGYVMYAWPTS 73
P H AR DEE +K+ L Y Q G + Y W T+
Sbjct: 700 PPHVRAARLADEENQKRGRPLQY-----QNRGTIKYVWTTN 735
>pdb|3K5L|A Chain A, Crystal Structure Of E.Coli Pol Ii-Abasic Dna-Datp Lt(0,
3) Ternary Complex
pdb|3K5M|A Chain A, Crystal Structure Of E.Coli Pol Ii-Abasic Dna-Ddgtp Lt(-2,
2) Ternary Complex
pdb|3K5N|A Chain A, Crystal Structure Of E.Coli Pol Ii-Abasic Dna Binary
Complex
pdb|3K5N|B Chain B, Crystal Structure Of E.Coli Pol Ii-Abasic Dna Binary
Complex
pdb|3K5O|A Chain A, Crystal Structure Of E.Coli Pol Ii
pdb|3K5O|B Chain B, Crystal Structure Of E.Coli Pol Ii
pdb|3K57|A Chain A, Crystal Structure Of E.Coli Pol Ii-Normal Dna-Datp Ternary
Complex
pdb|3K58|A Chain A, Crystal Structure Of E.Coli Pol Ii-Normal Dna-Dttp Ternary
Complex
pdb|3K59|A Chain A, Crystal Structure Of E.Coli Pol Ii-Normal Dna-Dctp Ternary
Complex
pdb|3MAQ|A Chain A, Crystal Structure Of E.coli Pol Ii-normal Dna-dgtp Ternary
Complex
Length = 786
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 5/41 (12%)
Query: 33 PKHESLARSFDEELKKKNSGLLYIHIHGQVVGYVMYAWPTS 73
P H AR DEE +K+ L Y Q G + Y W T+
Sbjct: 703 PPHVRAARLADEENQKRGRPLQY-----QNRGTIKYVWTTN 738
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 0.129 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,337,151
Number of Sequences: 62578
Number of extensions: 71602
Number of successful extensions: 249
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 242
Number of HSP's gapped (non-prelim): 13
length of query: 82
length of database: 14,973,337
effective HSP length: 51
effective length of query: 31
effective length of database: 11,781,859
effective search space: 365237629
effective search space used: 365237629
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: 45 (21.9 bits)