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= psy2359
         (137 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1NYQ|A Chain A, Structure Of Staphylococcus Aureus Threonyl-Trna
           Synthetase Complexed With An Analogue Of Threonyl
           Adenylate
 pdb|1NYQ|B Chain B, Structure Of Staphylococcus Aureus Threonyl-Trna
           Synthetase Complexed With An Analogue Of Threonyl
           Adenylate
 pdb|1NYR|A Chain A, Structure Of Staphylococcus Aureus Threonyl-Trna
           Synthetase Complexed With Atp
 pdb|1NYR|B Chain B, Structure Of Staphylococcus Aureus Threonyl-Trna
           Synthetase Complexed With Atp
          Length = 645

 Score = 34.7 bits (78), Expect = 0.018,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 4/69 (5%)

Query: 60  VKSGSFVYDVQLSGVDNWKPTSAELRVLSAEMVKLAYEAVPFERLSISQDLAEALFEHNK 119
           V  G F YD  +    +   +S +   +   M ++  E +  ER  +S+D A+ LF +++
Sbjct: 99  VIEGGFYYDFDI----DQNISSDDFEQIEKTMKQIVNENMKIERKVVSRDEAKELFSNDE 154

Query: 120 YKLEQIPSI 128
           YKLE I +I
Sbjct: 155 YKLELIDAI 163


>pdb|1WWT|A Chain A, Solution Structure Of The Tgs Domain From Human
          Threonyl- Trna Synthetase
          Length = 88

 Score = 29.6 bits (65), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 11/20 (55%), Positives = 14/20 (70%)

Query: 1  MHRPLESDCELQLLHFYDSD 20
          + RPLE DC L+LL F D +
Sbjct: 58 LDRPLEEDCTLELLKFEDEE 77


>pdb|1J5T|A Chain A, Crystal Structure Of Indole-3-glycerol Phosphate Synthase
           (tm0140) From Thermotoga Maritima At 3.0 A Resolution
          Length = 242

 Score = 25.4 bits (54), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 31/52 (59%), Gaps = 8/52 (15%)

Query: 85  RVLSAEMVKLAYEAVPFERLSISQDLAEALFE-HNKYKLEQIPSIVQQSIVA 135
           R+L+AE +K  YEA   E L +     ++L E H++  LE++ S+++  I+ 
Sbjct: 123 RILTAEQIKEIYEAA--EELGM-----DSLVEVHSREDLEKVFSVIRPKIIG 167


  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
   0.317    0.131    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,744,418
Number of Sequences: 62578
Number of extensions: 127586
Number of successful extensions: 389
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 383
Number of HSP's gapped (non-prelim): 9
length of query: 137
length of database: 14,973,337
effective HSP length: 89
effective length of query: 48
effective length of database: 9,403,895
effective search space: 451386960
effective search space used: 451386960
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)