BLASTP 2.2.18 [Mar-02-2008]


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= 0476.0056.p
         (78 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF 
           2,715,099 sequences; 757,237,578 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAP31579.1| thymidylate synthase [Shigella flexneri]               129   2e-29
ref|NP_519068.1| PROBABLE THYMIDYLATE SYNTHASE (TRANSLATION REGU...   129   2e-29
ref|ZP_00171069.1| hypothetical protein Raeut236501 [Ralstonia e...   127   9e-29
pdb|1QQQ|A Chain A, Crystal Structure Analysis Of Ser254 Mutant ...   126   2e-28
gb|AAB40474.1| thymidylate synthetase                                 126   2e-28

>gb|AAP31579.1| thymidylate synthase [Shigella flexneri]
          Length = 264

 Score =  129 bits (325), Expect = 2e-29,   Method: Composition-based stats.
 Identities = 55/78 (70%), Positives = 67/78 (85%)

Query: 1   MVAQQTGLEVGEFIWSGGDVHIYTNHLEQVATQLAREPYPLPKLVIRRQPESIFDYTFED 60
           M+AQQ  LEVG+F+W+GGD H+YTNH++Q   QL+REP PLPKL+I+R+PESIFDY FED
Sbjct: 187 MMAQQCDLEVGDFVWTGGDTHLYTNHMDQTHLQLSREPRPLPKLIIKRKPESIFDYRFED 246

Query: 61  FEFVGYEHHPGIKAPVAI 78
           FE  GY+ HPGIKAPVAI
Sbjct: 247 FEIEGYDPHPGIKAPVAI 264


>ref|NP_519068.1| PROBABLE THYMIDYLATE SYNTHASE (TRANSLATION REGULATION REPRESSOR
           RNA-BINDING) PROTEIN [Ralstonia solanacearum]
 sp|Q8Y0U6|TYSY_RALSO Thymidylate synthase (TS) (TSase)
 emb|CAD14649.1| PROBABLE THYMIDYLATE SYNTHASE (TRANSLATION REGULATION REPRESSOR
           RNA-BINDING) PROTEIN [Ralstonia solanacearum]
          Length = 264

 Score =  129 bits (324), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 56/78 (71%), Positives = 67/78 (85%)

Query: 1   MVAQQTGLEVGEFIWSGGDVHIYTNHLEQVATQLAREPYPLPKLVIRRQPESIFDYTFED 60
           M+AQQTGL+VG+F+W+GGD H+Y NH EQV TQLAR P PLPKL I+R+P+SIFDY +ED
Sbjct: 187 MIAQQTGLDVGDFVWTGGDCHLYNNHFEQVETQLARTPLPLPKLHIKRKPDSIFDYRYED 246

Query: 61  FEFVGYEHHPGIKAPVAI 78
           FE VGYE HP IKAPVA+
Sbjct: 247 FEIVGYESHPAIKAPVAV 264


>ref|ZP_00171069.1| hypothetical protein Raeut236501 [Ralstonia eutropha JMP134]
          Length = 264

 Score =  127 bits (319), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 55/78 (70%), Positives = 67/78 (85%)

Query: 1   MVAQQTGLEVGEFIWSGGDVHIYTNHLEQVATQLAREPYPLPKLVIRRQPESIFDYTFED 60
           M+AQQTGL+VG+F+W+GGD HIY+NH EQV TQL+REP PLP L I R+P+SIFDY +ED
Sbjct: 187 MIAQQTGLDVGDFVWTGGDCHIYSNHYEQVQTQLSREPLPLPTLKIVRKPDSIFDYRYED 246

Query: 61  FEFVGYEHHPGIKAPVAI 78
           FE VGY+ HP IKAPVA+
Sbjct: 247 FELVGYQSHPAIKAPVAV 264


>pdb|1QQQ|A Chain A, Crystal Structure Analysis Of Ser254 Mutant Of Escherichia
           Coli Thymidylate Synthase
          Length = 264

 Score =  126 bits (317), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 54/78 (69%), Positives = 67/78 (85%)

Query: 1   MVAQQTGLEVGEFIWSGGDVHIYTNHLEQVATQLAREPYPLPKLVIRRQPESIFDYTFED 60
           M+AQQ  LEVG+F+W+GGD H+Y+NH++Q   QL+REP PLPKL+I+R+PESIFDY FED
Sbjct: 187 MMAQQXDLEVGDFVWTGGDTHLYSNHMDQTHLQLSREPRPLPKLIIKRKPESIFDYRFED 246

Query: 61  FEFVGYEHHPGIKAPVAI 78
           FE  GY+ HPGIKAPVAI
Sbjct: 247 FEIEGYDSHPGIKAPVAI 264


>gb|AAB40474.1| thymidylate synthetase
          Length = 264

 Score =  126 bits (316), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 54/78 (69%), Positives = 67/78 (85%)

Query: 1   MVAQQTGLEVGEFIWSGGDVHIYTNHLEQVATQLAREPYPLPKLVIRRQPESIFDYTFED 60
           M+AQQ  LEVG+F+W+GGD H+Y+NH++Q   QL+REP PLPKL+I+R+PESIFDY FED
Sbjct: 187 MMAQQCDLEVGDFVWTGGDTHLYSNHMDQTHLQLSREPRPLPKLIIKRKPESIFDYRFED 246

Query: 61  FEFVGYEHHPGIKAPVAI 78
           FE  GY+ HPGIKAPVAI
Sbjct: 247 FEIEGYDPHPGIKAPVAI 264


  Database: All non-redundant GenBank CDS
  translations+PDB+SwissProt+PIR+PRF
    Posted date:  Mar 24, 2004  1:53 AM
  Number of letters in database: 757,237,578
  Number of sequences in database:  2,715,099
  
Lambda     K      H
   0.321    0.141    0.436 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 2715099
Number of Hits to DB: 124,792,237
Number of extensions: 4228081
Number of successful extensions: 8707
Number of sequences better than 1.0e-05: 423
Number of HSP's gapped: 8607
Number of HSP's successfully gapped: 423
Length of query: 78
Length of database: 757,237,578
Length adjustment: 48
Effective length of query: 30
Effective length of database: 626,912,826
Effective search space: 18807384780
Effective search space used: 18807384780
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 120 (50.8 bits)