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= 0030.0024.p
         (264 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312740|ref|YP_003776832.1| thymidylate synthetase [Herbasp...   199   2e-52

>gi|300312740|ref|YP_003776832.1| thymidylate synthetase
           [Herbaspirillum seropedicae SmR1]
          Length = 323

 Score =  199 bits (506), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 120/323 (37%), Positives = 168/323 (52%), Gaps = 59/323 (18%)

Query: 1   MRQYLDFMRHVYEHGTEKTDRTGTGTRSVFGHQMRFDLQEGFPLLTTKKLHIKSIVHELI 60
           M+QY D ++ V E+G+ + +RTG  T S+ G  MRFDLQ+GFP +TTK+L  KS+V EL 
Sbjct: 1   MKQYQDLIQDVLENGSWQDNRTGIRTLSIPGAMMRFDLQKGFPAVTTKRLAFKSVVGELC 60

Query: 61  WFLAGSTNIAYLKDNGVKIWDEWADPEG------------NLGPIYGYQWRSWPA---PN 105
            FL  + + A  +  G K+WD+ A+               +LGP+YG QWR WPA    +
Sbjct: 61  GFLRATRSAADFRALGCKVWDQNANENADWLANPFRSGADDLGPVYGVQWRQWPAYKLID 120

Query: 106 GEH-------------------------------IDQIAQVVSQIRNNPDSRRLIVSAWN 134
             H                               +DQ+ + +  I NNP SRR++   WN
Sbjct: 121 AAHTTQIEAARSKGFAIVSSLQDEGVEKVLLYKAVDQLRECLDTIVNNPGSRRILFHGWN 180

Query: 135 VADIPQMKLPPCHAFFQFY--VADGKLSCQLYQRSADIFLGVPFNIASYALLTHMVAQQT 192
            A + ++ LP CH  +QF    + G++S  LY RS DI LG PFN+A  A L H+VA+ T
Sbjct: 181 CAVLDEVALPACHLLYQFLPNQSTGEISLCLYVRSNDIGLGTPFNLAEGAALLHLVARLT 240

Query: 193 NLDVGDFVWTGGDCHLYSNHMEQVQEQLARTPGPLPKLVIK-RKPETIFDYRFE------ 245
                 F +  GD H+Y NH++ V+EQL R P PLP+L I  R PE     R+E      
Sbjct: 241 GYKPRWFSYFVGDAHIYENHIDMVKEQLTRAPYPLPQLEIADRVPEFARTGRYEPQWLEL 300

Query: 246 ----DFEIVGYEAQPHIKAPVAV 264
               DF +V Y+    + AP+AV
Sbjct: 301 VEPSDFSLVNYQHHAPLTAPMAV 323


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.323    0.139    0.446 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 917,314
Number of extensions: 38813
Number of successful extensions: 90
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 86
Number of HSP's successfully gapped: 1
Length of query: 264
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 181
Effective length of database: 1,226,865
Effective search space: 222062565
Effective search space used: 222062565
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 (21.9 bits)
S2: 130 (54.7 bits)