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= 0201.0025.p
         (87 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309742|ref|YP_003773834.1| shikimate 5-dehydrogenase [Herb...   138   8e-35

>gi|300309742|ref|YP_003773834.1| shikimate 5-dehydrogenase
          [Herbaspirillum seropedicae SmR1]
          Length = 271

 Score =  138 bits (348), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 64/80 (80%), Positives = 73/80 (91%)

Query: 1  MDAYVVIGNPIAHSKSPEIHAQFAAQTGQQLTYERLLAPLQGFKAAVKVFIANGGKGANV 60
          MD YVVIGNPIAHSKSP+IHA+FAAQTGQ ++YERLL PL GFKAAV+VF   GG+GAN+
Sbjct: 1  MDEYVVIGNPIAHSKSPDIHARFAAQTGQSMSYERLLVPLHGFKAAVQVFQRRGGRGANI 60

Query: 61 TVPFKLDAHALADRLTERAR 80
          TVPFKL+AHALAD+LTERAR
Sbjct: 61 TVPFKLEAHALADQLTERAR 80


  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
   0.318    0.132    0.383 

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: 285,393
Number of extensions: 9962
Number of successful extensions: 23
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 23
Number of HSP's successfully gapped: 1
Length of query: 87
Length of database: 1,619,870
Length adjustment: 57
Effective length of query: 30
Effective length of database: 1,349,975
Effective search space: 40499250
Effective search space used: 40499250
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 123 (52.0 bits)