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= 0001.3665.p
         (281 letters)

Database: BlastDatabases/707/707 
           3697 sequences; 1,221,021 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|152980054|ref|YP_001354652.1| shikimate 5-dehydrogenase [Jant...    59   5e-10

>gi|152980054|ref|YP_001354652.1| shikimate 5-dehydrogenase
           [Janthinobacterium sp. Marseille]
          Length = 273

 Score = 58.5 bits (140), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 62/256 (24%), Positives = 109/256 (42%), Gaps = 9/256 (3%)

Query: 4   ITGTTRIFPVIGWPVEQVKAPTLFNAYFKHHDLDARVIPFKIEPQRYCEAVRMFMKTENV 63
           ++  T  + VIG P+   K+P +   +      D +          +  +V+ F++ +  
Sbjct: 1   MSTRTDHYAVIGNPIAHSKSPDIHARFAAQTQQDLKYDRLLAPLDGFLASVQEFIRNDG- 59

Query: 64  GGIFVSIPHKPMTLEAVEQATLRARVAGACNAVYRDAQGVIWGDLIDGEGFIRALARTAG 123
            G+ V++P K        + + RAR AGA N + +   G + GD  DG G +  + R AG
Sbjct: 60  KGLNVTVPFKLEAYAMASRLSERARAAGAVNTL-KFENGEMLGDNTDGVGLVTDIVRNAG 118

Query: 124 EQPLVWHRTRALVVGTGGVGCAIVASLAAQGVAEISVFDTNRAGAEAL-LARVAAAFPAT 182
               V  +T  L++G GG    ++  L  +  A + +   NR  ++AL LA   A  P  
Sbjct: 119 VA--VAGKT-VLLLGAGGAARGVILPLLHEKPARLVI--ANRTHSKALDLAERFAPQPTL 173

Query: 183 RVRFAQPDASGFDLLVNCTPLGMHVGDPMPFALEGVNRQAIVADCGMKIEMSQLLVQAQA 242
            V         FD+++N T   +    P P +     ++ +  D       +  +  A  
Sbjct: 174 EVSDFGALDDAFDIVINATAASLASEVP-PISPRVFAKRTLAYDMMYGAAPTPFMQFAAE 232

Query: 243 QGCRIQKGKEMLIEQA 258
            G  ++ G  ML+EQA
Sbjct: 233 HGATVRDGLGMLVEQA 248


  Database: BlastDatabases/707/707
    Posted date:  Apr 13, 2011 12:58 PM
  Number of letters in database: 1,221,021
  Number of sequences in database:  3697
  
Lambda     K      H
   0.324    0.138    0.421 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3697
Number of Hits to DB: 588,973
Number of extensions: 21668
Number of successful extensions: 86
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 87
Number of HSP's successfully gapped: 1
Length of query: 281
Length of database: 1,221,021
Length adjustment: 82
Effective length of query: 199
Effective length of database: 917,867
Effective search space: 182655533
Effective search space used: 182655533
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 129 (54.3 bits)