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= 0005.0164.p
         (92 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312082|ref|YP_003776174.1| 3-deoxy-D-manno-octulosonic aci...   149   3e-38

>gi|300312082|ref|YP_003776174.1| 3-deoxy-D-manno-octulosonic acid
           (KDO) 8-phosphate synthase [Herbaspirillum seropedicae
           SmR1]
          Length = 284

 Score =  149 bits (377), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 84/91 (92%), Positives = 89/91 (97%)

Query: 2   PVVFDATHSVQLPGGQGTSSGGQREFVPVLARAAIAVGIAGVFMETHPNPAEAKSDGPNA 61
           PVVFDATHSVQLPGGQGTSSGGQREFVPVLARAAIAVGI+GVFMETHPNPAEAKSDGPNA
Sbjct: 194 PVVFDATHSVQLPGGQGTSSGGQREFVPVLARAAIAVGISGVFMETHPNPAEAKSDGPNA 253

Query: 62  VPLARIKELLGTMIELDRIVKKSVFLENDFS 92
           VPLAR+K+LLGTMI+LDRIVKK+ FLEN FS
Sbjct: 254 VPLARMKDLLGTMIDLDRIVKKAGFLENHFS 284


  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
   0.317    0.136    0.384 

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: 287,265
Number of extensions: 9031
Number of successful extensions: 19
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 19
Number of HSP's successfully gapped: 1
Length of query: 92
Length of database: 1,619,870
Length adjustment: 62
Effective length of query: 30
Effective length of database: 1,326,300
Effective search space: 39789000
Effective search space used: 39789000
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 (21.6 bits)
S2: 123 (52.0 bits)