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= 0005.0163.p
         (196 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...   380   e-107

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

 Score =  380 bits (977), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 183/195 (93%), Positives = 187/195 (95%)

Query: 1   MKLCGFDIGLDQPFFLIAGTCVIESEQMTLDTAGALKEITTELGIPFIYKSSFDKANRSS 60
           MKLCGFD+GLD PFFLIAGTCVIESEQM LDTAG LKEIT ELGIPFIYKSSFDKANRSS
Sbjct: 1   MKLCGFDVGLDHPFFLIAGTCVIESEQMALDTAGTLKEITAELGIPFIYKSSFDKANRSS 60

Query: 61  GSSFRGLGMEKGLEILAKVKKQIGVPVLTDIHEIDEIKPVSEVVDVLQTPAFLCRQTDFI 120
           GSSFRGLGMEKGLEILAKVKK+IGVPVLTDIHEIDEIKPV+ VVDVLQTPAFLCRQTDFI
Sbjct: 61  GSSFRGLGMEKGLEILAKVKKEIGVPVLTDIHEIDEIKPVAAVVDVLQTPAFLCRQTDFI 120

Query: 121 RACAQSGKPVNIKKGQFLAPHDMINVIAKARAAAKEAGLPEDNFMACERGVSFGYNNLVS 180
           RACAQSGKPVNIKKGQFLAPHDM+NVI KARAAAKEAGLP D FMACERGVSFGYNNLVS
Sbjct: 121 RACAQSGKPVNIKKGQFLAPHDMVNVIDKARAAAKEAGLPTDQFMACERGVSFGYNNLVS 180

Query: 181 DMRSLAIMRETGAPV 195
           DMRSLAIMRETGAPV
Sbjct: 181 DMRSLAIMRETGAPV 195


  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
   0.321    0.137    0.393 

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: 542,372
Number of extensions: 19525
Number of successful extensions: 69
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 69
Number of HSP's successfully gapped: 1
Length of query: 196
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 116
Effective length of database: 1,241,070
Effective search space: 143964120
Effective search space used: 143964120
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: 128 (53.9 bits)