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= 0004.0167.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|300312485|ref|YP_003776577.1| outer membrane protein [Herbasp...    80   1e-16

>gi|300312485|ref|YP_003776577.1| outer membrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 491

 Score = 80.1 bits (196), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 55/136 (40%), Positives = 78/136 (57%), Gaps = 3/136 (2%)

Query: 29  VRISIAAEAADAYFRIRSAQARIRIAEDQVQTSDKLLGLVKLRLHDGLSNQREDALAQAQ 88
           V++S+AAE A+AY  +R  Q R+ + +  VQ  +++L L   R+  G ++  +    Q Q
Sbjct: 187 VQVSLAAEVANAYISLRDRQQRLALGQQAVQAQEQMLQLTGQRVERGTASSLDQLRIQNQ 246

Query: 89  LSQVRAGIPPLRAELERQLNRLDVLMGAVPGTYARELDTGAANDIAVPAISVADGS-AGL 147
           L   RA + PL+A+ +  LN+L  L+G  PGT   EL   A   + +P   VA G    L
Sbjct: 247 LDASRADLVPLQADRDAYLNQLATLLGQEPGTLDGEL--AATVPVPLPPQQVAVGDPVSL 304

Query: 148 LRRRPDVLAAERKLAA 163
           LRRRPDV AAER LAA
Sbjct: 305 LRRRPDVRAAERTLAA 320


  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    0.137    0.375 

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: 462,610
Number of extensions: 16947
Number of successful extensions: 96
Number of sequences better than 1.0e-08: 6
Number of HSP's gapped: 103
Number of HSP's successfully gapped: 6
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 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 128 (53.9 bits)