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= 0035.0005.p
         (158 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309698|ref|YP_003773790.1| type II secretion system protei...    66   1e-12

>gi|300309698|ref|YP_003773790.1| type II secretion system protein
           [Herbaspirillum seropedicae SmR1]
          Length = 415

 Score = 66.2 bits (160), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 44/107 (41%), Positives = 56/107 (52%), Gaps = 16/107 (14%)

Query: 9   YAWEGRDRQGKSARGEMRAGGPALVGAMLRRQGIQPT--------------SIHKKNGQR 54
           + WEG DR G+  RG ++A         LRR G++                 I  + G+R
Sbjct: 12  FRWEGLDRHGRPQRGVLQARDATAARQALRRDGVRVARLQPADTAAATPAPGISARRGRR 71

Query: 55  DKRIGEKDIALFTRQLATMLKAGVPLLQAFDIVARSQANPALARLVA 101
             RI +K I LFTRQLATML+AG+PLLQA DI  R     AL  L+A
Sbjct: 72  --RITDKQIVLFTRQLATMLQAGLPLLQALDIAIRGAGADALGGLLA 116


  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
   0.322    0.133    0.458 

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: 539,567
Number of extensions: 21633
Number of successful extensions: 71
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 70
Number of HSP's successfully gapped: 1
Length of query: 158
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 80
Effective length of database: 1,250,540
Effective search space: 100043200
Effective search space used: 100043200
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 (22.0 bits)
S2: 127 (53.5 bits)