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= 0034.0009.p
         (320 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309699|ref|YP_003773791.1| ATPase PilB [Herbaspirillum ser...    62   9e-11

>gi|300309699|ref|YP_003773791.1| ATPase PilB [Herbaspirillum
           seropedicae SmR1]
          Length = 377

 Score = 61.6 bits (148), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 47/131 (35%), Positives = 66/131 (50%), Gaps = 5/131 (3%)

Query: 136 PAQRDVLIAAV-RAHRNILVIGGTGSGKTTLVNAIINEMVVQDPSERVFIIEDTGEIQCA 194
           PAQ   L  A+ R H  +L+ G TGSGKT  + A +  +    P   +   ED  EI   
Sbjct: 134 PAQLQALQQAIARPHGMVLMTGPTGSGKTVSLYACLQRL--NRPGINIATAEDPVEINLP 191

Query: 195 AQNYVQYHTSAEVSMTALLKVTLRMRPDRILVGEVRGPEALDL-LMAWNTGHEGGAATLH 253
             N V  +  A ++    L+  LR  PD ++VGE+R  +  D+ + A  TGH    +TLH
Sbjct: 192 GINQVSINERAGLNFAVALRAFLRQDPDVLMVGEIRDLDTADIAIKAAQTGHL-VLSTLH 250

Query: 254 ANNAKAGLDRL 264
            N+A A L RL
Sbjct: 251 TNDAPATLTRL 261


  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    0.136    0.392 

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: 1,013,181
Number of extensions: 41180
Number of successful extensions: 284
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 285
Number of HSP's successfully gapped: 1
Length of query: 320
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 235
Effective length of database: 1,217,395
Effective search space: 286087825
Effective search space used: 286087825
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: 130 (54.7 bits)