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= 0037.0052.p
         (221 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313187|ref|YP_003777279.1| transcription regulator protein...   107   9e-25

>gi|300313187|ref|YP_003777279.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 308

 Score =  107 bits (266), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 51/81 (62%), Positives = 62/81 (76%), Gaps = 6/81 (7%)

Query: 1   VRSWTLRNGKARGKNDGMQAVIDLKVKMTMSDPNAACEIAEMGLGITLTAMPHAVVYLDK 60
           VR ++LR+        G QA + L+ +MTMSD NAACE+AE GLGITL AMPHA+ YL+ 
Sbjct: 200 VRPFSLRD------RSGQQAPVTLQQRMTMSDANAACEVAEAGLGITLVAMPHALPYLEG 253

Query: 61  GSLVRVLPDWYVDGGMLALYF 81
           G+LVRVLPDWYVD GML+LYF
Sbjct: 254 GTLVRVLPDWYVDTGMLSLYF 274



 Score = 57.4 bits (137), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 26/30 (86%), Positives = 29/30 (96%)

Query: 191 ARLLPAKTRVFVDYVVEHFRSEQLAQRFSA 220
           ARLLPAKTRVFVD+VVEHFR E+LA+RFSA
Sbjct: 277 ARLLPAKTRVFVDFVVEHFRRERLAERFSA 306


  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    0.140    0.429 

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: 764,909
Number of extensions: 34848
Number of successful extensions: 114
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 116
Number of HSP's successfully gapped: 2
Length of query: 221
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 139
Effective length of database: 1,231,600
Effective search space: 171192400
Effective search space used: 171192400
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 (21.9 bits)
S2: 129 (54.3 bits)