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= 0169.0005.p
         (64 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312305|ref|YP_003776397.1| LysR family transcription regul...    78   2e-16
gi|300312111|ref|YP_003776203.1| LysR family transcription regul...    53   4e-09

>gi|300312305|ref|YP_003776397.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 297

 Score = 77.8 bits (190), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 37/60 (61%), Positives = 46/60 (76%)

Query: 1   MVERDVGIAVIPETAALRCKKNMEINCIPLSDPWAKRQLLICVRSREELPGHTRQLLEQL 60
           MVE  VG+AV+PETAAL    +M+I  IPLSD W++RQLLICVR  E LPG TR+L++ L
Sbjct: 234 MVEHQVGVAVLPETAALASTPHMDIRAIPLSDGWSRRQLLICVRGLEGLPGPTRELIQAL 293


>gi|300312111|ref|YP_003776203.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 321

 Score = 53.1 bits (126), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/62 (37%), Positives = 41/62 (66%)

Query: 1   MVERDVGIAVIPETAALRCKKNMEINCIPLSDPWAKRQLLICVRSREELPGHTRQLLEQL 60
           M+E +VGI ++P +AA R ++ M+++ + LSDPW+ R+  + V+  + L  H R L+E +
Sbjct: 232 MIETNVGIGILPRSAAQRHQQTMQLSVVELSDPWSVRERSMVVQDIDTLSPHARNLVEFI 291

Query: 61  TE 62
            E
Sbjct: 292 RE 293


  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    0.136    0.410 

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: 185,297
Number of extensions: 5072
Number of successful extensions: 16
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 16
Number of HSP's successfully gapped: 2
Length of query: 64
Length of database: 1,619,870
Length adjustment: 36
Effective length of query: 28
Effective length of database: 1,449,410
Effective search space: 40583480
Effective search space used: 40583480
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 (21.9 bits)
S2: 123 (52.0 bits)