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= 0032.0060.p
         (161 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312913|ref|YP_003777005.1| LytR/AlgR family two component ...   166   8e-43
gi|300311885|ref|YP_003775977.1| LuxR family two component respo...    65   2e-12
gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regula...    60   8e-11

>gi|300312913|ref|YP_003777005.1| LytR/AlgR family two component
           response regulator protein [Herbaspirillum seropedicae
           SmR1]
          Length = 268

 Score =  166 bits (420), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 86/144 (59%), Positives = 108/144 (75%), Gaps = 4/144 (2%)

Query: 10  ALIAEDEALLADTLSAQLQRLWPGLDIAGIVSNGMAAVEQALALQPDVLFLDIRMPGQSG 69
           ALIAEDE LLA  L   LQR WP L+   + +NG+ A+E AL   PDVLFLDIRMPG SG
Sbjct: 5   ALIAEDEPLLARALQNTLQRCWPELETPRLAANGVQALEMALESLPDVLFLDIRMPGHSG 64

Query: 70  LEAARELADEWPHQRPFPLLVFVTAYDDYAIQAFEQAAIDYVLKPANDERLALTVARLQT 129
           LE ARELA++WP ++PFPL+VFVTAYD++A++AFE+AAIDY+LKP N+ERL  TV RL+ 
Sbjct: 65  LEVARELAEQWPQRQPFPLIVFVTAYDEHALEAFERAAIDYLLKPVNEERLGKTVQRLRA 124

Query: 130 ----RLKNTNDQGLEQVLAQLXQV 149
               R  ++ +  LEQ LAQL Q+
Sbjct: 125 LLAQRAASSQELHLEQALAQLRQL 148


>gi|300311885|ref|YP_003775977.1| LuxR family two component response
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 216

 Score = 65.5 bits (158), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/108 (34%), Positives = 60/108 (55%), Gaps = 3/108 (2%)

Query: 8   ARALIAEDEALLADTLSAQLQRLWPGLDIAGIVSNGMAAVEQALALQPDVLFLDIRMPGQ 67
            R ++A+D AL+   + A L  + PG+++ G  S+G   +E    L+PD++ LDI M G 
Sbjct: 3   TRIMLADDHALVRSGIKALLTAM-PGVEVVGEASDGAEVIEMIPQLKPDLVLLDIAMKGM 61

Query: 68  SGLEAARELADEWPHQRPFPLLVFVTAYDDYAIQAFEQAAIDYVLKPA 115
           +GLEA R L  E+P  R   L ++    ++Y +QA    A  Y+ K +
Sbjct: 62  NGLEALRRLRGEYPTIRFLMLSMY--GSEEYVMQALNAGANGYLFKDS 107


>gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regulator
           transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 219

 Score = 60.1 bits (144), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 38/118 (32%), Positives = 61/118 (51%), Gaps = 3/118 (2%)

Query: 9   RALIAEDEALLADTLSAQLQRLWPGLDIAGIVSNGMAAVEQALALQPDVLFLDIRMPGQS 68
           R L+ +D  L    +   LQR  P +D+ G   +G+  V++AL L+PDV+ +D+ MPG S
Sbjct: 4   RILLVDDHTLFRSGIRLLLQR-HPDIDVVGEAVDGLDGVKRALQLRPDVVLMDLNMPGLS 62

Query: 69  GLEAARELADEWPHQRPFPLLVFVTAYDDYAIQAFEQAAIDYVLKPANDERLALTVAR 126
           GLEA + +  + P      L++ V+   D    A    A  Y+LK    + L  ++ R
Sbjct: 63  GLEAMQLIVQDLPE--TAVLMLSVSEEADDLTTALHNGARGYLLKNIEADYLVQSIKR 118


  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    0.134    0.407 

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: 472,452
Number of extensions: 17372
Number of successful extensions: 157
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 177
Number of HSP's successfully gapped: 4
Length of query: 161
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 83
Effective length of database: 1,250,540
Effective search space: 103794820
Effective search space used: 103794820
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: 127 (53.5 bits)