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= 0022.0218.p
         (125 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313805|ref|YP_003777897.1| two component response regulato...   245   1e-66
gi|300313791|ref|YP_003777883.1| response regulator protein [Her...    66   1e-12
gi|300310669|ref|YP_003774761.1| two component response regulato...    57   3e-10

>gi|300313805|ref|YP_003777897.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 125

 Score =  245 bits (625), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 124/125 (99%), Positives = 124/125 (99%)

Query: 1   MPSSHGAIAVIDDDHGVRAALCNLLDSAGYRSCRFSSGEEFLASDCMPVAVCAIIDLQLA 60
           MPSSHGAIAVIDDDHGVRAALCNLLDSAGYRSCRFSSGEEFLASDCMPVAVCAIIDLQLA
Sbjct: 1   MPSSHGAIAVIDDDHGVRAALCNLLDSAGYRSCRFSSGEEFLASDCMPVAVCAIIDLQLA 60

Query: 61  CMSGFELAERLALARPDLPLLFISAQVTPHQQQRASALGGALLAKPVDADTLLALLTACL 120
           CMSGFELAERLALARPDLPLLFISAQVTP QQQRASALGGALLAKPVDADTLLALLTACL
Sbjct: 61  CMSGFELAERLALARPDLPLLFISAQVTPRQQQRASALGGALLAKPVDADTLLALLTACL 120

Query: 121 LYGRP 125
           LYGRP
Sbjct: 121 LYGRP 125


>gi|300313791|ref|YP_003777883.1| response regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 206

 Score = 65.9 bits (159), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 60/115 (52%), Gaps = 1/115 (0%)

Query: 7   AIAVIDDDHGVRAALCNLLDSAGYRSCRFSSGEEFLASDCMPVAVCAIIDLQLACMSGFE 66
            + V+DDD+ VR AL  LL SAGY +  F+S +EFL +    V  C ++D+++    GFE
Sbjct: 4   TVFVVDDDNMVRTALLRLLASAGYAAHGFASADEFLQARLPAVPCCLLLDMKMPGSDGFE 63

Query: 67  LAERLALARPDLPLLFISAQVT-PHQQQRASALGGALLAKPVDADTLLALLTACL 120
           +  RL      +P++FIS   T P   Q   A     L KP+  + LL  +   L
Sbjct: 64  VVRRLERRGDAIPVIFISGYGTIPTTVQAMKAGAHEFLTKPIQDERLLGAVEEAL 118


>gi|300310669|ref|YP_003774761.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 214

 Score = 57.4 bits (137), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 36/123 (29%), Positives = 60/123 (48%), Gaps = 1/123 (0%)

Query: 1   MPSSHGAIAVIDDDHGVRAALCNLLDSAGYRSCRFSSGEEFLASDCMPVAVCAIIDLQLA 60
           M ++   + ++DDD  VR +L  LL S   R+  F   E FL +       C I+D+++ 
Sbjct: 2   METNPPVVYIVDDDEAVRTSLAWLLSSVNIRTECFEGPEAFLKAYDANSLSCLILDVRMP 61

Query: 61  CMSGFELAERLALARPDLPLLFISAQVTPHQQQRASALGGA-LLAKPVDADTLLALLTAC 119
            +SGF+L +RL     D+P++F+S         RA   G    L KP ++  +L  +   
Sbjct: 62  EISGFQLQDRLKEIGADIPVIFVSGHGDIPMSVRALHNGAVDFLEKPYNSQQMLERIQMT 121

Query: 120 LLY 122
           L +
Sbjct: 122 LKH 124


  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
   0.325    0.137    0.413 

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: 283,027
Number of extensions: 7735
Number of successful extensions: 73
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 78
Number of HSP's successfully gapped: 3
Length of query: 125
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 50
Effective length of database: 1,264,745
Effective search space: 63237250
Effective search space used: 63237250
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 125 (52.8 bits)