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= 0012.0019.p
         (132 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...   164   3e-42
gi|300310669|ref|YP_003774761.1| two component response regulato...    68   2e-13
gi|300313791|ref|YP_003777883.1| response regulator protein [Her...    65   1e-12
gi|300311805|ref|YP_003775897.1| two component hybrid sensor his...    54   3e-09

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

 Score =  164 bits (414), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 91/124 (73%), Positives = 101/124 (81%)

Query: 9   PPSHRPIAVIDDDLGVRAALCNLLDSAGHRHCSFDGGEDFLTSTCLPVAACAIVDLNLPG 68
           P SH  IAVIDDD GVRAALCNLLDSAG+R C F  GE+FL S C+PVA CAI+DL L  
Sbjct: 2   PSSHGAIAVIDDDHGVRAALCNLLDSAGYRSCRFSSGEEFLASDCMPVAVCAIIDLQLAC 61

Query: 69  MSGFELAEQLRSLRPDLPVLFISAQVTPLQRQRATAMGMALLVKPVDADTLLVLLTSTLL 128
           MSGFELAE+L   RPDLP+LFISAQVTP Q+QRA+A+G ALL KPVDADTLL LLT+ LL
Sbjct: 62  MSGFELAERLALARPDLPLLFISAQVTPRQQQRASALGGALLAKPVDADTLLALLTACLL 121

Query: 129 YGPP 132
           YG P
Sbjct: 122 YGRP 125


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

 Score = 68.2 bits (165), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 42/125 (33%), Positives = 67/125 (53%), Gaps = 4/125 (3%)

Query: 6   ETTPPSHRPIAVIDDDLGVRAALCNLLDSAGHRHCSFDGGEDFLTSTCLPVAACAIVDLN 65
           ET PP    + ++DDD  VR +L  LL S   R   F+G E FL +      +C I+D+ 
Sbjct: 3   ETNPPV---VYIVDDDEAVRTSLAWLLSSVNIRTECFEGPEAFLKAYDANSLSCLILDVR 59

Query: 66  LPGMSGFELAEQLRSLRPDLPVLFISAQVTPLQRQRATAMG-MALLVKPVDADTLLVLLT 124
           +P +SGF+L ++L+ +  D+PV+F+S         RA   G +  L KP ++  +L  + 
Sbjct: 60  MPEISGFQLQDRLKEIGADIPVIFVSGHGDIPMSVRALHNGAVDFLEKPYNSQQMLERIQ 119

Query: 125 STLLY 129
            TL +
Sbjct: 120 MTLKH 124


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

 Score = 65.5 bits (158), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 40/110 (36%), Positives = 56/110 (50%), Gaps = 1/110 (0%)

Query: 12  HRPIAVIDDDLGVRAALCNLLDSAGHRHCSFDGGEDFLTSTCLPVAACAIVDLNLPGMSG 71
            R + V+DDD  VR AL  LL SAG+    F   ++FL +    V  C ++D+ +PG  G
Sbjct: 2   ERTVFVVDDDNMVRTALLRLLASAGYAAHGFASADEFLQARLPAVPCCLLLDMKMPGSDG 61

Query: 72  FELAEQLRSLRPDLPVLFISAQVT-PLQRQRATAMGMALLVKPVDADTLL 120
           FE+  +L      +PV+FIS   T P   Q   A     L KP+  + LL
Sbjct: 62  FEVVRRLERRGDAIPVIFISGYGTIPTTVQAMKAGAHEFLTKPIQDERLL 111


>gi|300311805|ref|YP_003775897.1| two component hybrid sensor
            histidine kinase/response regulator protein
            [Herbaspirillum seropedicae SmR1]
          Length = 1278

 Score = 54.3 bits (129), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 36/107 (33%), Positives = 52/107 (48%), Gaps = 2/107 (1%)

Query: 17   VIDDDLGVRAALCNLLDSAGHRHCSFDGGEDFLTSTCLPVAACAIVDLNLPGMSGFELAE 76
            V++D++  +  +C LL++ GH+      GE+ L +           D+NLPGMSG ELA+
Sbjct: 1168 VVEDNIDSQQLVCELLETLGHQARGVISGEEALQALEEQGFDVLFTDVNLPGMSGVELAK 1227

Query: 77   QLRSLRPDLPVLFISAQVTPLQRQRATAMGMALLVKPVDADTLLVLL 123
                  PDL V+F S   T + R          L KP D D L  +L
Sbjct: 1228 AALGRFPDLAVIFASGYGTMVARN--VGFAAHALPKPYDIDQLQEIL 1272


  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    0.138    0.411 

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: 414,669
Number of extensions: 16210
Number of successful extensions: 125
Number of sequences better than 1.0e-08: 6
Number of HSP's gapped: 134
Number of HSP's successfully gapped: 6
Length of query: 132
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 57
Effective length of database: 1,264,745
Effective search space: 72090465
Effective search space used: 72090465
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: 125 (52.8 bits)