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= 0001.1445.p
         (176 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313043|ref|YP_003777135.1| two component response regulato...   120   5e-29

>gi|300313043|ref|YP_003777135.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 236

 Score =  120 bits (302), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 63/162 (38%), Positives = 90/162 (55%)

Query: 2   VADLRQKFPMLGIVVIGENISEATQEKTLHDGADYFLHQPVREGLLLATIRSFLRRLHIL 61
           +A LRQ FP +GIVV+        + + + DGADY+L +PV+   + AT+ +  RR+  +
Sbjct: 63  LASLRQHFPSMGIVVLTAAQRMEERIRCMSDGADYYLARPVKLEEVSATLTALARRMKTV 122

Query: 62  QTPAPGNTEAWTLYRRNGTLVSPHNERLALSDKECAVLTTLFLSPHFPVSAEHLMHALNI 121
              +   +E W   RR+G L S     L  +DKE   L  L  SP++PVS   L   L  
Sbjct: 123 PHQSSPQSEKWAFNRRSGRLSSNGVTALQFTDKESTALAALLQSPNYPVSHGQLFDLLRS 182

Query: 122 TAEIVDPHRIDTIIYRIRKKLAQLAHTRFEIRNIYGRGFICV 163
             E  D HRID +IYR+R+KL  L  +  +IRNIYG GF+ +
Sbjct: 183 GGEEYDAHRIDALIYRVRQKLRSLEESPMQIRNIYGEGFLML 224


  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    0.140    0.424 

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: 559,758
Number of extensions: 21739
Number of successful extensions: 104
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 106
Number of HSP's successfully gapped: 2
Length of query: 176
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 97
Effective length of database: 1,245,805
Effective search space: 120843085
Effective search space used: 120843085
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: 127 (53.5 bits)