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= 0004.0045.p
         (50 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313680|ref|YP_003777772.1| two component response regulato...    98   2e-22
gi|300311750|ref|YP_003775842.1| transcription response regulato...    69   8e-14

>gi|300313680|ref|YP_003777772.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 218

 Score = 97.8 bits (242), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 43/49 (87%), Positives = 48/49 (97%)

Query: 1   LSRAQLEEKLYGWDDGVDSNAIEVHIHALRKKLGSDFIKNVRGIGYLVP 49
           LSRAQLEEKLYGWDD ++SNA+EVHIHALRKK+GSDFIKNVRG+GYLVP
Sbjct: 169 LSRAQLEEKLYGWDDSIESNAVEVHIHALRKKVGSDFIKNVRGVGYLVP 217


>gi|300311750|ref|YP_003775842.1| transcription response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 220

 Score = 68.9 bits (167), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 32/50 (64%), Positives = 42/50 (84%)

Query: 1   LSRAQLEEKLYGWDDGVDSNAIEVHIHALRKKLGSDFIKNVRGIGYLVPK 50
           LSRA+LEEKLYGW + V+SNA+E  IH+LR+KL  + IKNVRG+G+LV +
Sbjct: 169 LSRAELEEKLYGWGEEVESNAVEFLIHSLRRKLDKEAIKNVRGMGWLVQR 218


  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
   0.319    0.140    0.417 

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: 150,319
Number of extensions: 4117
Number of successful extensions: 29
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 29
Number of HSP's successfully gapped: 2
Length of query: 50
Length of database: 1,619,870
Length adjustment: 23
Effective length of query: 27
Effective length of database: 1,510,965
Effective search space: 40796055
Effective search space used: 40796055
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 (21.7 bits)
S2: 123 (52.0 bits)