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= 0028.0064.p
         (82 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312320|ref|YP_003776412.1| response regulator protein [Her...    75   8e-16

>gi|300312320|ref|YP_003776412.1| response regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 341

 Score = 75.5 bits (184), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 36/81 (44%), Positives = 53/81 (65%)

Query: 2   LILPETDRASGLKVAQRCRKLVVKEKIPHEKSQVDSVVTISLGMATIVPSRQDQRIEFME 61
           +ILP T       +AQ+   LV   ++PHE S V + +T+S+G AT+VP  Q +  E +E
Sbjct: 260 MILPRTGLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATLVPQEQQELRELIE 319

Query: 62  AVDKRLYMAKQRGRNCIVAED 82
           A D+RLY+AKQ+GRN +V +D
Sbjct: 320 AADRRLYLAKQQGRNRVVWQD 340


  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
   0.320    0.133    0.365 

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: 203,357
Number of extensions: 5699
Number of successful extensions: 42
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 51
Number of HSP's successfully gapped: 1
Length of query: 82
Length of database: 1,619,870
Length adjustment: 53
Effective length of query: 29
Effective length of database: 1,368,915
Effective search space: 39698535
Effective search space used: 39698535
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: 123 (52.0 bits)