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= 0001.3495.p
         (212 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313079|ref|YP_003777171.1| transcription regulator protein...    86   2e-18

>gi|300313079|ref|YP_003777171.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 201

 Score = 85.9 bits (211), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 56/184 (30%), Positives = 87/184 (47%), Gaps = 2/184 (1%)

Query: 18  REELMETQELLLHAGLEVLTEKGFSATGIDEILSRVNVPKGSFYHYFASKEAYGLELIAL 77
           RE   E +  +L AG  ++ +KG+S+ G+ EIL+   +PKGSFYHYF SKE YG ELI  
Sbjct: 2   REHYGENKRNILMAGRALIAQKGYSSVGLSEILAAAAIPKGSFYHYFGSKEQYGRELIEH 61

Query: 78  YGAYFARKLDKHFTN--EDVPPLERLEHFIEDAKLGMSRFDFRRGCLIGNLGQEMGSLPE 135
           Y A +   L++   +        ERL  +           +  + CL+  L  E+  L E
Sbjct: 62  YVAGYLESLERVLGDPAHGASARERLLTYWGYWLESQCCQELEQRCLVVKLSAEVADLSE 121

Query: 136 SFRIRLVEVFQDWERRLSQCLKLAQKARQIPQTVHCDQMASAFWIGWEGAVLRAKLESSA 195
             R  L +  Q +  R++ C+        +   +H    A+  +  W GA L ++L    
Sbjct: 122 DMRQALHQGTQAFIERIAACIAQGIAEGSLHTVLHPLATATMLYQQWLGASLLSRLSRDR 181

Query: 196 KPMD 199
            PM+
Sbjct: 182 APME 185


  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    0.137    0.410 

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: 630,722
Number of extensions: 23923
Number of successful extensions: 73
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 73
Number of HSP's successfully gapped: 1
Length of query: 212
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 131
Effective length of database: 1,236,335
Effective search space: 161959885
Effective search space used: 161959885
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: 128 (53.9 bits)