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= 0008.0083.p
         (339 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312902|ref|YP_003776994.1| transcription regulator protein...   475   e-135

>gi|300312902|ref|YP_003776994.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 354

 Score =  475 bits (1223), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 256/354 (72%), Positives = 280/354 (79%), Gaps = 15/354 (4%)

Query: 1   MNIAEAKKVLETALLCTHEPLSINDLKKLYVDPESEESSDINAEMIRQMLDELRTEWADK 60
           MNIAEAKKVLETALLCTHEPLSINDLKKLYVDPESEESSDINAEMIRQMLDELRTEWADK
Sbjct: 1   MNIAEAKKVLETALLCTHEPLSINDLKKLYVDPESEESSDINAEMIRQMLDELRTEWADK 60

Query: 61  GVEVVSLSTGWRFQSRKEMKVYLERLNPEKPPKYTRATLETLAIIAYRQPVTRGDIEEIR 120
           GVEVVSLSTGWRFQSRKEMKVYLERLNPEKPP+YTRATLETLAIIAYRQPVTRGDIE+IR
Sbjct: 61  GVEVVSLSTGWRFQSRKEMKVYLERLNPEKPPRYTRATLETLAIIAYRQPVTRGDIEDIR 120

Query: 121 GVAVNTQTIRMLEDRGWIESIGHRDVPGRPALFATTRKFLDDLGLSSLEELPPLQQVSGE 180
           GVAVN+QTI+MLE+RGWIESIGHRDVPGRPALFATTRKFLDDLGLS+LEELPPLQQVSGE
Sbjct: 121 GVAVNSQTIKMLEERGWIESIGHRDVPGRPALFATTRKFLDDLGLSALEELPPLQQVSGE 180

Query: 181 AAAQGALLELQALEGGVAALAE--------------AEQEEGEDAGAAEALDSAATAEAT 226
           AAAQGALLELQALE GVAALAE              A+++ GED  +A+A    A  + +
Sbjct: 181 AAAQGALLELQALESGVAALAEQEQGQEQGQEQERPADEQSGEDDQSAQAPQDEAELQDS 240

Query: 227 ETNEITEAAEAEAPAQDDPADDLEVPAAGELATEELQQTDIEAAAAGEERAAGSEDASPE 286
              + TE+AEA    +       EV AA + A  + +  D+         A    D S +
Sbjct: 241 AATQATESAEATPSPETVDQALAEVNAAEQEAVGQAEAADVHGDEDAAAAAPSEADDSAQ 300

Query: 287 AQEPFEQDVAVTGT-DATEAAGEAAGEHNDTTERADQREDDARPPHPDSKNEAN 339
             EPFEQD+AVTGT     A  EA GEHNDTTERA++REDDARPPH DSKNEAN
Sbjct: 301 THEPFEQDLAVTGTDAIEAADAEATGEHNDTTERAEEREDDARPPHQDSKNEAN 354


  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
   0.306    0.125    0.338 

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: 618,578
Number of extensions: 18396
Number of successful extensions: 40
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 38
Number of HSP's successfully gapped: 1
Length of query: 339
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 253
Effective length of database: 1,212,660
Effective search space: 306802980
Effective search space used: 306802980
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 131 (55.1 bits)