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= 0010.0025.p
         (338 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...   323   9e-90

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

 Score =  323 bits (829), Expect = 9e-90,   Method: Compositional matrix adjust.
 Identities = 152/200 (76%), Positives = 179/200 (89%), Gaps = 2/200 (1%)

Query: 1   MNTIEAKKVLETALLCAHEPLSINELKKLYVSGD-DAASEITADIIRQMLEELREDWIDK 59
           MN  EAKKVLETALLC HEPLSIN+LKKLYV  + + +S+I A++IRQML+ELR +W DK
Sbjct: 1   MNIAEAKKVLETALLCTHEPLSINDLKKLYVDPESEESSDINAEMIRQMLDELRTEWADK 60

Query: 60  GVEVVSLSTGWRFQSRAEMKVYLDRLNPEKPPKYTRATLETLAIIAYRQPVTRGDIEEIR 119
           GVEVVSLSTGWRFQSR EMKVYL+RLNPEKPP+YTRATLETLAIIAYRQPVTRGDIE+IR
Sbjct: 61  GVEVVSLSTGWRFQSRKEMKVYLERLNPEKPPRYTRATLETLAIIAYRQPVTRGDIEDIR 120

Query: 120 GVTVSTQTVKLLEDRAWIEAIGHRDVPGRPALFATTRKFLDDLGLTSLDQLPPLKTVTKD 179
           GV V++QT+K+LE+R WIE+IGHRDVPGRPALFATTRKFLDDLGL++L++LPPL+ V+ +
Sbjct: 121 GVAVNSQTIKMLEERGWIESIGHRDVPGRPALFATTRKFLDDLGLSALEELPPLQQVSGE 180

Query: 180 GVVDPGALLELQALEAGMQA 199
                GALLELQALE+G+ A
Sbjct: 181 AAAQ-GALLELQALESGVAA 199


  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
   0.309    0.127    0.347 

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: 793,362
Number of extensions: 27972
Number of successful extensions: 68
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 67
Number of HSP's successfully gapped: 1
Length of query: 338
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 252
Effective length of database: 1,212,660
Effective search space: 305590320
Effective search space used: 305590320
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: 42 (21.7 bits)
S2: 131 (55.1 bits)