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= 0015.0184.p
         (255 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310378|ref|YP_003774470.1| transcription regulator protein...    65   6e-12

>gi|300310378|ref|YP_003774470.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 282

 Score = 65.1 bits (157), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 59/212 (27%), Positives = 94/212 (44%), Gaps = 28/212 (13%)

Query: 30  AVNRALMILDCFTSDESVLSLAVISKKTGLYKSTILRLVQSLEAYGYINRLISGS--YVL 87
           A+++ L IL+  +  E +L+L  IS++ G   + I R+V +LE  GY   LI+ +  Y L
Sbjct: 35  ALDKGLDILELLSRSEQMLTLNQISRQLGRSVNEIFRMVVTLEQRGY---LIADNDHYRL 91

Query: 88  GAAPIKLASIASKALHPAEKVMPVLRELAQTTSSSASFYVRTGEMRLCAYRVDSPRSIRD 147
                +LA             +P +RELA     S    V      +   +VDSP     
Sbjct: 92  SLKLFELAHHHQPIRSLVSTALPHMRELASRAVQSTHLTVYEAGRVIVVAQVDSPERWAF 151

Query: 148 NVQAGQLLALDKGAGGHVLTAFDN-------------LSGDQLVQMPQPFIRV----TRG 190
            ++ G L++L   A GHVL AF +             + G+Q ++  Q   ++     RG
Sbjct: 152 GLKVGALVSLTDTASGHVLLAFRDEAERAAMLAAHVRMDGEQEIETAQLMRQIEDTRKRG 211

Query: 191 ERDSETAAI------ACPVFGVNNRLEGALSL 216
               E+  I      + PV G NNR+  AL++
Sbjct: 212 HSRMESRQIRGVVNLSYPVMGANNRMLAALNV 243


  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
   0.317    0.132    0.364 

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: 720,801
Number of extensions: 27616
Number of successful extensions: 113
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 114
Number of HSP's successfully gapped: 1
Length of query: 255
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 172
Effective length of database: 1,226,865
Effective search space: 211020780
Effective search space used: 211020780
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 129 (54.3 bits)