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= 0012.0071.p
         (141 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313304|ref|YP_003777396.1| MarR family transcription regul...    55   3e-09

>gi|300313304|ref|YP_003777396.1| MarR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 161

 Score = 54.7 bits (130), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 40/130 (30%), Positives = 66/130 (50%), Gaps = 13/130 (10%)

Query: 1   MPTLLINRLSRALLKPVDDRLREVGISTSQLPVLVALKDGSKRTQKELAELAGVEQPSMA 60
           MP L   R+++  L+PVD              VL  LK      QK L++   V  P++A
Sbjct: 42  MP-LFEKRMAKFELRPVD------------FTVLSLLKANPDINQKRLSKAINVSPPNLA 88

Query: 61  QLLGRMERDNLIVREASPTDRRSSLVSLTEHAHQLLEPGRVVLREIDQDVCVVLSREEKE 120
            LL R+E+  L++R+ +P DRRS +++LT    ++         E++     +LS  E+ 
Sbjct: 89  TLLDRLEQRGLVLRQRNPQDRRSQVLALTTAGLRMCTKAEQTAIELELKATEMLSDAERA 148

Query: 121 LLVGLLQRLI 130
            L+GLLQ++ 
Sbjct: 149 QLIGLLQKMF 158


  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    0.134    0.352 

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: 398,477
Number of extensions: 14537
Number of successful extensions: 68
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 69
Number of HSP's successfully gapped: 1
Length of query: 141
Length of database: 1,619,870
Length adjustment: 76
Effective length of query: 65
Effective length of database: 1,260,010
Effective search space: 81900650
Effective search space used: 81900650
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 (21.6 bits)
S2: 126 (53.1 bits)