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= 0012.0134.p
         (221 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309859|ref|YP_003773951.1| LysR family transcription regul...    69   3e-13

>gi|300309859|ref|YP_003773951.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 297

 Score = 68.9 bits (167), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 56/193 (29%), Positives = 87/193 (45%), Gaps = 2/193 (1%)

Query: 2   ILLAARKMVDIANRIRYQFSNTTLDGLVRFGFTQGFSLPMLFALLSELRRVQPRLEVRCE 61
           +L+ AR ++    R   QFS   L G VRFG +   ++  L  +L+  R   P +E+   
Sbjct: 80  LLVHARLILQAHARAEAQFSAPRLRGRVRFGTSDDLAMGPLPDMLAAFRSQHPEVELEIT 139

Query: 62  TGRTSQLLAKLEAGGLDVVLGAQADGNAQGEVMRRERLVWVGDLHHLVRPGMTIPLVVLP 121
            G TS L A L+ G LD+++G +  G ++G  M    + W+     LV     +PL++LP
Sbjct: 140 IGLTSDLYASLDQGKLDLLVGKRRSGESRGHSMFSTPMQWLTRPDTLVDLAEPLPLILLP 199

Query: 122 APTFIREHIFDTLSSAGHKWTVHFESDDPASLRTAIRSGWGISLFNEETVLGDFTLPHAM 181
            P+  R      L  +GH W +   S   A    A R G G++   +     D   P  +
Sbjct: 200 EPSITRAATLQALGKSGHHWRIVCTSGSHAGCMAAARGGLGLAALPQHLASRDLVPP--L 257

Query: 182 ETTLLPFPGHVEF 194
               LP    VE+
Sbjct: 258 NHAALPALPDVEY 270


  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
   0.326    0.141    0.425 

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: 718,957
Number of extensions: 30244
Number of successful extensions: 127
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 128
Number of HSP's successfully gapped: 1
Length of query: 221
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 139
Effective length of database: 1,231,600
Effective search space: 171192400
Effective search space used: 171192400
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 129 (54.3 bits)