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= 0032.0160.p
         (101 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310296|ref|YP_003774388.1| helix-turn-helix motif containi...    76   5e-16

>gi|300310296|ref|YP_003774388.1| helix-turn-helix motif
          containing protein [Herbaspirillum seropedicae SmR1]
          Length = 102

 Score = 75.9 bits (185), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 37/92 (40%), Positives = 57/92 (61%), Gaps = 3/92 (3%)

Query: 3  KKLEEIHPGEILLEEFIKPMGMTAARVASDIDVPVSRISEIINGKRPVTVDTAVRLGVYF 62
          +K++ + PGE+L  EF++P+ +   R+A +I V   RISEI+NGKR +T DT +RL  +F
Sbjct: 2  RKIDSVSPGELLKREFLEPLCIAQYRLAKEIGVSQLRISEIVNGKRAITADTDLRLARFF 61

Query: 63 KMDPLFWLNLQSEYDVRIA---YRDLLPVIKS 91
           +   +WL  Q  +D  +A    RD+L  IK 
Sbjct: 62 GLSDGYWLRAQVVHDTEVAREKMRDVLAGIKQ 93


  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
   0.323    0.140    0.406 

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: 300,928
Number of extensions: 10176
Number of successful extensions: 28
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 28
Number of HSP's successfully gapped: 1
Length of query: 101
Length of database: 1,619,870
Length adjustment: 70
Effective length of query: 31
Effective length of database: 1,288,420
Effective search space: 39941020
Effective search space used: 39941020
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 123 (52.0 bits)