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= 0036.0307.p
         (103 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...    72   6e-15
gi|300313553|ref|YP_003777645.1| plasmid maintenance system anti...    58   2e-10

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

 Score = 72.4 bits (176), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 39/91 (42%), Positives = 56/91 (61%), Gaps = 3/91 (3%)

Query: 7  RMRPIHPGEILREEFLAPINLSANALAIALHVPATRIGEIVNERRGISPDTALRLARFFG 66
          ++  + PGE+L+ EFL P+ ++   LA  + V   RI EIVN +R I+ DT LRLARFFG
Sbjct: 3  KIDSVSPGELLKREFLEPLCIAQYRLAKEIGVSQLRISEIVNGKRAITADTDLRLARFFG 62

Query: 67 GDAQSWLNLQMTYDLKIAQ---RDHGARIEQ 94
               WL  Q+ +D ++A+   RD  A I+Q
Sbjct: 63 LSDGYWLRAQVVHDTEVAREKMRDVLAGIKQ 93


>gi|300313553|ref|YP_003777645.1| plasmid maintenance system
          antidote protein [Herbaspirillum seropedicae SmR1]
          Length = 91

 Score = 57.8 bits (138), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/82 (42%), Positives = 45/82 (54%), Gaps = 4/82 (4%)

Query: 6  NRM-RPIHPGEILREEFLAPINLSANALAIALHVPATRIGEIVNERRGISPDTALRLARF 64
          NRM  P HPGE+LRE +L    ++    A+ L V    +  IVN   GISPD A RLA  
Sbjct: 2  NRMFNPPHPGEVLRE-YLG--EMTVTEAAMRLGVSRVTLQRIVNGAAGISPDMAYRLAAA 58

Query: 65 FGGDAQSWLNLQMTYDLKIAQR 86
          FG   + W  +Q+ YDL  A +
Sbjct: 59 FGTSPELWAGMQLQYDLHAASK 80


  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
   0.320    0.135    0.391 

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: 290,975
Number of extensions: 8785
Number of successful extensions: 33
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 32
Number of HSP's successfully gapped: 2
Length of query: 103
Length of database: 1,619,870
Length adjustment: 71
Effective length of query: 32
Effective length of database: 1,283,685
Effective search space: 41077920
Effective search space used: 41077920
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 123 (52.0 bits)