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= 0001.1992.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...    75   1e-15
gi|300313553|ref|YP_003777645.1| plasmid maintenance system anti...    55   1e-09

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

 Score = 75.1 bits (183), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 36/81 (44%), Positives = 51/81 (62%)

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

Query: 67 GDAQSWLNLQMTHDLKIAQQE 87
               WL  Q+ HD ++A+++
Sbjct: 63 LSDGYWLRAQVVHDTEVAREK 83


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

 Score = 55.1 bits (131), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 32/82 (39%), Positives = 43/82 (52%), Gaps = 4/82 (4%)

Query: 6  NRM-RPIHPGEILREEFLAPANLSANALAIALRVPATRIGEIVNERRGITPDTALRLARF 64
          NRM  P HPGE+LRE       ++    A+ L V    +  IVN   GI+PD A RLA  
Sbjct: 2  NRMFNPPHPGEVLREYL---GEMTVTEAAMRLGVSRVTLQRIVNGAAGISPDMAYRLAAA 58

Query: 65 FGGDAQSWLNLQMTHDLKIAQQ 86
          FG   + W  +Q+ +DL  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
   0.319    0.133    0.381 

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: 288,943
Number of extensions: 8551
Number of successful extensions: 30
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 29
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)