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= 0210.0011.p
         (210 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311849|ref|YP_003775941.1| LysR family transcription regul...   342   1e-95

>gi|300311849|ref|YP_003775941.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 309

 Score =  342 bits (877), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 165/205 (80%), Positives = 183/205 (89%)

Query: 1   VALAVDVFFPTDCLVDLLRRFRDAFPAVTVRLEVEALGAVAERVIDGRAMLGILGTLPTT 60
           +ALAVDVFFP DCLVDLL+RFR AFPAVTVRLEVEALGAVAERVIDGRAMLGILGTLPTT
Sbjct: 98  MALAVDVFFPLDCLVDLLQRFRAAFPAVTVRLEVEALGAVAERVIDGRAMLGILGTLPTT 157

Query: 61  PPNLLRVTLPSVMVVGVVSPQHPLAAVKGRIPDKLLAQQTQLVLSDRSELTARQDFSVHS 120
           PPNL+R+TLPSV +V VV+P HPLA VKGRI +K+L QQTQLVLSDRSELTARQDFSVHS
Sbjct: 158 PPNLMRITLPSVRLVAVVAPHHPLAKVKGRIAEKMLLQQTQLVLSDRSELTARQDFSVHS 217

Query: 121 RLSWRMSDLGTKHALLRAAMGWGYMPEHVVKDDLKSGKLVRILTSQHSPEGMALPIQCVY 180
           RL+WRMSDLGTKHALLRA MGWG MP HVVK+DL +G+LV I T  H P+G  LPIQCVY
Sbjct: 218 RLTWRMSDLGTKHALLRAGMGWGNMPLHVVKEDLAAGRLVSISTIHHPPQGAELPIQCVY 277

Query: 181 RPDYRAGPALSWWLDSLAGLKTLDG 205
           +PD+RAGPALSWWLD+LA L +L+ 
Sbjct: 278 KPDHRAGPALSWWLDALANLGSLEA 302


  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
   0.322    0.137    0.413 

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: 627,727
Number of extensions: 23278
Number of successful extensions: 104
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 106
Number of HSP's successfully gapped: 1
Length of query: 210
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 129
Effective length of database: 1,236,335
Effective search space: 159487215
Effective search space used: 159487215
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 (21.9 bits)
S2: 128 (53.9 bits)