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= 0001.3761.p
         (346 letters)

Database: BlastDatabases/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134093979|ref|YP_001099054.1| LysR family transcriptional reg...    60   2e-10

>gi|134093979|ref|YP_001099054.1| LysR family transcriptional
           regulator [Herminiimonas arsenicoxydans]
          Length = 297

 Score = 60.1 bits (144), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/124 (33%), Positives = 57/124 (45%)

Query: 1   MESKWLEDFVSLAETRSFSRSAELRHVTQPAFSRRIQSLEAWLGSDLIDRTSYPTRLTAA 60
           +E + L  FV++AE   F R+A   H+TQP  S+ IQSLEA LG  L  RTS    LT A
Sbjct: 3   IELRQLRYFVTVAEEMHFGRAAIRLHMTQPPLSQAIQSLEAMLGVQLFRRTSRSVALTPA 62

Query: 61  GEVFYEQAVAMLGQINNTRALLRGKRPTAQTTIDFAVPHTLSLTYMPKWLSALESGFGAI 120
           G     +A  +L Q      L+R     A   +  A   T   + +P +L      +  +
Sbjct: 63  GSALLPEAQRILQQTAALPDLMRRVTSGASGRLSLAFVSTADYSVLPPFLREFRESYPGV 122

Query: 121 NTRL 124
              L
Sbjct: 123 EIDL 126


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
Lambda     K      H
   0.318    0.131    0.383 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3295
Number of Hits to DB: 619,091
Number of extensions: 24110
Number of successful extensions: 78
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 79
Number of HSP's successfully gapped: 1
Length of query: 346
Length of database: 1,000,347
Length adjustment: 82
Effective length of query: 264
Effective length of database: 730,157
Effective search space: 192761448
Effective search space used: 192761448
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 129 (54.3 bits)