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= 0001.3538.p
         (266 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134094239|ref|YP_001099314.1| LyR/AlgR family two component r...   114   5e-27
gi|134095064|ref|YP_001100139.1| LuxR family transcriptional reg...    57   6e-10
gi|134094861|ref|YP_001099936.1| nitrate/nitrite response regula...    54   7e-09

>gi|134094239|ref|YP_001099314.1| LyR/AlgR family two component
           response transcriptional regulator [Herminiimonas
           arsenicoxydans]
          Length = 267

 Score =  114 bits (285), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 94/277 (33%), Positives = 137/277 (49%), Gaps = 45/277 (16%)

Query: 4   PTALIAEDEP----LLAQALRQALARCWPELPAPQLAVNGDEALEQALLLLPDVLFLDIK 59
           P   I +DE      L   L    A C  EL     A    +AL++     PD++ LD++
Sbjct: 2   PRIFIVDDEAPARARLTTLLSDIAAECPHELVGE--ASQAQQALDRIAETAPDIVLLDVQ 59

Query: 60  MPGRSGLEVARELAEEWPAQRPFPLIVFVTAYDDYALQAFERAAIDYLLKPVSQERLALT 119
           MPG +G+E+A  LA     Q P P I+FVTAYD+YALQAFE  A+DYLLKPV   RLA  
Sbjct: 60  MPGMTGIEMAAHLARN---QTPVPAIIFVTAYDEYALQAFEVHALDYLLKPVRAARLAEA 116

Query: 120 VTRLQSLLAQRAAGEQEAQLERALAQLRTLSTPFTEEAPPRLDYIRAAVGNKVRMIAVDD 179
           + R+ +L  ++ AG QE  +  A A L+ +   F+ +   RL            ++ V +
Sbjct: 117 IRRVHAL--KQGAGAQEKLMADATAPLQAMRRNFSVQERGRL-----------LLVPVSE 163

Query: 180 VLYFEATDKYVNVVTAQGDALIRTSLRELIPQLDGRQFWQIHRSTVVQVRQIQAAVRDES 239
           VLY +A  KYV + T + + L+  +L  L  +    QF ++HR+ +V  R   A V  E 
Sbjct: 164 VLYLKAEAKYVTLRTREREYLLEGALSALEQEF-SMQFIRVHRNALV-ARHAIAGV--ER 219

Query: 240 GKL-------------------SLTLHGRPEKLAVSR 257
           G+L                    + LHG  ++L +SR
Sbjct: 220 GQLLVDMENDGHNDGDRAQESWQVILHGISDRLPISR 256


>gi|134095064|ref|YP_001100139.1| LuxR family transcriptional
           regulator [Herminiimonas arsenicoxydans]
          Length = 215

 Score = 57.4 bits (137), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 38/107 (35%), Positives = 60/107 (56%), Gaps = 3/107 (2%)

Query: 3   APTALIAEDEPLLAQALRQALARCWPELPAPQLAVNGDEALEQALLLLPDVLFLDIKMPG 62
           A   LIA+D  ++ + L+Q LA     + A   A NG EA+  +   L +VL LDI MP 
Sbjct: 6   AIKVLIADDHAIVREGLKQILADTRDIVVAGH-AENGSEAIRLSREGLCNVLLLDISMPD 64

Query: 63  RSGLEVARELAEEWPAQRPFPLIVFVTAYDDYALQAFERAAIDYLLK 109
           RSG+EV +++ +E P  +   L++ +   D YA+++ +  A  YL K
Sbjct: 65  RSGIEVLKQVRKESP--KIAILMLSMHREDQYAIRSLKAGAAGYLNK 109


>gi|134094861|ref|YP_001099936.1| nitrate/nitrite response regulator
           protein [Herminiimonas arsenicoxydans]
          Length = 235

 Score = 54.3 bits (129), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 38/119 (31%), Positives = 59/119 (49%), Gaps = 5/119 (4%)

Query: 5   TALIAEDEPLLAQALRQALARCWPELPAPQLAVNGDEALEQALLLLPDVLFLDIKMPGRS 64
           + L+ +D  L    +R  L R +PE      A +G E +++A  L PDV+ LD+ MPG S
Sbjct: 19  SVLLIDDHTLFRSGIRSLLQR-YPEFSVVGEAADGVEGIKRARQLQPDVVLLDLNMPGIS 77

Query: 65  GLEVARELAEEWPAQRPFPLIVFVTAYD-DYALQAFERAAIDYLLKPVSQERLALTVTR 122
           GL+  + + ++ P      L V   A D   ALQ+  R    YL+K +  + L   + R
Sbjct: 78  GLQTLQLMLQDCPNTAVIMLTVSEDAEDLGVALQSGARG---YLIKNIDADYLVRAIQR 133


  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
   0.322    0.135    0.384 

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: 410,309
Number of extensions: 13958
Number of successful extensions: 90
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 93
Number of HSP's successfully gapped: 3
Length of query: 266
Length of database: 1,000,347
Length adjustment: 80
Effective length of query: 186
Effective length of database: 736,747
Effective search space: 137034942
Effective search space used: 137034942
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)