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= 0002.0390.p
         (105 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311469|ref|YP_003775561.1| oxidative stress resistance two...    78   1e-16
gi|300313830|ref|YP_003777922.1| response regulator protein [Her...    70   4e-14
gi|300310849|ref|YP_003774941.1| two component transcription reg...    69   9e-14
gi|300313665|ref|YP_003777757.1| two component transcription reg...    64   2e-12
gi|300309361|ref|YP_003773453.1| response regulator for cobalt/z...    61   2e-11

>gi|300311469|ref|YP_003775561.1| oxidative stress resistance two
           component response regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 253

 Score = 78.2 bits (191), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 37/97 (38%), Positives = 59/97 (60%)

Query: 4   LQFGELQIDLAARQVCWKGEEIDLKTSDYNLFVILVQAAGKVLSRDELLRRWRGIDFDGM 63
            +FG+  +DL  R +   G+ I L T ++++  +  + A + LSR++L+   RG +++  
Sbjct: 152 FEFGDFILDLGTRTLKKNGDTISLTTGEFSVLKVFARNARQPLSREKLMEMARGREYEVF 211

Query: 64  DRTVDVSISRLRKRFNDDAQEPRKIKTVWGRGYLFSP 100
           DR++DV ISRLRK    D   P  I+TVWG GY+F P
Sbjct: 212 DRSLDVQISRLRKLIEPDPANPLYIQTVWGLGYVFIP 248


>gi|300313830|ref|YP_003777922.1| response regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 237

 Score = 70.1 bits (170), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 39/99 (39%), Positives = 54/99 (54%), Gaps = 1/99 (1%)

Query: 2   RQLQFGELQIDLAARQVC-WKGEEIDLKTSDYNLFVILVQAAGKVLSRDELLRRWRGIDF 60
           R  +F    +D   R +   +G+ + L   DY L    V+  G VL R+ L    RG D 
Sbjct: 131 RYYRFAGFSLDTVERTLVDSQGDIVPLTGMDYQLLKYFVEHPGDVLDRNVLCEETRGRDA 190

Query: 61  DGMDRTVDVSISRLRKRFNDDAQEPRKIKTVWGRGYLFS 99
             +DR++DV IS+LR R ND  ++P  IKTV G GY+FS
Sbjct: 191 GPLDRSLDVQISKLRLRLNDGGRQPHLIKTVRGAGYVFS 229


>gi|300310849|ref|YP_003774941.1| two component transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 248

 Score = 68.6 bits (166), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 37/106 (34%), Positives = 60/106 (56%), Gaps = 1/106 (0%)

Query: 1   VRQLQFGELQIDLAARQVCWK-GEEIDLKTSDYNLFVILVQAAGKVLSRDELLRRWRGID 59
           V  ++F    +DL AR +  + G  + L  +++ L  + +    +VL+RD+LL   +G +
Sbjct: 137 VAAMRFAGWTLDLTARHLVNRDGVVVALSGAEFRLLKVFLDHPNRVLNRDQLLELTQGRE 196

Query: 60  FDGMDRTVDVSISRLRKRFNDDAQEPRKIKTVWGRGYLFSPIAWEE 105
            D  DR+VD+ ISRLR++  DDA+ P  IKTV   GY+ +     E
Sbjct: 197 SDPFDRSVDIQISRLRQKLGDDARTPTIIKTVRNEGYVLATTVTTE 242


>gi|300313665|ref|YP_003777757.1| two component transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 240

 Score = 63.9 bits (154), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/99 (37%), Positives = 54/99 (54%), Gaps = 1/99 (1%)

Query: 1   VRQLQFGELQIDLAARQ-VCWKGEEIDLKTSDYNLFVILVQAAGKVLSRDELLRRWRGID 59
           V  + F   ++D  ARQ +   G  I L  SDY +   L++   + LSRD LL    G +
Sbjct: 134 VSHIHFAGWKLDTQARQAISPSGVTITLGGSDYQVLRALLEHPRRALSRDFLLNTVYGKE 193

Query: 60  FDGMDRTVDVSISRLRKRFNDDAQEPRKIKTVWGRGYLF 98
               DR++DV ISRLR++  D+ +EP  I+TV   GY+ 
Sbjct: 194 AMPFDRSIDVCISRLRQQLGDNPREPALIRTVRNTGYML 232


>gi|300309361|ref|YP_003773453.1| response regulator for
           cobalt/zinc/cadmium resistance transcription regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 235

 Score = 61.2 bits (147), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 31/95 (32%), Positives = 58/95 (61%), Gaps = 1/95 (1%)

Query: 4   LQFGELQIDLAARQVCWKGEEIDLKTSDYNLFVILVQAAGKVLSRDELLRRWRGIDFDGM 63
           +++ ++ +D+  R+V   G+ IDL   ++ L  +L++  G+VLSR ++  +   ++FD  
Sbjct: 126 IEYDDVVLDVLRRKVTRAGQRIDLTAKEFALLHMLIRRPGEVLSRPQIASQVWDMNFDSD 185

Query: 64  DRTVDVSISRLRKRFNDDAQEPRKIKTVWGRGYLF 98
              VDV++ RLR +  D+  E + + TVWG GY+F
Sbjct: 186 TNVVDVAVRRLRAKL-DEGFEKKLLHTVWGMGYVF 219


  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
   0.324    0.140    0.434 

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: 333,275
Number of extensions: 11536
Number of successful extensions: 45
Number of sequences better than 1.0e-08: 7
Number of HSP's gapped: 50
Number of HSP's successfully gapped: 7
Length of query: 105
Length of database: 1,619,870
Length adjustment: 72
Effective length of query: 33
Effective length of database: 1,278,950
Effective search space: 42205350
Effective search space used: 42205350
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 123 (52.0 bits)