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= 0001.0476.p
         (214 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309821|ref|YP_003773913.1| transcription regulator protein...   412   e-116
gi|300310692|ref|YP_003774784.1| transcription regulator protein...    60   1e-10

>gi|300309821|ref|YP_003773913.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 211

 Score =  412 bits (1058), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 196/210 (93%), Positives = 206/210 (98%)

Query: 1   MARSTKEEALETRARILDAAEQVFHQRGVSQTSLADVAKAAEVTRGAIYWHFKNKSDLFD 60
           MARSTKEEALETR+RILDAAEQVFH+RGVSQTSLADVAKAAEVTRGAIYWHFKNKSDLFD
Sbjct: 1   MARSTKEEALETRSRILDAAEQVFHERGVSQTSLADVAKAAEVTRGAIYWHFKNKSDLFD 60

Query: 61  AMCERVRLPMEAVLEENASPQLEDPLGQFLRSGIYVLTMAATDERCRRVFDIIFNKCEFA 120
           AMCERVRLPMEAVLEENASPQ+EDPLGQFLRSG+YVLTMAATDERCRRVFDIIFNKCEFA
Sbjct: 61  AMCERVRLPMEAVLEENASPQVEDPLGQFLRSGVYVLTMAATDERCRRVFDIIFNKCEFA 120

Query: 121 DAHDPILIRQRECHVDGLLRLEQILMNAVARGQLPATLDIRLACLAAHATFSGLLTDWFF 180
           DAHDPILIRQRECHVDG+LRLEQIL NAVARGQLPATLDIRLACL  HATFSGLLTDWFF
Sbjct: 121 DAHDPILIRQRECHVDGMLRLEQILGNAVARGQLPATLDIRLACLMTHATFSGLLTDWFF 180

Query: 181 SPDSFDLVKDGERILAASLYALKTAPSLQK 210
           SPDSFDLV +GER+LAAS++ALKTAPSLQ+
Sbjct: 181 SPDSFDLVSEGERVLAASMHALKTAPSLQR 210


>gi|300310692|ref|YP_003774784.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 204

 Score = 60.5 bits (145), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 51/183 (27%), Positives = 88/183 (48%), Gaps = 6/183 (3%)

Query: 28  GVSQTSLADVAKAAEVTRGAIYWHFKNKSDLFDAMCERVRLPMEAVLEENASPQLEDPLG 87
           GV  T+L  VA +A +TRGA+YWHF +K  L  A+ E +R P E   + +A    ++PLG
Sbjct: 23  GVRATTLEHVAASAALTRGAVYWHFPDKKALVTAVFEEMRWPFELGEDLSAYHACDNPLG 82

Query: 88  QFLRSGIYV-LTMAATDERCRRVFDIIFNKCEFADAHDPILIRQRECHVDGLLRLEQILM 146
             LR  +++ +     D R RR  +I+       +  + + +R     +  +  L  ++ 
Sbjct: 83  -LLREVLWLQMRQGVADLRQRRRMEIVLRYRGTPELPEELSLRLETMILRAVSELTAVIN 141

Query: 147 NAVARGQLPATL---DIRLACLAAH-ATFSGLLTDWFFSPDSFDLVKDGERILAASLYAL 202
            A  RG L   L   D+  + +AA     +  + D   +P+ +  +  G  ++ AS  AL
Sbjct: 142 IAYERGTLRRGLTPIDVARSIVAASLGVIAENMDDAQAAPEGYFYLTPGLVLVGASTLAL 201

Query: 203 KTA 205
           + A
Sbjct: 202 EDA 204


  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
   0.323    0.135    0.394 

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: 616,332
Number of extensions: 23707
Number of successful extensions: 85
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 88
Number of HSP's successfully gapped: 2
Length of query: 214
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 133
Effective length of database: 1,236,335
Effective search space: 164432555
Effective search space used: 164432555
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 128 (53.9 bits)