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= 0007.0002.p
         (204 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310692|ref|YP_003774784.1| transcription regulator protein...   405   e-114
gi|300309821|ref|YP_003773913.1| transcription regulator protein...    73   2e-14

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

 Score =  405 bits (1042), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 203/204 (99%), Positives = 204/204 (100%)

Query: 1   MARADQTRAILLDAALAAFARRGVRATTLEHVAASAALTRGAVYWHFPDKKALVTAVFEE 60
           MARADQTRA+LLDAALAAFARRGVRATTLEHVAASAALTRGAVYWHFPDKKALVTAVFEE
Sbjct: 1   MARADQTRALLLDAALAAFARRGVRATTLEHVAASAALTRGAVYWHFPDKKALVTAVFEE 60

Query: 61  MRWPFELGEDLSAYHACDNPLGLLREVLWLQMRQGVADLRQRRRMEIVLRYRGTPELPEE 120
           MRWPFELGEDLSAYHACDNPLGLLREVLWLQMRQGVADLRQRRRMEIVLRYRGTPELPEE
Sbjct: 61  MRWPFELGEDLSAYHACDNPLGLLREVLWLQMRQGVADLRQRRRMEIVLRYRGTPELPEE 120

Query: 121 LSLRLETMILRAVSELTAVINIAYERGTLRRGLTPIDVARSIVAASLGVIAENMDDAQAA 180
           LSLRLETMILRAVSELTAVINIAYERGTLRRGLTPIDVARSIVAASLGVIAENMDDAQAA
Sbjct: 121 LSLRLETMILRAVSELTAVINIAYERGTLRRGLTPIDVARSIVAASLGVIAENMDDAQAA 180

Query: 181 PEGYFYLTPGLVLVGASTLALEDA 204
           PEGYFYLTPGLVLVGASTLALEDA
Sbjct: 181 PEGYFYLTPGLVLVGASTLALEDA 204


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

 Score = 72.8 bits (177), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 59/200 (29%), Positives = 100/200 (50%), Gaps = 6/200 (3%)

Query: 6   QTRAILLDAALAAFARRGVRATTLEHVAASAALTRGAVYWHFPDKKALVTAVFEEMRWPF 65
           +TR+ +LDAA   F  RGV  T+L  VA +A +TRGA+YWHF +K  L  A+ E +R P 
Sbjct: 11  ETRSRILDAAEQVFHERGVSQTSLADVAKAAEVTRGAIYWHFKNKSDLFDAMCERVRLPM 70

Query: 66  ELGEDLSAYHACDNPLG-LLREVLWLQMRQGVADLRQRRRMEIVLRYRGTPELPEELSLR 124
           E   + +A    ++PLG  LR  +++ +     D R RR  +I+       +  + + +R
Sbjct: 71  EAVLEENASPQVEDPLGQFLRSGVYV-LTMAATDERCRRVFDIIFNKCEFADAHDPILIR 129

Query: 125 LETMILRAVSELTAVINIAYERGTLRRGLTPIDVARSIVAASLGVIAENMDDAQAAPEGY 184
                +  +  L  ++  A  RG L   L  I +A  +  A+   +   + D   +P+ +
Sbjct: 130 QRECHVDGMLRLEQILGNAVARGQLPATLD-IRLACLMTHATFSGL---LTDWFFSPDSF 185

Query: 185 FYLTPGLVLVGASTLALEDA 204
             ++ G  ++ AS  AL+ A
Sbjct: 186 DLVSEGERVLAASMHALKTA 205


  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    0.391 

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: 519,372
Number of extensions: 18523
Number of successful extensions: 78
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 78
Number of HSP's successfully gapped: 2
Length of query: 204
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 123
Effective length of database: 1,236,335
Effective search space: 152069205
Effective search space used: 152069205
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)