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= 0099.0017.p
         (260 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312563|ref|YP_003776655.1| transcription regulator protein...   171   6e-44
gi|300310688|ref|YP_003774780.1| transcription regulator protein...   113   2e-26

>gi|300312563|ref|YP_003776655.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 200

 Score =  171 bits (433), Expect = 6e-44,   Method: Compositional matrix adjust.
 Identities = 83/161 (51%), Positives = 112/161 (69%), Gaps = 3/161 (1%)

Query: 23  ARLGGSKATLYNYFSSKEEIFLQVMKQQAGMQFESLFAILIQDDGSADMRDTLRLFANKY 82
           AR+GGSKATLYNYF+SKEEIF++VM +Q G QFE LF  L  +D   D++  L   A  Y
Sbjct: 35  ARIGGSKATLYNYFNSKEEIFVEVMIKQVGCQFEELFMALRNED---DVKGGLLRLARHY 91

Query: 83  LHLVLSPEVIAVRRLLYYNAERSELGCMYYENGPKRGWLVISEFMKRHMESGELREADPW 142
           L +V  PE++AV+RL  Y A +S LG + YE GPKRGW  I+EF++  ME G+L   DPW
Sbjct: 92  LRVVFRPEIVAVKRLGIYYAGKSNLGPLLYERGPKRGWTRIAEFLQAKMEEGKLHRTDPW 151

Query: 143 LTAIQFRVLVEAEWAEGRILGVITSTPPDKIKESVERSLDA 183
           L A+Q+R L+EAEW E R+L V+T    D++  S +R+++A
Sbjct: 152 LAAMQYRGLMEAEWMEVRMLNVVTDIAEDQLDASAQRAVEA 192


>gi|300310688|ref|YP_003774780.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 201

 Score =  113 bits (283), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 57/160 (35%), Positives = 97/160 (60%), Gaps = 2/160 (1%)

Query: 23  ARLGGSKATLYNYFSSKEEIFLQVMKQQAGMQFESLFAILIQDDGSADMRDTLRLFANKY 82
           AR+GGSK TLY+YF SKEE+F+ V  +QA  Q E   A L +D G  D++ TL++F  K 
Sbjct: 35  ARIGGSKGTLYSYFKSKEELFVAVTHEQAKKQMEPALAALEKDTG--DLQKTLQVFGEKA 92

Query: 83  LHLVLSPEVIAVRRLLYYNAERSELGCMYYENGPKRGWLVISEFMKRHMESGELREADPW 142
           +  +     +   R++   + RS++G  ++E+GPK G   I+ F+ R M++G L++ADP 
Sbjct: 93  VSFLCQESTLQTHRMIVAESGRSDIGRRFHESGPKLGMERIAAFLSRQMQAGRLKQADPM 152

Query: 143 LTAIQFRVLVEAEWAEGRILGVITSTPPDKIKESVERSLD 182
           L  +Q   L++ E  +  +LG+ ++    ++K  V R+++
Sbjct: 153 LATLQLCALLDCETVKPMMLGLESAISRPRMKRMVGRAVE 192


  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
   0.320    0.132    0.393 

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: 747,395
Number of extensions: 26717
Number of successful extensions: 72
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 70
Number of HSP's successfully gapped: 2
Length of query: 260
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 177
Effective length of database: 1,226,865
Effective search space: 217155105
Effective search space used: 217155105
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: 129 (54.3 bits)