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= 0038.0061.p
         (69 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309845|ref|YP_003773937.1| LysR family transcription regul...    55   7e-10
gi|300309577|ref|YP_003773669.1| transcription regulator protein...    55   1e-09
gi|300310443|ref|YP_003774535.1| LysR family transcription regul...    53   5e-09

>gi|300309845|ref|YP_003773937.1| LysR family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 294

 Score = 55.5 bits (132), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 25/47 (53%), Positives = 36/47 (76%)

Query: 4  LPPLKSVIAFEVVARLGNISKAAEELNLTPSAVSHQITNLENFVGLK 50
          +PPL S++AFE +AR  + + AA EL+LTPSA+SHQ+  LE  +GL+
Sbjct: 2  IPPLTSLMAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLR 48


>gi|300309577|ref|YP_003773669.1| transcription regulator protein
          [Herbaspirillum seropedicae SmR1]
          Length = 301

 Score = 55.1 bits (131), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 28/50 (56%), Positives = 35/50 (70%)

Query: 4  LPPLKSVIAFEVVARLGNISKAAEELNLTPSAVSHQITNLENFVGLKPIL 53
          LPPL S+IAFE   R G+ ++AA EL+LT SA+S QI  LE F+G K  L
Sbjct: 6  LPPLPSLIAFEAAMRHGSFTRAAAELHLTQSAISRQIAQLERFLGKKLFL 55


>gi|300310443|ref|YP_003774535.1| LysR family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 295

 Score = 52.8 bits (125), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 37/50 (74%)

Query: 1  MHHLPPLKSVIAFEVVARLGNISKAAEELNLTPSAVSHQITNLENFVGLK 50
          M  LPPL ++ AFE VAR  + + AA EL+LT SAVSHQ+  LE+++G++
Sbjct: 1  MAVLPPLPNLQAFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIR 50


  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    0.136    0.392 

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: 192,165
Number of extensions: 5440
Number of successful extensions: 49
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 50
Number of HSP's successfully gapped: 3
Length of query: 69
Length of database: 1,619,870
Length adjustment: 41
Effective length of query: 28
Effective length of database: 1,425,735
Effective search space: 39920580
Effective search space used: 39920580
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: 123 (52.0 bits)