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= 0241.0025.p
         (93 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309384|ref|YP_003773476.1| transcription regulator protein...    54   3e-09
gi|300309660|ref|YP_003773752.1| LysR family transcription regul...    52   9e-09

>gi|300309384|ref|YP_003773476.1| transcription regulator protein
          [Herbaspirillum seropedicae SmR1]
          Length = 302

 Score = 53.5 bits (127), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 25/67 (37%), Positives = 38/67 (56%)

Query: 1  VTNQVSALETHFRTKLLNRTTRSMSLTEEGRRCYEQALLLLDGMSDLEGSMMQSHSLPAG 60
          ++ ++  LE     +LL R+T +M +TE+G RCYE+A  LL G  D E  +  +     G
Sbjct: 27 ISRRLQTLERSLGVRLLQRSTHAMKMTEDGERCYERAKELLAGWDDFENELRGARQHAEG 86

Query: 61 TLRVDMP 67
           LRV +P
Sbjct: 87 ALRVVVP 93


>gi|300309660|ref|YP_003773752.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 337

 Score = 52.0 bits (123), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 29/77 (37%), Positives = 43/77 (55%)

Query: 1   VTNQVSALETHFRTKLLNRTTRSMSLTEEGRRCYEQALLLLDGMSDLEGSMMQSHSLPAG 60
           VT  V  LE+  + +LLNRTTR +SLT +G   YE+ + +L  + + E S       P G
Sbjct: 33  VTTLVQGLESMLQVRLLNRTTRRISLTPDGAAYYERCVRILADLDETEQSFRNVTRGPQG 92

Query: 61  TLRVDMPSIILPFRSLP 77
            LR+D+P+ +     LP
Sbjct: 93  RLRIDVPASVGRLMLLP 109


  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
   0.318    0.133    0.373 

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: 258,608
Number of extensions: 8729
Number of successful extensions: 64
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 64
Number of HSP's successfully gapped: 2
Length of query: 93
Length of database: 1,619,870
Length adjustment: 63
Effective length of query: 30
Effective length of database: 1,321,565
Effective search space: 39646950
Effective search space used: 39646950
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 (21.7 bits)
S2: 123 (52.0 bits)