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= 0034.0029.p
         (127 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312793|ref|YP_003776885.1| TetR family transcription regul...    98   2e-22

>gi|300312793|ref|YP_003776885.1| TetR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 188

 Score = 97.8 bits (242), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 53/137 (38%), Positives = 78/137 (56%), Gaps = 16/137 (11%)

Query: 3   RHFPTREALFDALLRTNLDALTQKASEFESSHPPDEALVSWFREGVAFVHSYSGVVALMA 62
           RHFPTREAL +ALLR++ +AL ++A E +++     AL+ W +E +AF H + GV+A M 
Sbjct: 45  RHFPTREALLEALLRSSFEALAERADELQAADDSAAALMEWLQEIIAFTHEHRGVIAPMV 104

Query: 63  RAHEDPNS-----------DGIDLFALXN-----WADMDGIDLFALMSALGWVGDQPSFA 106
              ED  S            G  L +         AD+DG +LF L++AL W+ +QPS A
Sbjct: 105 SVIEDHESALHASCVSLRAAGAALLSRAQADGKARADLDGAELFDLIAALAWLREQPSHA 164

Query: 107 PRGDHLFHVITSAILTN 123
            R D +F +I+ A+L  
Sbjct: 165 SRADRIFGIISGAVLNT 181


  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
   0.322    0.136    0.423 

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: 414,947
Number of extensions: 15841
Number of successful extensions: 51
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 50
Number of HSP's successfully gapped: 1
Length of query: 127
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 52
Effective length of database: 1,264,745
Effective search space: 65766740
Effective search space used: 65766740
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: 125 (52.8 bits)