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= 0012.0108.p
         (222 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313409|ref|YP_003777501.1| transcription regulator protein...   345   1e-96

>gi|300313409|ref|YP_003777501.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 206

 Score =  345 bits (886), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 167/203 (82%), Positives = 181/203 (89%)

Query: 10  MPRKRAAGFDNQRDLIIEQAATLFARNGFPGTSMNEVAEACGLSKASLYHYMSDKYQLLM 69
           MPRKRAAG+DNQR+ I+EQAA LFARNGF GTSMNEVA ACGLSKASLYHY +DK+QLLM
Sbjct: 1   MPRKRAAGYDNQRETIVEQAAALFARNGFVGTSMNEVALACGLSKASLYHYFADKHQLLM 60

Query: 70  FICEGHIERLCALVDEVAQQDLAPEPRLRLMVQRFVEEYADAQNEHRVLTEDVRFLKEED 129
            ICE HI+RLCALVDEVAQQDLAPEPRLRL+VQRFVEEY DAQNEHRVLTEDVRFL+  D
Sbjct: 61  HICEDHIDRLCALVDEVAQQDLAPEPRLRLLVQRFVEEYRDAQNEHRVLTEDVRFLEPGD 120

Query: 130 QQRIFAGERKVVGAMAQAMIGVRPELDASKMAKPLTMLLFGMINWMFMWLKPDGGLTHER 189
           Q+RI  GERKVV A+A AM  VRPELD S+MAKPL MLLFGMINWMFMWLKPDG LTHER
Sbjct: 121 QKRILNGERKVVKAVADAMSAVRPELDRSRMAKPLAMLLFGMINWMFMWLKPDGELTHER 180

Query: 190 MAMVVSDLLFGGIGAVRLEDIGQ 212
           MA+VVSDLLFGGIGAV L+  G+
Sbjct: 181 MAVVVSDLLFGGIGAVGLDGAGK 203


  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    0.137    0.397 

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: 666,651
Number of extensions: 26065
Number of successful extensions: 100
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 100
Number of HSP's successfully gapped: 1
Length of query: 222
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 140
Effective length of database: 1,231,600
Effective search space: 172424000
Effective search space used: 172424000
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: 129 (54.3 bits)