BLASTP 2.2.22 [Sep-27-2009]


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.


Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= batch____
         (72 letters)

Database: uniref50.fasta 
           3,077,464 sequences; 1,040,396,356 total letters

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


Results from round 1


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

UniRef50_P11866 Threonine dehydratase operon activator protein n...   146   3e-34

>UniRef50_P11866 Threonine dehydratase operon activator protein n=60
          Tax=Enterobacteriaceae RepID=TDCR_ECOLI
          Length = 72

 Score =  146 bits (368), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 72/72 (100%), Positives = 72/72 (100%)

Query: 1  MSKFSNFIINKPFSVINNAACHIFSRYLLENKHLFYQYFKISNTCIDHLEQLINVNFFSS 60
          MSKFSNFIINKPFSVINNAACHIFSRYLLENKHLFYQYFKISNTCIDHLEQLINVNFFSS
Sbjct: 1  MSKFSNFIINKPFSVINNAACHIFSRYLLENKHLFYQYFKISNTCIDHLEQLINVNFFSS 60

Query: 61 DRTSFCECNRFP 72
          DRTSFCECNRFP
Sbjct: 61 DRTSFCECNRFP 72


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


Results from round 2


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value
Sequences used in model and found again:

UniRef50_P11866 Threonine dehydratase operon activator protein n...   117   1e-25

Sequences not found previously or not previously below threshold:


CONVERGED!
>UniRef50_P11866 Threonine dehydratase operon activator protein n=60
          Tax=Enterobacteriaceae RepID=TDCR_ECOLI
          Length = 72

 Score =  117 bits (293), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 72/72 (100%), Positives = 72/72 (100%)

Query: 1  MSKFSNFIINKPFSVINNAACHIFSRYLLENKHLFYQYFKISNTCIDHLEQLINVNFFSS 60
          MSKFSNFIINKPFSVINNAACHIFSRYLLENKHLFYQYFKISNTCIDHLEQLINVNFFSS
Sbjct: 1  MSKFSNFIINKPFSVINNAACHIFSRYLLENKHLFYQYFKISNTCIDHLEQLINVNFFSS 60

Query: 61 DRTSFCECNRFP 72
          DRTSFCECNRFP
Sbjct: 61 DRTSFCECNRFP 72


  Database: uniref50.fasta
    Posted date:  Mar 8, 2010 10:38 AM
  Number of letters in database: 1,040,396,356
  Number of sequences in database:  3,077,464
  
Lambda     K      H
   0.331    0.140    0.448 

Lambda     K      H
   0.267   0.0446    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 330,371,619
Number of Sequences: 3077464
Number of extensions: 12556140
Number of successful extensions: 37347
Number of sequences better than 1.0e-01: 1
Number of HSP's better than  0.1 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 37345
Number of HSP's gapped (non-prelim): 2
length of query: 72
length of database: 1,040,396,356
effective HSP length: 43
effective length of query: 29
effective length of database: 908,065,404
effective search space: 26333896716
effective search space used: 26333896716
T: 11
A: 40
X1: 16 ( 7.6 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 87 (38.0 bits)