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____
         (86 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_P33669 Putative uncharacterized protein ybbD n=24 Tax=E...   170   1e-41
UniRef50_B4SVM4 Putative inner membrane protein n=26 Tax=Salmone...    46   3e-04

>UniRef50_P33669 Putative uncharacterized protein ybbD n=24 Tax=Enterobacteriaceae
          RepID=YBBD_ECOLI
          Length = 86

 Score =  170 bits (430), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 86/86 (100%), Positives = 86/86 (100%)

Query: 1  MLAISSNLSKMIIFIFAIIIIVVLCVITYLYLYKDESLVSKHYINYMAIPENDGVFTWLP 60
          MLAISSNLSKMIIFIFAIIIIVVLCVITYLYLYKDESLVSKHYINYMAIPENDGVFTWLP
Sbjct: 1  MLAISSNLSKMIIFIFAIIIIVVLCVITYLYLYKDESLVSKHYINYMAIPENDGVFTWLP 60

Query: 61 DFFPHVAVDISIYTNVEDDYFFLIFP 86
          DFFPHVAVDISIYTNVEDDYFFLIFP
Sbjct: 61 DFFPHVAVDISIYTNVEDDYFFLIFP 86


>UniRef50_B4SVM4 Putative inner membrane protein n=26 Tax=Salmonella enterica
           RepID=B4SVM4_SALNS
          Length = 181

 Score = 46.2 bits (108), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 26/69 (37%), Positives = 40/69 (57%), Gaps = 8/69 (11%)

Query: 17  AIIIIVVLCVITYLYLYKDESLVSKHYINYMAIPENDGVFTWLPDFFPHVAVDISIYTNV 76
           A+II+ VL          D+  VS ++ +Y AIPE  G++TWLP FFP  A +I +  N+
Sbjct: 49  ALIIVAVLTAC-------DDRQVS-YFPDYAAIPEQSGIWTWLPVFFPSSASEIEMTFNL 100

Query: 77  EDDYFFLIF 85
           + + F+  F
Sbjct: 101 DSNLFYADF 109


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


Results from round 2


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

UniRef50_P33669 Putative uncharacterized protein ybbD n=24 Tax=E...   110   1e-23
UniRef50_B4SVM4 Putative inner membrane protein n=26 Tax=Salmone...    97   1e-19

Sequences not found previously or not previously below threshold:


CONVERGED!
>UniRef50_P33669 Putative uncharacterized protein ybbD n=24 Tax=Enterobacteriaceae
          RepID=YBBD_ECOLI
          Length = 86

 Score =  110 bits (275), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 86/86 (100%), Positives = 86/86 (100%)

Query: 1  MLAISSNLSKMIIFIFAIIIIVVLCVITYLYLYKDESLVSKHYINYMAIPENDGVFTWLP 60
          MLAISSNLSKMIIFIFAIIIIVVLCVITYLYLYKDESLVSKHYINYMAIPENDGVFTWLP
Sbjct: 1  MLAISSNLSKMIIFIFAIIIIVVLCVITYLYLYKDESLVSKHYINYMAIPENDGVFTWLP 60

Query: 61 DFFPHVAVDISIYTNVEDDYFFLIFP 86
          DFFPHVAVDISIYTNVEDDYFFLIFP
Sbjct: 61 DFFPHVAVDISIYTNVEDDYFFLIFP 86


>UniRef50_B4SVM4 Putative inner membrane protein n=26 Tax=Salmonella enterica
           RepID=B4SVM4_SALNS
          Length = 181

 Score = 97.4 bits (241), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 26/69 (37%), Positives = 40/69 (57%), Gaps = 8/69 (11%)

Query: 17  AIIIIVVLCVITYLYLYKDESLVSKHYINYMAIPENDGVFTWLPDFFPHVAVDISIYTNV 76
           A+II+ VL          D+  VS ++ +Y AIPE  G++TWLP FFP  A +I +  N+
Sbjct: 49  ALIIVAVLTAC-------DDRQVS-YFPDYAAIPEQSGIWTWLPVFFPSSASEIEMTFNL 100

Query: 77  EDDYFFLIF 85
           + + F+  F
Sbjct: 101 DSNLFYADF 109


  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
   0.324    0.137    0.411 

Lambda     K      H
   0.267   0.0420    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 347,385,074
Number of Sequences: 3077464
Number of extensions: 12793405
Number of successful extensions: 59785
Number of sequences better than 1.0e-01: 4
Number of HSP's better than  0.1 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 59779
Number of HSP's gapped (non-prelim): 6
length of query: 86
length of database: 1,040,396,356
effective HSP length: 56
effective length of query: 30
effective length of database: 868,058,372
effective search space: 26041751160
effective search space used: 26041751160
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 87 (38.1 bits)