BLASTP 2.2.26 [Sep-21-2011]


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= 046364
         (123 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|Q0T243|TMCA_SHIF8 tRNA(Met) cytidine acetyltransferase TmcA OS=Shigella flexneri
           serotype 5b (strain 8401) GN=tmcA PE=3 SV=1
          Length = 671

 Score = 30.0 bits (66), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 33/109 (30%), Positives = 45/109 (41%), Gaps = 18/109 (16%)

Query: 1   MGDVEALYSVFVEDPHVLERMDGVAFADTPLLVAAGCRCWEHPFCDGNGKLKALAGLEAK 60
           M  V+ L    + D   LE + G AFA  PLL + GC                L  L   
Sbjct: 562 MLPVDPLNDAILSDDDWLE-LAGFAFAHRPLLTSLGC----------------LLRLLQT 604

Query: 61  SSLAQPHARGFVGGIAIDV-LFGWLRLSNKEQILKWKDDDGNTALHMRN 108
           S LA P  RG +   A D  L   L+LS ++ +L  + ++   AL   N
Sbjct: 605 SELALPALRGRLQKNASDAQLCTTLKLSGRKMLLVRQREEAAQALFALN 653


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.323    0.138    0.449 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 48,330,594
Number of Sequences: 539616
Number of extensions: 1784941
Number of successful extensions: 3402
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 3401
Number of HSP's gapped (non-prelim): 3
length of query: 123
length of database: 191,569,459
effective HSP length: 90
effective length of query: 33
effective length of database: 143,004,019
effective search space: 4719132627
effective search space used: 4719132627
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)