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= psy16470
         (197 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|3CA8|A Chain A, Crystal Structure Of Escherichia Coli Ydcf, An
           S-Adenosyl-L-Methionine Utilizing Enzyme
 pdb|3CA8|B Chain B, Crystal Structure Of Escherichia Coli Ydcf, An
           S-Adenosyl-L-Methionine Utilizing Enzyme
          Length = 266

 Score = 27.3 bits (59), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 19/71 (26%), Positives = 28/71 (39%), Gaps = 7/71 (9%)

Query: 18  FGSGIGGNLASAIFVPYRADVGPAGAHFGLLACLIVEV-------GPAGAHFGLLACLIV 70
           F   +G N  S IF+     + P   +  LL   +  +       GP G  F +      
Sbjct: 182 FVPQLGNNADSVIFINQLQGLWPVERYLSLLTGELPRLRDDSDGYGPRGRDFIVHVDFPA 241

Query: 71  EVLNCWPLLKH 81
           EV++ W  LKH
Sbjct: 242 EVIHAWQTLKH 252


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.329    0.147    0.497 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,813,970
Number of Sequences: 62578
Number of extensions: 149561
Number of successful extensions: 253
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 253
Number of HSP's gapped (non-prelim): 1
length of query: 197
length of database: 14,973,337
effective HSP length: 94
effective length of query: 103
effective length of database: 9,091,005
effective search space: 936373515
effective search space used: 936373515
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 49 (23.5 bits)