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= 027697
         (220 letters)

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

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



>pdb|3LEH|A Chain A, The Crystal Structure Of Smu.943c From Streptococcus
           Mutans Ua159
          Length = 425

 Score = 29.3 bits (64), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 4/48 (8%)

Query: 177 DFLQ-NYYVNPLLNKVYTPEQYSSMLVNIFSSFIK---VSCHLYCCFC 220
           DF + NY   P +N +Y+ +QY  ML   ++ + K   VS   +  FC
Sbjct: 218 DFWRPNYTTTPYVNGMYSTKQYLDMLKTTWAEYQKRFDVSLTDFAAFC 265


>pdb|3SQZ|A Chain A, Crystal Structure Of Hmg_coa Synthase Complexed With Coa
          Length = 389

 Score = 28.9 bits (63), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 4/48 (8%)

Query: 177 DFLQ-NYYVNPLLNKVYTPEQYSSMLVNIFSSFIK---VSCHLYCCFC 220
           DF + NY   P +N +Y+ +QY  ML   ++ + K   VS   +  FC
Sbjct: 185 DFWRPNYTTTPYVNGMYSTKQYLDMLKTTWAEYQKRFDVSLTDFAAFC 232


  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
   0.320    0.135    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,445,907
Number of Sequences: 62578
Number of extensions: 269469
Number of successful extensions: 503
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 503
Number of HSP's gapped (non-prelim): 5
length of query: 220
length of database: 14,973,337
effective HSP length: 95
effective length of query: 125
effective length of database: 9,028,427
effective search space: 1128553375
effective search space used: 1128553375
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)