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= 043282
         (119 letters)

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

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



>pdb|3B44|A Chain A, Crystal Structure Of Glpg W136a Mutant
          Length = 180

 Score = 25.4 bits (54), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 11/27 (40%), Positives = 16/27 (59%)

Query: 82  LMLFVFQIYWWVLISSMIWRRLKSGKL 108
           LM  +F + WW  +   + +RL SGKL
Sbjct: 58  LMHILFNLLWWWYLGGAVEKRLGSGKL 84


>pdb|2IC8|A Chain A, Crystal Structure Of Glpg
 pdb|2NRF|A Chain A, Crystal Structure Of Glpg, A Rhomboid Family Intramembrane
           Protease
 pdb|2NRF|B Chain B, Crystal Structure Of Glpg, A Rhomboid Family Intramembrane
           Protease
 pdb|3UBB|A Chain A, The Crystal Structure Of Glpg In Complex With A
           Phosphonofluoridate Inhibitor
          Length = 182

 Score = 25.0 bits (53), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 11/27 (40%), Positives = 16/27 (59%)

Query: 82  LMLFVFQIYWWVLISSMIWRRLKSGKL 108
           LM  +F + WW  +   + +RL SGKL
Sbjct: 58  LMHILFNLLWWWYLGGAVEKRLGSGKL 84


>pdb|2XOV|A Chain A, Crystal Structure Of E.Coli Rhomboid Protease Glpg, Native
           Enzyme
          Length = 181

 Score = 25.0 bits (53), Expect = 10.0,   Method: Compositional matrix adjust.
 Identities = 11/27 (40%), Positives = 16/27 (59%)

Query: 82  LMLFVFQIYWWVLISSMIWRRLKSGKL 108
           LM  +F + WW  +   + +RL SGKL
Sbjct: 58  LMHILFNLLWWWYLGGAVEKRLGSGKL 84


  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
   0.339    0.147    0.456 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,780,189
Number of Sequences: 62578
Number of extensions: 81762
Number of successful extensions: 242
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 233
Number of HSP's gapped (non-prelim): 9
length of query: 119
length of database: 14,973,337
effective HSP length: 81
effective length of query: 38
effective length of database: 9,904,519
effective search space: 376371722
effective search space used: 376371722
T: 11
A: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.8 bits)
S2: 45 (21.9 bits)