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= 043324
         (788 letters)

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

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



>pdb|3LLW|A Chain A, Crystal Structure Of Geranyltransferase From Helicobacter
           Pylori 26695
 pdb|3LLW|B Chain B, Crystal Structure Of Geranyltransferase From Helicobacter
           Pylori 26695
 pdb|3LLW|C Chain C, Crystal Structure Of Geranyltransferase From Helicobacter
           Pylori 26695
 pdb|3LLW|D Chain D, Crystal Structure Of Geranyltransferase From Helicobacter
           Pylori 26695
          Length = 311

 Score = 29.6 bits (65), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 4/52 (7%)

Query: 310 FQFNISSLSTIDNVIVALVMVSLS----IAGKILGTLLACYYLKIPLNIEAV 357
           + F + S + +++ I+  ++  LS    I G ILG  L CY+   PLN+E +
Sbjct: 130 YSFELLSNALLESHIIVELIKILSANGGIKGMILGQALDCYFENTPLNLEQL 181


>pdb|3Q1O|A Chain A, Crystal Structure Of Geranyltransferase From Helicobacter
           Pylori Complexed With Magnesium And Isoprenyl
           Diphosphate
 pdb|3Q1O|B Chain B, Crystal Structure Of Geranyltransferase From Helicobacter
           Pylori Complexed With Magnesium And Isoprenyl
           Diphosphate
 pdb|3Q1O|C Chain C, Crystal Structure Of Geranyltransferase From Helicobacter
           Pylori Complexed With Magnesium And Isoprenyl
           Diphosphate
 pdb|3Q1O|D Chain D, Crystal Structure Of Geranyltransferase From Helicobacter
           Pylori Complexed With Magnesium And Isoprenyl
           Diphosphate
          Length = 310

 Score = 29.6 bits (65), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 4/52 (7%)

Query: 310 FQFNISSLSTIDNVIVALVMVSLS----IAGKILGTLLACYYLKIPLNIEAV 357
           + F + S + +++ I+  ++  LS    I G ILG  L CY+   PLN+E +
Sbjct: 137 YSFELLSNALLESHIIVELIKILSANGGIKGMILGQALDCYFENTPLNLEQL 188


  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
   0.324    0.139    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,500,851
Number of Sequences: 62578
Number of extensions: 771296
Number of successful extensions: 2237
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 2235
Number of HSP's gapped (non-prelim): 4
length of query: 788
length of database: 14,973,337
effective HSP length: 107
effective length of query: 681
effective length of database: 8,277,491
effective search space: 5636971371
effective search space used: 5636971371
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.8 bits)