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= 042730
         (88 letters)

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

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



>pdb|3DNF|A Chain A, Structure Of (e)-4-hydroxy-3-methyl-but-2-enyl Diphosphate
           Reductase, The Terminal Enzyme Of The Non-mevalonate
           Pathway
 pdb|3DNF|B Chain B, Structure Of (e)-4-hydroxy-3-methyl-but-2-enyl Diphosphate
           Reductase, The Terminal Enzyme Of The Non-mevalonate
           Pathway
          Length = 297

 Score = 27.3 bits (59), Expect = 2.4,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 34/68 (50%), Gaps = 4/68 (5%)

Query: 25  KGHFVVYVGETTKKRFVLPISYLKHPSFQNLLSQTEEEFG--FDHPMGGLTIPCS--EEV 80
           +G+FVV VGE      +  + YL+  + + ++ +T E+ G    H   G+    +  EE 
Sbjct: 112 EGYFVVLVGEKNHPEVIGTLGYLRACNGKGIVVETLEDIGEALKHERVGIVAQTTQNEEF 171

Query: 81  FMDLISSL 88
           F +++  +
Sbjct: 172 FKEVVGEI 179


>pdb|1K1Q|A Chain A, Crystal Structure Of A Dinb Family Error Prone Dna
           Polymerase From Sulfolobus Solfataricus
 pdb|1K1Q|B Chain B, Crystal Structure Of A Dinb Family Error Prone Dna
           Polymerase From Sulfolobus Solfataricus
 pdb|1K1S|A Chain A, Crystal Structure Of Dinb From Sulfolobus Solfataricus
          Length = 354

 Score = 26.9 bits (58), Expect = 2.6,   Method: Composition-based stats.
 Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 2/44 (4%)

Query: 5   LLKIVSNKNTEKCSQATIVPKGHFVVYVGETTKKRFVLPISYLK 48
           LLK+  NK +E     + +P G ++     T   + +LP  YLK
Sbjct: 226 LLKLAQNKYSEPVENKSKIPHGRYLTLPYNTRDVKVILP--YLK 267


>pdb|3BQ0|A Chain A, Pre-insertion Binary Complex Of Dbh Dna Polymerase
 pdb|3BQ1|A Chain A, Insertion Ternary Complex Of Dbh Dna Polymerase
 pdb|3BQ2|A Chain A, Post-Insertion Binary Complex Of Dbh Dna Polymerase
 pdb|4HYK|A Chain A, Dbh Ternary Complex (substrates Partially Disordered)
          Length = 354

 Score = 26.9 bits (58), Expect = 2.7,   Method: Composition-based stats.
 Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 2/44 (4%)

Query: 5   LLKIVSNKNTEKCSQATIVPKGHFVVYVGETTKKRFVLPISYLK 48
           LLK+  NK +E     + +P G ++     T   + +LP  YLK
Sbjct: 226 LLKLAQNKYSEPVENKSKIPHGRYLTLPYNTRDVKVILP--YLK 267


  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
   0.321    0.138    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,588,700
Number of Sequences: 62578
Number of extensions: 91209
Number of successful extensions: 169
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 166
Number of HSP's gapped (non-prelim): 3
length of query: 88
length of database: 14,973,337
effective HSP length: 56
effective length of query: 32
effective length of database: 11,468,969
effective search space: 367007008
effective search space used: 367007008
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: 45 (21.9 bits)