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= 003979
         (782 letters)

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

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



>pdb|1KVK|A Chain A, The Structure Of Binary Complex Between A Mammalian
           Mevalonate Kinase And Atp: Insights Into The Reaction
           Mechanism And Human Inherited Disease
 pdb|2R42|A Chain A, The Biochemical And Structural Basis For Feedback
           Inhibition Of Mevalonate Kinase And Isoprenoid
           Metabolism
          Length = 395

 Score = 33.9 bits (76), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 15/53 (28%), Positives = 31/53 (58%), Gaps = 2/53 (3%)

Query: 658 SIAERPTSDISTENGNSFSREREL--DEAAVDDFMRKWGGSVEYEEKVMANVK 708
           SI   P  D+ + N  ++  ER +  + + VD+ +  WGG++ Y++  M+++K
Sbjct: 173 SIGSWPEEDLKSINKWAYEGERVIHGNPSGVDNSVSTWGGALRYQQGKMSSLK 225


>pdb|4EX4|A Chain A, The Structure Of Glcb From Mycobacterium Leprae
 pdb|4EX4|B Chain B, The Structure Of Glcb From Mycobacterium Leprae
          Length = 735

 Score = 31.6 bits (70), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 53/120 (44%), Gaps = 5/120 (4%)

Query: 433 FRIQACVHGPENVP---SLIKLTELIRTTEKSTLKLYVMRLVELTDRSSSILMVQKTRKN 489
           + ++  +HGP  V     L    E +    + TLK+ +M     T  + ++    K   +
Sbjct: 403 YIVKPKMHGPAEVAFTCELFSRVEDVLGLPQGTLKVGIMDEERRT--TLNLKACIKAAAD 460

Query: 490 GVPFINRFRQGMSHDQIVTSFEAYKQLRRVTIRHSTAISALSTMHEDIFHVAEAKRVAMI 549
            V FIN      + D+I TS EA   +R+  +++ST I A    + DI   A  K  A I
Sbjct: 461 RVVFINTGFLDRTGDEIHTSMEAGPMIRKGAMKNSTWIKAYEDANVDIGLAAGFKGKAQI 520


  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    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,340,845
Number of Sequences: 62578
Number of extensions: 763400
Number of successful extensions: 1580
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1579
Number of HSP's gapped (non-prelim): 2
length of query: 782
length of database: 14,973,337
effective HSP length: 106
effective length of query: 676
effective length of database: 8,340,069
effective search space: 5637886644
effective search space used: 5637886644
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)