1PPX

Solution Structure of the MutT Pyrophosphohydrolase Complexed with Mg(2+) and 8-oxo-dGMP, a Tightly-bound Product


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the least restraint violations 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Solution structure and NH exchange studies of the MutT pyrophosphohydrolase complexed with Mg(2+) and 8-oxo-dGMP, a tightly bound product.

Massiah, M.A.Saraswat, V.Azurmendi, H.F.Mildvan, A.S.

(2003) Biochemistry 42: 10140-10154

  • DOI: 10.1021/bi030105p
  • Primary Citation of Related Structures:  1PUN, 1PUQ, 1PUS

  • PubMed Abstract: 
  • To learn the structural basis for the unusually tight binding of 8-oxo-nucleotides to the MutT pyrophosphohydrolase of Escherichia coli (129 residues), the solution structure of the MutT-Mg(2+)-8-oxo-dGMP product complex (K(D) = 52 nM) was determined ...

    To learn the structural basis for the unusually tight binding of 8-oxo-nucleotides to the MutT pyrophosphohydrolase of Escherichia coli (129 residues), the solution structure of the MutT-Mg(2+)-8-oxo-dGMP product complex (K(D) = 52 nM) was determined by standard 3-D heteronuclear NMR methods. Using 1746 NOEs (13.5 NOEs/residue) and 186 phi and psi values derived from backbone (15)N, Calpha, Halpha, and Cbeta chemical shifts, 20 converged structures were computed with NOE violations


    Related Citations: 
    • Solution Structure of the MutT Enzyme, a Nucleoside Triphosphate Pyrophosphohydrolase
      Abeygunawardana, C.,Weber, D.J.,Gittis, A.G.,Frick, D.N.,Lin, J.,Miller, A.F.,Bessman, M.J.,Mildvan, A.S.
      (1995) Biochemistry 34: 14997
    • NMR Studies of the Conformations and Location of Nucleotides Bound to the E.Coli MutT Enzyme
      Frick, D.N.,Weber, D.J.,Abeygunawardana, C.,Gittis, A.G.,J Bessman, M.,Mildvan, A.S.
      (1995) Biochemistry 34: 5577
    • Solution Structure of the Quaternary Complex MutT-M(2+)-AMPCPP-M(2+) Complex and Mechanism of its Pyrophosphohydrolase Action
      Lin, J.,Abeygunawardana, C.,Frick, D.N.,J Bessman, M.,Mildvan, A.S.
      (1997) Biochemistry 36: 1199


    Organizational Affiliation

    Department of Biological Chemistry, The Johns Hopkins School of Medicine, 725 North Wolfe Street, Baltimore, Maryland 21205-2185, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Mutator mutT protein
A
129Escherichia coli (strain K12)Gene Names: mutT
EC: 3.6.1.55
Find proteins for P08337 (Escherichia coli (strain K12))
Go to UniProtKB:  P08337
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download SDF File 
Download CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
8OG
Query on 8OG

Download SDF File 
Download CCD File 
A
8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE
8-OXO-7,8-DIHYDRO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE
C10 H14 N5 O8 P
AQIVLFLYHYFRKU-VPENINKCSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
8OGKd: 52 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the least restraint violations 
  • Olderado: 1PPX Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-08-26
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance