1HK8

STRUCTURAL BASIS FOR ALLOSTERIC SUBSTRATE SPECIFICITY REGULATION IN CLASS III RIBONUCLEOTIDE REDUCTASES: NRDD IN COMPLEX WITH DGTP

Structural Biology Knowledgebase: 1HK8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.204

Literature

Macromolecules
Sequence Display for 1HK8

Classification: OXIDOREDUCTASE

Total Structure Weight: 69190.92

Macromolecule Entities
Molecule Chains Length Organism Details
ANAEROBIC RIBONUCLEOTIDE-TRIPHOSPHATE REDUCTASE A 605 Enterobacteria phage t4 sensu lato EC#: 1.17.4.2 IUBMB
Fragment: ACTIVE SITE SUBUNIT, RESIDUES 1-605
Mutation: G580A
Details: SEQUENCE DETERMINATION\: P.YOUNG, M.OHMAN, M.Q.XU.
Gene Name(s): NRDD 49.1 55.11/55.13 SUNY
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
DGT
Query on DGT

A 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
HAAZLUGHYHWQIW-KVQBGUIXSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.204
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 98.16 α = 90.00
b = 98.16 β = 90.00
c = 246.13 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-03-06
  • Released Date: 2003-03-27
  • Deposition author(s): Larsson, K.-M., Andersson, J., Sjoeberg, B.-M., Nordlund, P., Logan, D.T.
  • Previous versions: 1H77

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4