3FKB image
Deposition Date 2008-12-16
Release Date 2009-09-29
Last Version Date 2023-11-01
Entry Detail
PDB ID:
3FKB
Keywords:
Title:
Structure of NDPK H122G and tenofovir-diphosphate
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.65 Å
R-Value Free:
0.20
R-Value Work:
0.18
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Nucleoside diphosphate kinase, cytosolic
Gene (Uniprot):ndkC-1, ndkC-2
Mutagens:H122G
Chain IDs:A, B, C, D, E, F
Chain Length:155
Number of Molecules:6
Biological Source:Dictyostelium discoideum
Primary Citation
Nucleoside diphosphate kinase and the activation of antiviral phosphonate analogs of nucleotides: binding mode and phosphorylation of tenofovir derivatives
Nucleosides Nucleotides Nucleic Acids 28 776 792 (2009)
PMID: 20183617 DOI: 10.1080/15257770903155899

Abstact

Tenofovir is an acyclic phosphonate analog of deoxyadenylate used in AIDS and hepatitis B therapy. We find that tenofovir diphosphate, its active form, can be produced by human nucleoside diphosphate kinase (NDPK), but with low efficiency, and that creatine kinase is significantly more active. The 1.65 A x-ray structure of NDPK in complex with tenofovir mono- and diphosphate shows that the analogs bind at the same site as natural nucleotides, but in a different conformation, and make only a subset of the Van der Waals and polar interactions made by natural substrates, consistent with their comparatively low affinity for the enzyme.

Legend

Protein

Chemical

Disease

Primary Citation of related structures