2AZ3 image
Deposition Date 2005-09-09
Release Date 2005-12-20
Last Version Date 2023-10-25
Entry Detail
PDB ID:
2AZ3
Keywords:
TRANSFERASE
Title:
Structure of a halophilic nucleoside diphosphate kinase from Halobacterium salinarum in complex with CDP
Biological Source:
Source Organism:
Halobacterium salinarum (Taxon ID: 2242)
Host Organism:
Escherichia coli
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.20 Å
R-Value Free:
0.27
R-Value Work:
0.19
R-Value Observed:
0.20
Space Group:
C 1 2 1
2AZ3 validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Nucleoside diphosphate kinase
Gene (Uniprot):ndk
Chain IDs:A, B, C, D, E, F, G, H, I
Chain Length:164
Number of Molecules:9
Biological Source:Halobacterium salinarum
UniProt ID:P61136 Pfam ID:PF00334 EC:2.7.4.6
Ligand Molecules
CDP
MG
Primary Citation
Structure of a halophilic nucleoside diphosphate kinase from Halobacterium salinarum
Febs Lett. 579 6595 6600 (2005)
PMID: 16293253 DOI: 10.1016/j.febslet.2005.10.052

Abstact

Nucleoside diphosphate kinase from the halophilic archaeon Halobacterium salinarum was crystallized in a free state and a substrate-bound form with CDP. The structures were solved to a resolution of 2.35 and 2.2A, respectively. Crystals with the apo-form were obtained with His6-tagged enzyme, whereas the untagged form was used for co-crystallization with the nucleotide. Crosslinking under different salt and pH conditions revealed a stronger oligomerization tendency for the tagged protein at low and high salt concentrations. The influence of the His6-tag on the halophilic nature of the enzyme is discussed on the basis of the observed structural properties.

Legend

Protein

Chemical

Disease

Primary Citation of related structures
1NUE
2AZ1