› 7cmc

X-ray diffraction
2.2Å resolution

CRYSTAL STRUCTURE OF DEOXYHYPUSINE SYNTHASE FROM PYROCOCCUS HORIKOSHII

Released:
DOI: 10.2210/pdb7cmc/pdb
PDB entry 7cmc coloured by chain, front view.
PDB entry 7cmc coloured by chain, side view.
PDB entry 7cmc coloured by chain, top view.
Source organism: Pyrococcus horikoshii OT3
Primary publication:
Flexible NAD+ Binding in Deoxyhypusine Synthase Reflects the Dynamic Hypusine Modification of Translation Factor IF5A.
Chen M, Gai Z, Okada C, Ye Y, Yu J, Yao M
Int J Mol Sci 21 (2020)
PMID: 32752130

Function and Biology Details

Reaction catalysed: 
(1a) spermidine + NAD(+) = dehydrospermidine + NADH
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129298 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Probable deoxyhypusine synthase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 342 amino acids
Theoretical weight: 39.06 KDa
Source organism: Pyrococcus horikoshii OT3
Expression system: Escherichia coli
UniProt:
  • Canonical: O50105 (Residues: 1-342; Coverage: 100%)
Gene names: PH1397, dys
Sequence domains: Deoxyhypusine synthase

Ligands and Environments


Cofactor: Ligand NAD 2 x NAD
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P212121
Unit cell:
a: 87.28Å b: 89.906Å c: 164.829Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.178 0.175 0.23
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Hypusination, a Metabolic Posttranslational Modification of eIF5A in Plants during Development and Environmental Stress Responses.
Pálfi et al. (2021)
2 other articles

2 mentions without citation

New copolymers as hosts of ribosomal RNA.
Hernández et al. (2019)
1 more