6TZU image
Deposition Date 2019-08-13
Release Date 2019-12-04
Last Version Date 2023-11-29
Entry Detail
PDB ID:
6TZU
Keywords:
Title:
Dihydrodipicolinate synthase (DHDPS) from C.jejuni, N84A mutant with pyruvate bound in the active site
Biological Source:
Method Details:
Experimental Method:
Resolution:
1.80 Å
R-Value Free:
0.20
R-Value Work:
0.17
R-Value Observed:
0.17
Space Group:
C 2 2 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:4-hydroxy-tetrahydrodipicolinate synthase
Gene (Uniprot):dapA
Mutations:N84A
Chain IDs:A, B, C, D, E
Chain Length:310
Number of Molecules:5
Biological Source:Campylobacter jejuni subsp. jejuni serotype O:2 (strain ATCC 700819 / NCTC 11168)
Polymer Type:polypeptide(L)
Molecule:4-hydroxy-tetrahydrodipicolinate synthase
Gene (Uniprot):dapA
Mutations:N84A
Chain IDs:F
Chain Length:310
Number of Molecules:1
Biological Source:Campylobacter jejuni subsp. jejuni serotype O:2 (strain ATCC 700819 / NCTC 11168)
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
KPI F LYS modified residue
Primary Citation
Asparagine-84, a regulatory allosteric site residue, helps maintain the quaternary structure of Campylobacter jejuni dihydrodipicolinate synthase.
J.Struct.Biol. 209 107409 107409 (2020)
PMID: 31678256 DOI: 10.1016/j.jsb.2019.107409

Abstact

Dihydrodipicolinate synthase (DHDPS) from Campylobacter jejuni is a natively homotetrameric enzyme that catalyzes the first unique reaction of (S)-lysine biosynthesis and is feedback-regulated by lysine through binding to an allosteric site. High-resolution structures of the DHDPS-lysine complex have revealed significant insights into the binding events. One key asparagine residue, N84, makes hydrogen bonds with both the carboxyl and the α-amino group of the bound lysine. We generated two mutants, N84A and N84D, to study the effects of these changes on the allosteric site properties. However, under normal assay conditions, N84A displayed notably lower catalytic activity, and N84D showed no activity. Here we show that these mutations disrupt the quaternary structure of DHDPS in a concentration-dependent fashion, as demonstrated by size-exclusion chromatography, multi-angle light scattering, dynamic light scattering, small-angle X-ray scattering (SAXS) and high-resolution protein crystallography.

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Primary Citation of related structures