› 5k2l

X-ray diffraction
1.2Å resolution

Crystal structure of LysM domain from Volvox carteri chitinase

Released:
DOI: 10.2210/pdb5k2l/pdb
PDB entry 5k2l coloured by chain, front view.
PDB entry 5k2l coloured by chain, side view.
PDB entry 5k2l coloured by chain, top view.
Source organism: Volvox carteri f. nagariensis
Primary publication:
Chitin oligosaccharide binding to the lysin motif of a novel type of chitinase from the multicellular green alga, Volvox carteri.
Kitaoku Y, Fukamizo T, Numata T, Ohnuma T
Plant Mol Biol 93 97-108 (2017)
PMID: 27807643

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-112919 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
LysM domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 49 amino acids
Theoretical weight: 5.29 KDa
Source organism: Volvox carteri f. nagariensis
Expression system: Escherichia coli
UniProt:
  • Canonical: D8UFB5 (Residues: 104-151; Coverage: 16%)
Gene names: VOLCADRAFT_127242, chi4
Sequence domains: LysM domain
Structure domains: LysM domain

Ligands and Environments

1 bound ligand:
Ligand EDO 1 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: P41212
Unit cell:
a: 29.13Å b: 29.13Å c: 94.257Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.141 0.139 0.18
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Solid-State NMR Investigations of Extracellular Matrixes and Cell Walls of Algae, Bacteria, Fungi, and Plants.
Ghassemi et al. (2022)
2 other articles

3 mentions without citation

Computational prediction method to decipher receptor-glycoligand interactions in plant immunity.
Del Hierro et al. (2021)
2 more