› 5av7

X-ray diffraction
1.85Å resolution

Crystal structure of Calsepa lectin in complex with bisected glycan

Released:
DOI: 10.2210/pdb5av7/pdb
PDB entry 5av7 coloured by chain, front view.
PDB entry 5av7 coloured by chain, side view.
PDB entry 5av7 coloured by chain, top view.
Source organism: Calystegia sepium
Primary publication:
Atomic visualization of a flipped-back conformation of bisected glycans bound to specific lectins.
Nagae M, Kanagawa M, Morita-Matsumoto K, Hanashima S, Kizuka Y, Taniguchi N, Yamaguchi Y
Sci Rep 6 22973 (2016)
PMID: 26971576

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-161069 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Jacalin-related lectin Calsepa Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 151 amino acids
Theoretical weight: 15.87 KDa
Source organism: Calystegia sepium
Expression system: Escherichia coli
UniProt:
  • Canonical: P93114 (Residues: 3-153; Coverage: 99%)
Sequence domains: Jacalin-like lectin domain
Structure domains: Jacalin-like lectin domain

Ligands and Environments

Carbohydrate polymer : NEW Components: MMA, MAN, NAG
Carbohydrate polymer
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: P1
Unit cell:
a: 47.608Å b: 52.836Å c: 54.774Å
α: 90.01° β: 90.03° γ: 94.05°
R-values:
R R work R free
0.247 0.245 0.279
Expression system: Escherichia coli

Quick links

Citations

8 review citations

Enzymes for N-Glycan Branching and Their Genetic and Nongenetic Regulation in Cancer.
Kizuka et al. (2016)
7 more

3 mentions without citation

Overview of the Structure⁻Function Relationships of Mannose-Specific Lectins from Plants, Algae and Fungi.
Barre et al. (2019)
2 more