› 2jdz

X-ray diffraction
2.1Å resolution

Crystal structure of recombinant Dioclea guianensis lectin complexed with 5-bromo-4-chloro-3-indolyl-a-D-mannose

Released:
DOI: 10.2210/pdb2jdz/pdb
PDB entry 2jdz coloured by chain, front view.
PDB entry 2jdz coloured by chain, side view.
PDB entry 2jdz coloured by chain, top view.
Source organism: Dioclea guianensis
Primary publication:
Insights into the structural basis of the pH-dependent dimer-tetramer equilibrium through crystallographic analysis of recombinant Diocleinae lectins.
Nagano CS, Calvete JJ, Barettino D, Pérez A, Cavada BS, Sanz L
Biochem J 409 417-28 (2008)
PMID: 17937659

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-160543 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Lectin alpha chain Chain: A
Molecule details ›
Chain: A
Length: 239 amino acids
Theoretical weight: 25.65 KDa
Source organism: Dioclea guianensis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P81637 (Residues: 1-237; Coverage: 100%)
Sequence domains: Legume lectin domain
Structure domains: Jelly Rolls

Ligands and Environments

4 bound ligands:
Ligand MN 5 x MN
Ligand CA 1 x CA
Ligand CD 1 x CD
Ligand XMM 1 x XMM
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: I4122
Unit cell:
a: 89.222Å b: 89.222Å c: 106.069Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.2 0.196 0.249
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

ConA-Like Lectins: High Similarity Proteins as Models to Study Structure/Biological Activities Relationships.
Cavada et al. (2018)
1 more