› 5t0a

X-ray diffraction
1.95Å resolution

Crystal Structure of Heparan Sulfate 6-O-Sulfotransferase with bound PAP and heptasaccharide substrate

Released:
DOI: 10.2210/pdb5t0a/pdb
PDB entry 5t0a coloured by chain, front view.
PDB entry 5t0a coloured by chain, side view.
PDB entry 5t0a coloured by chain, top view.
Source organism: Danio rerio
Primary publication:
Structure Based Substrate Specificity Analysis of Heparan Sulfate 6-O-Sulfotransferases.
Xu Y, Moon AF, Xu S, Krahn JM, Liu J, Pedersen LC
ACS Chem Biol 12 73-82 (2017)
PMID: 28103688

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-142613 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (4 distinct):
Maltose/maltodextrin-binding periplasmic protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 692 amino acids
Theoretical weight: 78.56 KDa
Source organism: Danio rerio
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AEX9 (Residues: 27-392; Coverage: 99%)
Gene names: JW3994, b4034, malE
Sequence domains: Bacterial extracellular solute-binding protein

Ligands and Environments

Carbohydrate polymer : NEW Components: BDP, GNS, IDS
Carbohydrate polymer
Carbohydrate polymer : NEW Components: BDP, GNS, IDS
Carbohydrate polymer
Carbohydrate polymer : NEW Components: GLC
Carbohydrate polymer
6 bound ligands:
Ligand NPO 2 x NPO
Ligand A3P 2 x A3P
Ligand EDO 15 x EDO
Ligand TLA 3 x TLA
Ligand NA 6 x NA
Ligand CL 3 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P212121
Unit cell:
a: 75.775Å b: 128.291Å c: 178.929Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.181 0.18 0.213
Expression system: Escherichia coli

Quick links

Citations

6 review citations

Heparan Sulfate Proteoglycans: Key Mediators of Stem Cell Function.
Ravikumar et al. (2020)
5 more

6 mentions without citation

Heparan Sulfate Proteoglycans Biosynthesis and Post Synthesis Mechanisms Combine Few Enzymes and Few Core Proteins to Generate Extensive Structural and Functional Diversity.
Annaval et al. (2020)
5 more