› 6yxh

X-ray diffraction
2.6Å resolution

Cryogenic human alkaline ceramidase 3 (ACER3) at 2.6 A resolution determined by Serial Crystallography (SSX) using CrystalDirect

Released:
DOI: 10.2210/pdb6yxh/pdb
PDB entry 6yxh coloured by chain, front view.
PDB entry 6yxh coloured by chain, side view.
PDB entry 6yxh coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
An automated platform for structural analysis of membrane proteins through serial crystallography.
Healey RD, Basu S, Humm AS, Leyrat C, Cong X, Golebiowski J, Dupeux F, Pica A, Granier S, Márquez JA
OpenAccess logo Cell Rep Methods 1 None (2021)
PMID: 34723237

Function and Biology Details

Reaction catalysed: 
N-acylsphingosine + H(2)O = a carboxylate + sphingosine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-576345 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alkaline ceramidase 3 Chain: A
Molecule details ›
Chain: A
Length: 350 amino acids
Theoretical weight: 40.49 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q9NUN7 (Residues: 2-244; Coverage: 91%)
Gene names: ACER3, APHC, PHCA
Sequence domains: Ceramidase

Ligands and Environments

5 bound ligands:
Ligand ZN 1 x ZN
Ligand SO4 6 x SO4
Ligand NA 2 x NA
Ligand CA 1 x CA
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: C2221
Unit cell:
a: 61.47Å b: 69.97Å c: 259.49Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.234 0.232 0.28
Expression system: Spodoptera frugiperda

Quick links

Citations

2 citation in other articles

Rational design of the zonulin inhibitor AT1001 derivatives as potential anti SARS-CoV-2.
Di Micco et al. (2022)
1 more

2 mentions without citation

Classification of domains in predicted structures of the human proteome.
Schaeffer et al. (2023)
1 more