› 3l5k

X-ray diffraction
2Å resolution

The crystal structure of human Haloacid Dehalogenase-like Hydrolase Domain containing 1A (HDHD1A)

Released:
DOI: 10.2210/pdb3l5k/pdb
PDB entry 3l5k coloured by chain, front view.
PDB entry 3l5k coloured by chain, side view.
PDB entry 3l5k coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Ugochukwu E, Guo K, Picaud S, Muniz J, Allerston C, von Delft F, Bountra C, Arrowsmith CH, Weigelt J, Edwards A, Yue WW, Kavanagh KL, Oppermann U, Structural Genomics Consortium (SGC)

Function and Biology Details

Reaction catalysed: 
Pseudouridine 5'-phosphate + H(2)O = pseudouridine + phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-170666 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Pseudouridine-5'-phosphatase Chain: A
Molecule details ›
Chain: A
Length: 250 amino acids
Theoretical weight: 27.94 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q08623 (Residues: 1-228; Coverage: 100%)
Gene names: DXF68S1E, FAM16AX, GS1, HDHD1, HDHD1A, PUDP
Sequence domains: Haloacid dehalogenase-like hydrolase
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand K 1 x K
Ligand GOL 1 x GOL
Ligand CL 4 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I02
Spacegroup: P3121
Unit cell:
a: 85.19Å b: 85.19Å c: 103.03Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.168 0.165 0.213
Expression system: Escherichia coli BL21(DE3)

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