› 4zdp

X-ray diffraction
2.7Å resolution

The crystal structure of Y334C mutant of human SepSecS in complex with selenocysteine tRNA (tRNASec)

Released:
DOI: 10.2210/pdb4zdp/pdb
PDB entry 4zdp coloured by chain, front view.
PDB entry 4zdp coloured by chain, side view.
PDB entry 4zdp coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for early-onset neurological disorders caused by mutations in human selenocysteine synthase.
Puppala AK, French RL, Matthies D, Baxa U, Subramaniam S, Simonović M
Sci Rep 6 32563 (2016)
PMID: 27576344

Function and Biology Details

Reaction catalysed: 
O-phospho-L-seryl-tRNA(Sec) + selenophosphate + H(2)O = L-selenocysteinyl-tRNA(Sec) + 2 phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-190803 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
O-phosphoseryl-tRNA(Sec) selenium transferase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 501 amino acids
Theoretical weight: 55.74 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9HD40 (Residues: 1-501; Coverage: 100%)
Gene names: SEPSECS, TRNP48
Sequence domains: O-phosphoseryl-tRNA(Sec) selenium transferase, SepSecS
Structure domains:
selenocysteine tRNA Chain: E
Molecule details ›
Chain: E
Length: 87 nucleotides
Theoretical weight: 27.97 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
Sequence domains: Selenocysteine transfer RNA

Ligands and Environments


Cofactor: Ligand PLR 4 x PLR
1 bound ligand:
Ligand PO4 4 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-G
Spacegroup: P3112
Unit cell:
a: 167.263Å b: 167.263Å c: 240.146Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.202 0.2 0.232
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Human Genetic Disorders Resulting in Systemic Selenoprotein Deficiency.
Schoenmakers et al. (2021)
9 other articles

1 mention without citation

Structural basis for early-onset neurological disorders caused by mutations in human selenocysteine synthase.
Puppala et al. (2016)