› 6z9u

X-ray diffraction
2.1Å resolution

Crystal structure of a TSEN15-34 heterodimer.

Released:
DOI: 10.2210/pdb6z9u/pdb
Model geometry
Fit model/data
PDB entry 6z9u coloured by chain, front view.
PDB entry 6z9u coloured by chain, side view.
PDB entry 6z9u coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Assembly defects of human tRNA splicing endonuclease contribute to impaired pre-tRNA processing in pontocerebellar hypoplasia.
Sekulovski S, Devant P, Panizza S, Gogakos T, Pitiriciu A, Heitmeier K, Ramsay EP, Barth M, Schmidt C, Tuschl T, Baas F, Weitzer S, Martinez J, Trowitzsch S
OpenAccess logo Nat Commun 12 5610 (2021)
PMID: 34584079

Function and Biology Details

Reaction catalysed: 
PretRNA = a 3'-half-tRNA molecule with a 5'-OH end + a 5'-half-tRNA molecule with a 2',3'-cyclic phosphate end + an intron with a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-186748 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
tRNA-splicing endonuclease subunit Sen34 Chains: A, C
Molecule details ›
Chains: A, C
Length: 104 amino acids
Theoretical weight: 11.76 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q9BSV6 (Residues: 208-310; Coverage: 33%)
Gene names: LENG5, SEN34, TSEN34
Sequence domains: tRNA intron endonuclease, catalytic C-terminal domain
tRNA-splicing endonuclease subunit Sen15 Chains: B, D
Molecule details ›
Chains: B, D
Length: 167 amino acids
Theoretical weight: 18.75 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q8WW01 (Residues: 23-170; Coverage: 87%)
Gene names: C1orf19, SEN15, TSEN15
Sequence domains: Sen15 protein

Ligands and Environments

1 bound ligand:
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2)
Spacegroup: P21
Unit cell:
a: 34.848Å b: 69.277Å c: 94.79Å
α: 90° β: 98.308° γ: 90°
R-values:
R R work R free
0.195 0.192 0.253
Expression system: Spodoptera frugiperda

Quick links

Citations

4 review citations

tRNA dysregulation and disease.
Orellana et al. (2022)
3 more

1 mention without citation

Recent insights into the structure, function, and regulation of the eukaryotic transfer RNA splicing endonuclease complex.
Hayne et al. (2022)