› 3d9k

X-ray diffraction
2.2Å resolution

Snapshots of the RNA processing factor SCAF8 bound to different phosphorylated forms of the Carboxy-Terminal Domain of RNA-Polymerase II

Released:
DOI: 10.2210/pdb3d9k/pdb
PDB entry 3d9k coloured by chain, front view.
PDB entry 3d9k coloured by chain, side view.
PDB entry 3d9k coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Snapshots of the RNA processing factor SCAF8 bound to different phosphorylated forms of the carboxyl-terminal domain of RNA polymerase II.
Becker R, Loll B, Meinhart A
J Biol Chem 283 22659-69 (2008)
PMID: 18550522

Function and Biology Details

Reaction catalysed: 
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-150308 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
SR-related and CTD-associated factor 8 Chains: A, B
Molecule details ›
Chains: A, B
Length: 145 amino acids
Theoretical weight: 16.94 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UPN6 (Residues: 1-136; Coverage: 11%)
Gene names: CCAP7, KIAA1116, RBM16, SCAF8
Sequence domains: CID domain
Structure domains: Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
DNA-directed RNA polymerase II subunit RPB1 Chains: Y, Z
Molecule details ›
Chains: Y, Z
Length: 14 amino acids
Theoretical weight: 1.78 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P24928 (Residues: 1790-1803; Coverage: 1%)
Gene names: POLR2, POLR2A
Sequence domains: RNA polymerase Rpb1 C-terminal repeat

Ligands and Environments

1 bound ligand:
Ligand SO4 9 x SO4
1 modified residue:
Ligand SEP 8 x SEP

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X10SA
Spacegroup: P43
Unit cell:
a: 56.45Å b: 56.45Å c: 106.27Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.193 0.19 0.252
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

12 review citations

The RNA polymerase II CTD coordinates transcription and RNA processing.
Hsin et al. (2012)
11 more

2 mentions without citation

What's all the phos about? Insights into the phosphorylation state of the RNA polymerase II C-terminal domain via mass spectrometry.
LeBlanc et al. (2021)
1 more