› 6d0y

X-ray diffraction
2.68Å resolution

X-ray Crystal Structure of PGC-1beta C-terminus bound to the CBP80-CBP20 Cap Binding Complex

Released:
DOI: 10.2210/pdb6d0y/pdb
PDB entry 6d0y coloured by chain, front view.
PDB entry 6d0y coloured by chain, side view.
PDB entry 6d0y coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Transcriptional coactivator PGC-1α contains a novel CBP80-binding motif that orchestrates efficient target gene expression.
Cho H, Rambout X, Gleghorn ML, Nguyen PQT, Phipps CR, Miyoshi K, Myers JR, Kataoka N, Fasan R, Maquat LE
Genes Dev 32 555-567 (2018)
PMID: 29654059

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-156543 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Nuclear cap-binding protein subunit 1 Chain: C
Molecule details ›
Chain: C
Length: 782 amino acids
Theoretical weight: 91.13 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q09161 (Residues: 24-790; Coverage: 97%)
Gene names: CBP80, NCBP, NCBP1
Sequence domains:
Structure domains: Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
Nuclear cap-binding protein subunit 2 Chain: A
Molecule details ›
Chain: A
Length: 176 amino acids
Theoretical weight: 20.05 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P52298 (Residues: 1-156; Coverage: 100%)
Gene names: CBP20, NCBP2, PIG55
Sequence domains: RNA recognition motif
Structure domains: Alpha-Beta Plaits
Peroxisome proliferator-activated receptor gamma coactivator 1-beta Chain: B
Molecule details ›
Chain: B
Length: 31 amino acids
Theoretical weight: 3.47 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: Q86YN6 (Residues: 994-1023; Coverage: 3%)
Gene names: PERC, PGC1, PGC1B, PPARGC1, PPARGC1B

Ligands and Environments

2 bound ligands:
Ligand MG 1 x MG
Ligand GTA 1 x GTA
1 modified residue:
Ligand IYR 1 x IYR

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL12-2
Spacegroup: P212121
Unit cell:
a: 78.106Å b: 111.897Å c: 124.795Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.185 0.181 0.24
Expression systems:
  • Spodoptera frugiperda
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

The Nuclear Cap-Binding Complex, a multitasking binding partner of RNA polymerase II transcripts.
Kataoka N. (2023)
1 more

3 mentions without citation

Transcriptional coactivator PGC-1α contains a novel CBP80-binding motif that orchestrates efficient target gene expression.
Cho et al. (2018)
2 more