› 6mup

Electron Microscopy
3.5Å resolution

CENP-A nucleosome bound by two copies of CENP-C(CD) and two copies CENP-N(NT)

Released:
DOI: 10.2210/pdb6mup/pdb
PDB entry 6mup coloured by chain, front view.
PDB entry 6mup coloured by chain, side view.
PDB entry 6mup coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of the Human Core Centromeric Nucleosome Complex.
Allu PK, Dawicki-McKenna JM, Van Eeuwen T, Slavin M, Braitbard M, Xu C, Kalisman N, Murakami K, Black BE
Curr Biol 29 2625-2639.e5 (2019)
PMID: 31353180
Related structures: EMD-9251

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetradecamer (preferred)
PDBe Complex ID:
PDB-CPX-120307 (preferred)
Entry contents:
6 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (8 distinct):
Histone H3-like centromeric protein A Chains: A, E
Molecule details ›
Chains: A, E
Length: 102 amino acids
Theoretical weight: 11.99 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: P49450 (Residues: 38-139; Coverage: 73%)
Gene name: CENPA
Sequence domains: Core histone H2A/H2B/H3/H4
Histone H4 Chains: B, F
Molecule details ›
Chains: B, F
Length: 94 amino acids
Theoretical weight: 10.6 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: P62805 (Residues: 9-102; Coverage: 91%)
Gene names: H4-16, H4/A, H4/B, H4/C, H4/D, H4/E, H4/G, H4/H, H4/I, H4/J, H4/K, H4/M, H4/N, H4/O, H4C1, H4C11, H4C12, H4C13, H4C14, H4C15, H4C16, H4C2, H4C3, H4C4, H4C5, H4C6, H4C8, H4C9, H4F2, H4FA, H4FB, H4FC, H4FD, H4FE, H4FG, H4FH, H4FI, H4FJ, H4FK, H4FM, H4FN, H4FO, HIST1H4A, HIST1H4B, HIST1H4C, HIST1H4D, HIST1H4E, HIST1H4F, HIST1H4H, HIST1H4I, HIST1H4J, HIST1H4K, HIST1H4L, HIST2H4, HIST2H4A, HIST2H4B, HIST4H4
Sequence domains: Centromere kinetochore component CENP-T histone fold
Histone H2A type 1-C Chains: C, G
Molecule details ›
Chains: C, G
Length: 105 amino acids
Theoretical weight: 11.49 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: Q93077 (Residues: 14-118; Coverage: 81%)
Gene names: H2AC6, H2AFL, HIST1H2AC
Sequence domains:
Histone H2B type 2-F Chains: D, H
Molecule details ›
Chains: D, H
Length: 92 amino acids
Theoretical weight: 10.25 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: Q5QNW6 (Residues: 34-125; Coverage: 73%)
Gene names: H2BC18, HIST2H2BF
Sequence domains: Core histone H2A/H2B/H3/H4
Centromere protein C Chains: K, L
Molecule details ›
Chains: K, L
Length: 20 amino acids
Theoretical weight: 2.51 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: Q03188 (Residues: 518-537; Coverage: 2%)
Gene names: CENPC, CENPC1, ICEN7
Centromere protein N Chains: M, N
Molecule details ›
Chains: M, N
Length: 212 amino acids
Theoretical weight: 25.05 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: Q96H22 (Residues: 1-212; Coverage: 63%)
Gene names: BM-309, C16orf60, CENPN, ICEN32
Sequence domains: Kinetochore protein CHL4 like
DNA (147-MER) Chain: I
Molecule details ›
Chain: I
Length: 147 nucleotides
Theoretical weight: 45.14 KDa
DNA (147-MER) Chain: J
Molecule details ›
Chain: J
Length: 147 nucleotides
Theoretical weight: 45.58 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.5Å
Relevant EMDB volumes: EMD-9251
Expression systems:
  • Escherichia coli 'BL21-Gold(DE3)pLysS AG'
  • Not provided

Quick links

Citations

7 review citations

The centromere comes into focus: from CENP-A nucleosomes to kinetochore connections with the spindle.
Kixmoeller et al. (2020)
6 more

4 mentions without citation

Principles of nucleosome recognition by chromatin factors and enzymes.
McGinty et al. (2021)
3 more