› 6buz

Electron Microscopy
3.92Å resolution

Cryo-EM structure of CENP-A nucleosome in complex with kinetochore protein CENP-N

Released:
DOI: 10.2210/pdb6buz/pdb
PDB 6buz coloured by chain and viewed from the front.
PDB 6buz coloured by chain and viewed from the side.
PDB 6buz coloured by chain and viewed from the top.
Source organisms:
Primary publication:
Structural mechanisms of centromeric nucleosome recognition by the kinetochore protein CENP-N.
Chittori S, Hong J, Saunders H, Feng H, Ghirlando R, Kelly AE, Bai Y, Subramaniam S
Science (2017)
PMID: 29269420
Related structures: EMD-7293

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero undecamer (preferred)
Entry contents:
5 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (7 distinct):
Histone H3-like centromeric protein A Chains: A, E
Molecule details ›
Chains: A, E
Length: 160 amino acids
Theoretical weight: 18.2 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P49450 (Residues: 1-140; Coverage: 100%)
Gene name: CENPA
Sequence domains: Core histone H2A/H2B/H3/H4
Structure domains: Histone, subunit A
Histone H4 Chains: B, F
Molecule details ›
Chains: B, F
Length: 103 amino acids
Theoretical weight: 11.39 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P62805 (Residues: 1-103; Coverage: 100%)
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
Structure domains: Histone, subunit A
Histone H2A type 1-B/E Chains: C, G
Molecule details ›
Chains: C, G
Length: 130 amino acids
Theoretical weight: 14.17 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P04908 (Residues: 1-130; Coverage: 100%)
Gene names: H2AC4, H2AC8, H2AFA, H2AFM, HIST1H2AB, HIST1H2AE
Sequence domains:
Structure domains: Histone, subunit A
Histone H2B type 1-J Chains: D, H
Molecule details ›
Chains: D, H
Length: 126 amino acids
Theoretical weight: 13.94 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P06899 (Residues: 1-126; Coverage: 100%)
Gene names: H2BC11, H2BFR, HIST1H2BJ
Sequence domains: Core histone H2A/H2B/H3/H4
Structure domains: Histone, subunit A
Centromere protein N; Maltose/maltodextrin-binding periplasmic protein Chain: N
Molecule details ›
Chain: N
Length: 668 amino acids
Theoretical weight: 75.61 KDa
Source organisms: Expression system: Escherichia coli
UniProt:
  • Canonical: Q96H22 (Residues: 1-286; Coverage: 84%)
  • Canonical: P0AEY0 (Residues: 26-394; Coverage: 100%)
Gene names: BM-309, C16orf60, CENPN, ECs5017, ICEN32, Z5632, malE
Sequence domains:
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: 45.61 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.92Å
Relevant EMDB volumes: EMD-7293
Expression system: Escherichia coli

Quick links

Citations

5 review citations

CENP-A nucleosome-a chromatin-embedded pedestal for the centromere: lessons learned from structural biology.
Ali-Ahmad et al. (2020)
4 more

5 mentions without citation

Seeing is believing: our evolving view of kinetochore structure, composition, and assembly.
Hamilton et al. (2019)
4 more