PDBe 6c0w

Electron Microscopy
4Å resolution

Cryo-EM structure of human kinetochore protein CENP-N with the centromeric nucleosome containing CENP-A

Released:
Source organism: Homo sapiens
Related structures: EMD-7326

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 11-mer (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: 140 amino acids
Theoretical weight: 16.02 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: P49450 (Residues: 1-140; Coverage: 100%)
Gene name: CENPA
Sequence domains: Core histone H2A/H2B/H3/H4
Histone H4 Chains: B, F
Molecule details ›
Chains: B, F
Length: 102 amino acids
Theoretical weight: 11.34 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: P62805 (Residues: 1-102; Coverage: 99%)
Gene names: 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, 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: 130 amino acids
Theoretical weight: 14.14 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q93077 (Residues: 1-130; Coverage: 100%)
Gene names: H2AFL, HIST1H2AC
Sequence domains:
Histone H2B type 1-C/E/F/G/I 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: P62807 (Residues: 1-126; Coverage: 100%)
Gene names: H2BFA, H2BFG, H2BFH, H2BFK, H2BFL, HIST1H2BC, HIST1H2BE, HIST1H2BF, HIST1H2BG, HIST1H2BI
Sequence domains: Core histone H2A/H2B/H3/H4
Centromere protein N Chain: K
Molecule details ›
Chain: K
Length: 295 amino acids
Theoretical weight: 34.87 KDa
Source organism: Homo sapiens
Expression system: Insect cell expression vector pTIE1
UniProt:
  • Canonical: Q96H22 (Residues: 1-289; Coverage: 85%)
Gene names: BM-309, C16orf60, CENPN, ICEN32
147 mer DNA Chain: I
Molecule details ›
Chain: I
Length: 147 nucleotides
Theoretical weight: 45.15 KDa
147 mer DNA Chain: J
Molecule details ›
Chain: J
Length: 147 nucleotides
Theoretical weight: 45.59 KDa

Ligands and Environments

No bound ligands

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution:
Relevant EMDB volumes: EMD-7326
Expression systems:
  • Escherichia coli 'BL21-Gold(DE3)pLysS AG'
  • Escherichia coli
  • Insect cell expression vector pTIE1