PDBe 6hts

Electron Microscopy
4.8Å resolution

Cryo-EM structure of the human INO80 complex bound to nucleosome

Released:
Source organism: Homo sapiens
Related structures: EMD-3954

Function and Biology Details

Reaction catalysed:
ATP + H(2)O = ADP + phosphate
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero 19-mer (preferred)
Entry contents:
9 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (11 distinct):
RuvB-like 1 Chains: A, C, E
Molecule details ›
Chains: A, C, E
Length: 456 amino acids
Theoretical weight: 50.3 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: NEW Q9Y265 (Residues: 1-456; Coverage: 100%)
Gene names: INO80H, NMP238, RUVBL1, TIP49, TIP49A
Sequence domains:
RuvB-like 2 Chains: B, D, F
Molecule details ›
Chains: B, D, F
Length: 463 amino acids
Theoretical weight: 51.22 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: NEW Q9Y230 (Residues: 1-463; Coverage: 100%)
Gene names: CGI-46, INO80J, RUVBL2, TIP48, TIP49B
Sequence domains:
Chromatin-remodeling ATPase INO80 Chain: G
Molecule details ›
Chain: G
Length: 1290 amino acids
Theoretical weight: 146.39 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: NEW Q9ULG1 (Residues: 267-1556; Coverage: 83%)
Gene names: INO80, INO80A, INOC1, KIAA1259
Sequence domains:
Actin-related protein 5 Chain: H
Molecule details ›
Chain: H
Length: 607 amino acids
Theoretical weight: 68.37 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: NEW Q9H9F9 (Residues: 1-607; Coverage: 100%)
Gene names: ACTR5, ARP5
Sequence domains: Actin
Histone H3.1 Chains: I, M
Molecule details ›
Chains: I, M
Length: 136 amino acids
Theoretical weight: 15.44 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: NEW P68431 (Residues: 1-136; Coverage: 100%)
Gene names: H3FA, H3FB, H3FC, H3FD, H3FF, H3FH, H3FI, H3FJ, H3FK, H3FL, HIST1H3A, HIST1H3B, HIST1H3C, HIST1H3D, HIST1H3E, HIST1H3F, HIST1H3G, HIST1H3H, HIST1H3I, HIST1H3J
Sequence domains: Core histone H2A/H2B/H3/H4
Histone H4 Chains: J, N
Molecule details ›
Chains: J, N
Length: 103 amino acids
Theoretical weight: 11.39 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: NEW P62805 (Residues: 1-103; Coverage: 100%)
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-B/E Chains: K, O
Molecule details ›
Chains: K, O
Length: 130 amino acids
Theoretical weight: 14.17 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: NEW P04908 (Residues: 1-130; Coverage: 100%)
Gene names: H2AFA, H2AFM, HIST1H2AB, HIST1H2AE
Sequence domains:
Histone H2B type 1-J Chains: L, P
Molecule details ›
Chains: L, P
Length: 126 amino acids
Theoretical weight: 13.94 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: NEW P06899 (Residues: 1-126; Coverage: 100%)
Gene names: H2BFR, HIST1H2BJ
Sequence domains: Core histone H2A/H2B/H3/H4
INO80 complex subunit B Chain: R
Molecule details ›
Chain: R
Length: 356 amino acids
Theoretical weight: 38.7 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: NEW Q9C086 (Residues: 1-356; Coverage: 100%)
Gene names: HMGA1L4, INO80B, PAPA1, ZNHIT4
Sequence domains:
DNA (150-MER) Chain: X
Molecule details ›
Chain: X
Length: 228 nucleotides
Theoretical weight: 70.6 KDa
DNA (150-MER) Chain: Y
Molecule details ›
Chain: Y
Length: 228 nucleotides
Theoretical weight: 70.2 KDa

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.8Å
Relevant EMDB volumes: EMD-3954
Expression systems:
  • Spodoptera frugiperda
  • Escherichia coli