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S.c INO80 in complex with S.c 0/80 nucleosome

Electron Microscopy
2.91Å resolution
PDB entry 9c9g coloured by chain, front view.
PDB entry 9c9g coloured by chain, side view.
PDB entry 9c9g coloured by chain, top view.
Source organisms:
Assembly composition:
hetero icosamer (preferred)
Entry contents: 10 distinct polypeptide molecules
2 distinct DNA molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero icosamer
PDBe Complex ID: PDB-CPX-307656

Macromolecules

Histone H3
Chains: A, E
Length: 136 amino acids
Theoretical weight: 15.39 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P61830 (Residues: 1-136; Coverage: 100%)
Gene names: HHT1, HHT2, N2749, SIN2, YBR010W, YBR0201, YNL031C
Pfam: Core histone H2A/H2B/H3/H4
Histone H3 in PDB entry 9c9g, assembly 1, front view.
Histone H3 in PDB entry 9c9g, assembly 1, side view.
Histone H3 in PDB entry 9c9g, assembly 1, top view.
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Histone H2A.1
Chains: C, G
Length: 132 amino acids
Theoretical weight: 14.01 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P04911 (Residues: 1-132; Coverage: 100%)
Gene names: H2A1, HTA1, SPT11, YD9934.10, YDR225W
Pfam:
Histone H2A.1 in PDB entry 9c9g, assembly 1, front view.
Histone H2A.1 in PDB entry 9c9g, assembly 1, side view.
Histone H2A.1 in PDB entry 9c9g, assembly 1, top view.
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Histone H2B.1
Chains: D, H
Length: 131 amino acids
Theoretical weight: 14.28 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P02293 (Residues: 1-131; Coverage: 100%)
Gene names: H2B1, HTB1, SPT12, YD9934.09C, YDR224C
Pfam: Core histone H2A/H2B/H3/H4
Histone H2B.1 in PDB entry 9c9g, assembly 1, front view.
Histone H2B.1 in PDB entry 9c9g, assembly 1, side view.
Histone H2B.1 in PDB entry 9c9g, assembly 1, top view.
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Chromatin-remodeling ATPase INO80
Chain: Q
Length: 1489 amino acids
Theoretical weight: 171.69 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P53115 (Residues: 1-1489; Coverage: 100%)
Gene names: G1880, INO80, YGL150C
Pfam:
Chromatin-remodeling ATPase INO80 in PDB entry 9c9g, assembly 1, front view.
Chromatin-remodeling ATPase INO80 in PDB entry 9c9g, assembly 1, side view.
Chromatin-remodeling ATPase INO80 in PDB entry 9c9g, assembly 1, top view.
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Actin-related protein 5
Chain: R
Length: 755 amino acids
Theoretical weight: 87.68 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P53946 (Residues: 1-755; Coverage: 100%)
Gene names: ARP5, N2430, YNL059C, YNL2430C
Pfam: Actin
Actin-related protein 5 in PDB entry 9c9g, assembly 1, front view.
Actin-related protein 5 in PDB entry 9c9g, assembly 1, side view.
Actin-related protein 5 in PDB entry 9c9g, assembly 1, top view.
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Chromatin-remodeling complex subunit IES6
Chain: S
Length: 166 amino acids
Theoretical weight: 18.56 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P32617 (Residues: 1-166; Coverage: 100%)
Gene names: IES6, SYGP-ORF13, YEL044W
Pfam: YL1 nuclear protein C-terminal domain
Chromatin-remodeling complex subunit IES6 in PDB entry 9c9g, assembly 1, front view.
Chromatin-remodeling complex subunit IES6 in PDB entry 9c9g, assembly 1, side view.
Chromatin-remodeling complex subunit IES6 in PDB entry 9c9g, assembly 1, top view.
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RuvB-like protein 1
Chains: T, V, X
Length: 463 amino acids
Theoretical weight: 50.52 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q03940 (Residues: 1-463; Coverage: 100%)
Gene names: RVB1, TIH1, TIP49A, YDR190C
Pfam:
RuvB-like protein 1 in PDB entry 9c9g, assembly 1, front view.
RuvB-like protein 1 in PDB entry 9c9g, assembly 1, side view.
RuvB-like protein 1 in PDB entry 9c9g, assembly 1, top view.
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RuvB-like protein 2
Chains: U, W, Y
Length: 471 amino acids
Theoretical weight: 51.67 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q12464 (Residues: 1-471; Coverage: 100%)
Gene names: P1060, RVB2, TIH2, TIP49B, YPL235W
Pfam:
RuvB-like protein 2 in PDB entry 9c9g, assembly 1, front view.
RuvB-like protein 2 in PDB entry 9c9g, assembly 1, side view.
RuvB-like protein 2 in PDB entry 9c9g, assembly 1, top view.
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Ino eighty subunit 2
Chain: Z
Length: 320 amino acids
Theoretical weight: 36.21 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P40154 (Residues: 1-320; Coverage: 100%)
Gene names: IES2, N1315, YNL215W
Pfam: PAPA-1-like conserved region
Ino eighty subunit 2 in PDB entry 9c9g, assembly 1, front view.
Ino eighty subunit 2 in PDB entry 9c9g, assembly 1, side view.
Ino eighty subunit 2 in PDB entry 9c9g, assembly 1, top view.
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Histone H4
Chains: B, F
Length: 103 amino acids
Theoretical weight: 11.39 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: P62799 (Residues: 1-103; Coverage: 100%)
Pfam: Centromere kinetochore component CENP-T histone fold
Histone H4 in PDB entry 9c9g, assembly 1, front view.
Histone H4 in PDB entry 9c9g, assembly 1, side view.
Histone H4 in PDB entry 9c9g, assembly 1, top view.
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DNA chain J
Name: DNA (227-MER)
Representative chains: J
Length: 227 nucleotides
Theoretical weight: 70.35 KDa
DNA (227-MER) in PDB entry 9c9g, assembly 1, front view.
DNA (227-MER) in PDB entry 9c9g, assembly 1, side view.
DNA (227-MER) in PDB entry 9c9g, assembly 1, top view.
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DNA chain I
Name: DNA (227-MER)
Representative chains: I
Length: 227 nucleotides
Theoretical weight: 69.84 KDa
DNA (227-MER) in PDB entry 9c9g, assembly 1, front view.
DNA (227-MER) in PDB entry 9c9g, assembly 1, side view.
DNA (227-MER) in PDB entry 9c9g, assembly 1, top view.
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