› 7pfo

Electron Microscopy
3.2Å resolution

Core human replisome

Released:
DOI: 10.2210/pdb7pfo/pdb
PDB entry 7pfo coloured by chain, front view.
PDB entry 7pfo coloured by chain, side view.
PDB entry 7pfo coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of a human replisome shows the organisation and interactions of a DNA replication machine.
Jones ML, Baris Y, Taylor MRG, Yeeles JTP
OpenAccess logo EMBO J 40 e108819 (2021)
PMID: 34694004
Related structures: EMD-13375

Function and Biology Details

Reactions catalysed: 
ATP + H(2)O = ADP + phosphate
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 21-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-232356 (preferred)
Entry contents:
17 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (19 distinct):
DNA replication licensing factor MCM2 Chain: 2
Molecule details ›
Chain: 2
Length: 904 amino acids
Theoretical weight: 102.03 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P49736 (Residues: 1-904; Coverage: 100%)
Gene names: BM28, CCNL1, CDCL1, KIAA0030, MCM2
Sequence domains:
DNA replication licensing factor MCM3 Chain: 3
Molecule details ›
Chain: 3
Length: 808 amino acids
Theoretical weight: 91.11 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P25205 (Residues: 1-808; Coverage: 100%)
Gene name: MCM3
Sequence domains:
DNA replication licensing factor MCM4 Chain: 4
Molecule details ›
Chain: 4
Length: 863 amino acids
Theoretical weight: 96.68 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P33991 (Residues: 1-863; Coverage: 100%)
Gene names: CDC21, MCM4
Sequence domains:
DNA replication licensing factor MCM5 Chain: 5
Molecule details ›
Chain: 5
Length: 734 amino acids
Theoretical weight: 82.41 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P33992 (Residues: 1-734; Coverage: 100%)
Gene names: CDC46, MCM5
Sequence domains:
DNA replication licensing factor MCM6 Chain: 6
Molecule details ›
Chain: 6
Length: 821 amino acids
Theoretical weight: 93.01 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q14566 (Residues: 1-821; Coverage: 100%)
Gene name: MCM6
Sequence domains:
DNA replication licensing factor MCM7 Chain: 7
Molecule details ›
Chain: 7
Length: 719 amino acids
Theoretical weight: 81.41 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P33993 (Residues: 1-719; Coverage: 100%)
Gene names: CDC47, MCM2, MCM7
Sequence domains:
DNA polymerase epsilon subunit 2 Chain: A
Molecule details ›
Chain: A
Length: 527 amino acids
Theoretical weight: 59.6 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P56282 (Residues: 1-527; Coverage: 100%)
Gene names: DPE2, POLE2
Sequence domains:
DNA polymerase epsilon catalytic subunit A Chain: B
Molecule details ›
Chain: B
Length: 2286 amino acids
Theoretical weight: 261.86 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q07864 (Residues: 1-2286; Coverage: 100%)
Gene names: POLE, POLE1
Sequence domains:
Cell division control protein 45 homolog Chain: C
Molecule details ›
Chain: C
Length: 569 amino acids
Theoretical weight: 66.02 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: O75419 (Residues: 1-160, 165-566; Coverage: 99%)
Gene names: CDC45, CDC45L, CDC45L2, UNQ374/PRO710
Sequence domains: CDC45-like protein
DNA replication complex GINS protein PSF1 Chain: D
Molecule details ›
Chain: D
Length: 196 amino acids
Theoretical weight: 23.02 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q14691 (Residues: 1-196; Coverage: 100%)
Gene names: GINS1, KIAA0186, PSF1
Sequence domains: GINS complex protein helical bundle domain
DNA replication complex GINS protein PSF2 Chain: E
Molecule details ›
Chain: E
Length: 185 amino acids
Theoretical weight: 21.45 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9Y248 (Residues: 1-185; Coverage: 100%)
Gene names: CGI-122, DC5, GINS2, HSPC037, PSF2
Sequence domains: GINS complex protein helical bundle domain
DNA replication complex GINS protein PSF3 Chain: F
Molecule details ›
Chain: F
Length: 216 amino acids
Theoretical weight: 24.56 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9BRX5 (Residues: 1-216; Coverage: 100%)
Gene names: GINS3, PSF3
Sequence domains:
DNA replication complex GINS protein SLD5 Chain: G
Molecule details ›
Chain: G
Length: 262 amino acids
Theoretical weight: 30.11 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9BRT9 (Residues: 1-223; Coverage: 100%)
Gene names: GINS4, SLD5
Sequence domains:
WD repeat and HMG-box DNA-binding protein 1 Chains: H, I, J
Molecule details ›
Chains: H, I, J
Length: 1161 amino acids
Theoretical weight: 130.1 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: O75717 (Residues: 1-1129; Coverage: 100%)
Gene names: AND1, WDHD1
Sequence domains:
Protein timeless homolog Chain: K
Molecule details ›
Chain: K
Length: 1209 amino acids
Theoretical weight: 138.9 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9UNS1 (Residues: 1-1208; Coverage: 100%)
Gene names: TIM, TIM1, TIMELESS, TIMELESS1
Sequence domains:
TIMELESS-interacting protein Chain: L
Molecule details ›
Chain: L
Length: 301 amino acids
Theoretical weight: 34.6 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9BVW5 (Residues: 1-301; Coverage: 100%)
Gene name: TIPIN
Sequence domains: Replication Fork Protection Component Swi3
Claspin Chain: Q
Molecule details ›
Chain: Q
Length: 1371 amino acids
Theoretical weight: 155.18 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9HAW4 (Residues: 1-1339; Coverage: 100%)
Gene name: CLSPN
Leading strand DNA Chain: M
Molecule details ›
Chain: M
Length: 85 nucleotides
Theoretical weight: 26.4 KDa
Lagging Strand DNA Chain: N
Molecule details ›
Chain: N
Length: 54 nucleotides
Theoretical weight: 16.41 KDa

Ligands and Environments

4 bound ligands:
Ligand ZN 5 x ZN
Ligand MG 3 x MG
Ligand ANP 3 x ANP
Ligand SO4 1 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.2Å
Relevant EMDB volumes: EMD-13375
Expression system: Trichoplusia ni

Quick links

Citations

11 review citations

Role of Chromatin Replication in Transcriptional Plasticity, Cell Differentiation and Disease.
López-Jiménez et al. (2022)
10 more

8 mentions without citation

The TIMELESS effort for timely DNA replication and protection.
Patel et al. (2023)
7 more