› 6rqc

Electron Microscopy
4.4Å resolution

Cryo-EM structure of an MCM loading intermediate

Released:
DOI: 10.2210/pdb6rqc/pdb
PDB entry 6rqc coloured by chain, front view.
PDB entry 6rqc coloured by chain, side view.
PDB entry 6rqc coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
Mechanism of head-to-head MCM double-hexamer formation revealed by cryo-EM.
Miller TCR, Locke J, Greiwe JF, Diffley JFX, Costa A
Nature 575 704-710 (2019)
PMID: 31748745
Related structures: EMD-4980

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetradecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-120568 (preferred)
Entry contents:
12 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (14 distinct):
Origin recognition complex subunit 1 Chain: A
Molecule details ›
Chain: A
Length: 949 amino acids
Theoretical weight: 108.61 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P54784 (Residues: 1-914; Coverage: 100%)
Gene names: ORC1, YML065W
Sequence domains:
Origin recognition complex subunit 2 Chain: B
Molecule details ›
Chain: B
Length: 620 amino acids
Theoretical weight: 71.34 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P32833 (Residues: 1-620; Coverage: 100%)
Gene names: ORC2, RRR1, SIR5, YBR0523, YBR060C
Sequence domains: Origin recognition complex subunit 2
Origin recognition complex subunit 3 Chain: C
Molecule details ›
Chain: C
Length: 616 amino acids
Theoretical weight: 72.16 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P54790 (Residues: 1-616; Coverage: 100%)
Gene names: L1365, OAF1, OIF1, ORC3, YLL004W
Sequence domains: Origin recognition complex winged helix C-terminal
Origin recognition complex subunit 4 Chain: D
Molecule details ›
Chain: D
Length: 529 amino acids
Theoretical weight: 60.77 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P54791 (Residues: 1-529; Coverage: 100%)
Gene names: ORC4, P9325.5, YPR162C
Sequence domains: Origin recognition complex (ORC) subunit 4 C-terminus
Origin recognition complex subunit 5 Chain: E
Molecule details ›
Chain: E
Length: 479 amino acids
Theoretical weight: 55.35 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P50874 (Residues: 1-479; Coverage: 100%)
Gene names: N0834, ORC5, YNL261W
Sequence domains:
Origin recognition complex subunit 6 Chain: F
Molecule details ›
Chain: F
Length: 435 amino acids
Theoretical weight: 50.37 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38826 (Residues: 1-435; Coverage: 100%)
Gene names: AAP1, ORC6, YHR118C
Sequence domains: Origin recognition complex subunit 6 (ORC6)
DNA replication licensing factor MCM2 Chain: 2
Molecule details ›
Chain: 2
Length: 868 amino acids
Theoretical weight: 98.91 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P29469 (Residues: 1-868; Coverage: 100%)
Gene names: MCM2, YBL023C, YBL0438
Sequence domains:
DNA replication licensing factor MCM3 Chain: 3
Molecule details ›
Chain: 3
Length: 1006 amino acids
Theoretical weight: 111.72 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P24279 (Residues: 1-971; Coverage: 100%)
Gene names: MCM3, SYGP-ORF23, YEL032W
Sequence domains:
DNA replication licensing factor MCM4 Chain: 4
Molecule details ›
Chain: 4
Length: 933 amino acids
Theoretical weight: 105.14 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P30665 (Residues: 1-933; Coverage: 100%)
Gene names: CDC54, HCD21, MCM4, YP9531.13, YPR019W
Sequence domains:
Minichromosome maintenance protein 5 Chain: 5
Molecule details ›
Chain: 5
Length: 775 amino acids
Theoretical weight: 86.51 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P29496 (Residues: 1-775; Coverage: 100%)
Gene names: CDC46, L9328.1, MCM5, YLR274W
Sequence domains:
DNA replication licensing factor MCM6 Chain: 6
Molecule details ›
Chain: 6
Length: 1017 amino acids
Theoretical weight: 113.11 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P53091 (Residues: 1-1017; Coverage: 100%)
Gene names: MCM6, YGL201C
Sequence domains:
DNA replication licensing factor MCM7 Chain: 7
Molecule details ›
Chain: 7
Length: 845 amino acids
Theoretical weight: 95.05 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38132 (Residues: 1-845; Coverage: 100%)
Gene names: CDC47, MCM7, YBR1441, YBR202W
Sequence domains:
DNA (88-MER) Chain: X
Molecule details ›
Chain: X
Length: 88 nucleotides
Theoretical weight: 27.12 KDa
DNA (88-MER) Chain: Y
Molecule details ›
Chain: Y
Length: 88 nucleotides
Theoretical weight: 27.15 KDa

Ligands and Environments

4 bound ligands:
Ligand ATP 3 x ATP
Ligand MG 3 x MG
Ligand ADP 4 x ADP
Ligand ZN 5 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.4Å
Relevant EMDB volumes: EMD-4980
Expression system: Saccharomyces cerevisiae S288C

Quick links

Citations

19 review citations

Caught in the act: structural dynamics of replication origin activation and fork progression.
Lewis et al. (2020)
18 more

4 mentions without citation

Mechanism of head-to-head MCM double-hexamer formation revealed by cryo-EM.
Miller et al. (2019)
3 more