Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 6-mer - A1B1C1D1E1F1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 6-mer - A5B1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 608.93 kDa 
• Atom Count: 29838 
• Modelled Residue Count: 3786 
• Deposited Residue Count: 5409 
• Unique protein chains: 6

3JA8

Cryo-EM structure of the MCM2-7 double hexamer

• PDB DOI: 10.2210/pdb3JA8/pdb
• EM Map EMD-6338:EMDBEMDataResource

• Classification: HYDROLASE
• Organism(s): Saccharomyces cerevisiae S288C
• Mutation(s): No 


• Deposited: 2015-05-09 Released: 2015-08-05 
• Deposition Author(s): Li, N., Zhai, Y., Zhang, Y., Li, W., Yang, M., Lei, J., Tye, B.K., Gao, N.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 6EYC

Literature

Structure of the eukaryotic MCM complex at 3.8 angstrom

Li, N., Zhai, Y., Zhang, Y., Li, W., Yang, M., Lei, J., Tye, B.K., Gao, N.

(2015) Nature 524: 186-191

• PubMed: 26222030 
• DOI: 10.1038/nature14685
• Primary Citation of Related Structures:  
  3JA8


• PubMed Abstract: 
  

DNA replication in eukaryotes is strictly regulated by several mechanisms. A central step in this replication is the assembly of the heterohexameric minichromosome maintenance (MCM2-7) helicase complex at replication origins during G1 phase as an inactive double hexamer. Here, using cryo-electron microscopy, we report a near-atomic structure of the MCM2-7 double hexamer purified from yeast G1 chromatin. Our structure shows that two single hexamers, arranged in a tilted and twisted fashion through interdigitated amino-terminal domain interactions, form a kinked central channel. Four constricted rings consisting of conserved interior β-hairpins from the two single hexamers create a narrow passageway that tightly fits duplex DNA. This narrow passageway, reinforced by the offset of the two single hexamers at the double hexamer interface, is flanked by two pairs of gate-forming subunits, MCM2 and MCM5. These unusual features of the twisted and tilted single hexamers suggest a concerted mechanism for the melting of origin DNA that requires structural deformation of the intervening DNA.

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Organizational Affiliation: 

Ministry of Education Key Laboratory of Protein Sciences, Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing 100084, China.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Minichromosome Maintenance 2	A [auth 2]	868	Saccharomyces cerevisiae S288C	Mutation(s): 0  Gene Names: MCM2, YBL023C, YBL0438 EC: 3.6.4.12
UniProt
Find proteins for P29469 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P29469  Go to UniProtKB:  P29469

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Minichromosome Maintenance 3	B [auth 3]	971	Saccharomyces cerevisiae S288C	Mutation(s): 0  Gene Names: MCM3, YEL032W, SYGP-ORF23 EC: 3.6.4.12
UniProt
Find proteins for P24279 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P24279  Go to UniProtKB:  P24279

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Minichromosome Maintenance 4	C [auth 4]	933	Saccharomyces cerevisiae S288C	Mutation(s): 0  Gene Names: MCM4, CDC54, HCD21, YPR019W, YP9531.13 EC: 3.6.4.12
UniProt
Find proteins for P30665 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P30665  Go to UniProtKB:  P30665

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Minichromosome Maintenance 5	D [auth 5]	775	Saccharomyces cerevisiae S288C	Mutation(s): 0  Gene Names: MCM5, CDC46, YLR274W, L9328.1 EC: 3.6.4.12
UniProt
Find proteins for P29496 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P29496  Go to UniProtKB:  P29496

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Minichromosome Maintenance 6	E [auth 6]	1017	Saccharomyces cerevisiae S288C	Mutation(s): 0  Gene Names: MCM6, YGL201C EC: 3.6.4.12
UniProt
Find proteins for P53091 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P53091  Go to UniProtKB:  P53091

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Minichromosome Maintenance 7	F [auth 7]	845	Saccharomyces cerevisiae S288C	Mutation(s): 0  Gene Names: MCM7, CDC47, YBR202W, YBR1441 EC: 3.6.4.12
UniProt
Find proteins for P38132 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P38132  Go to UniProtKB:  P38132

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	G [auth 2], H [auth 3], I [auth 4], J [auth 5], K [auth 6], L [auth 7]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2015-05-09 
• Released Date: 2015-08-05 
Deposition Author(s): Li, N., Zhai, Y., Zhang, Y., Li, W., Yang, M., Lei, J., Tye, B.K., Gao, N.

Revision History  

• Version 1.0: 2015-08-05
  Type: Initial release
  
• Version 1.1: 2015-08-19
  Changes: Database references
• Version 1.2: 2019-12-11
  Changes: Advisory, Data collection, Database references, Derived calculations