6U0M

Structure of the S. cerevisiae replicative helicase CMG in complex with a forked DNA

• PDB DOI: https://doi.org/10.2210/pdb6U0M/pdb
• EM Map EMD-20607: EMDB EMDataResource
• NAKB: 6U0M

• Classification: REPLICATION/DNA
• Organism(s): Saccharomyces cerevisiae
• Expression System: Saccharomyces cerevisiae
• Mutation(s): No 


• Deposited: 2019-08-14 Released: 2020-03-25 
• Deposition Author(s): Yuan, Z., Georgescu, R., Bai, L., Zhang, D., O'Donnell, M., Li, H.
• Funding Organization(s): National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

DNA unwinding mechanism of a eukaryotic replicative CMG helicase.

Yuan, Z., Georgescu, R., Bai, L., Zhang, D., Li, H., O'Donnell, M.E.

(2020) Nat Commun 11: 688

• DOI: https://doi.org/10.1038/s41467-020-14577-6

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 11-mer - A1B1C1D1E1F1G1H1I1J1K1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 11-mer - A4B2C2D1E1F1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 661.1 kDa 
• Atom Count: 41,146 
• Modelled Residue Count: 5,139 
• Deposited Residue Count: 5,777 
• Unique protein chains: 11
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA replication complex GINS protein PSF1	A	208	Saccharomyces cerevisiae	Mutation(s): 0  Gene Names: PSF1, YDR013W, PZA208, YD8119.18
UniProt
Find proteins for Q12488 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q12488  Go to UniProtKB:  Q12488

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA replication complex GINS protein PSF2	B	198	Saccharomyces cerevisiae	Mutation(s): 0  Gene Names: PSF2, YJL072C, HRF213, J1086
UniProt
Find proteins for P40359 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P40359  Go to UniProtKB:  P40359

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA replication complex GINS protein PSF3	C	191	Saccharomyces cerevisiae	Mutation(s): 0  Gene Names: PSF3, YOL146W
UniProt
Find proteins for Q12146 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q12146  Go to UniProtKB:  Q12146

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA replication complex GINS protein SLD5	D	291	Saccharomyces cerevisiae	Mutation(s): 0  Gene Names: SLD5, YDR489W
UniProt
Find proteins for Q03406 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q03406  Go to UniProtKB:  Q03406

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Cell division control protein 45	E	646	Saccharomyces cerevisiae	Mutation(s): 0  Gene Names: CDC45, SLD4, YLR103C, L8004.11
UniProt
Find proteins for Q08032 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q08032  Go to UniProtKB:  Q08032

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA replication licensing factor MCM2	F [auth 2]	664	Saccharomyces cerevisiae	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: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA replication licensing factor MCM3	G [auth 3]	722	Saccharomyces cerevisiae	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: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA replication licensing factor MCM4	H [auth 4]	753	Saccharomyces cerevisiae	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: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
Minichromosome maintenance protein 5	I [auth 5]	670	Saccharomyces cerevisiae	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: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA replication licensing factor MCM6	J [auth 6]	667	Saccharomyces cerevisiae	Mutation(s): 0  EC: 3.6.4.12
UniProt
Find proteins for P53091 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P53091  Go to UniProtKB:  P53091

Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA replication licensing factor MCM7	K [auth 7]	729	Saccharomyces cerevisiae	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

Entity ID: 12
Molecule	Chains	Length	Organism	Image
DNA (26-MER)	L [auth F]	23	Saccharomyces cerevisiae

Entity ID: 13
Molecule	Chains	Length	Organism	Image
DNA (15-MER)	M [auth G]	15	Saccharomyces cerevisiae

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ATP (Subject of Investigation/LOI)	N [auth 2], O [auth 3], P [auth 5]	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-03-25 
Deposition Author(s): Yuan, Z., Georgescu, R., Bai, L., Zhang, D., O'Donnell, M., Li, H.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)	United States	GM111472
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)	United States	OD12272
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)	United States	GM45436

Revision History  

• Version 1.0: 2020-03-25
  Type: Initial release
  
• Version 2.0: 2020-04-22
  Type: Coordinate replacement
  Reason: Atomic clashes
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Polymer sequence, Source and taxonomy, Structure summary
• Version 2.1: 2024-03-20
  Changes: Data collection, Database references