6XTX

CryoEM structure of human CMG bound to ATPgammaS and DNA

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.29 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

CryoEM structures of human CMG-ATP gamma S-DNA and CMG-AND-1 complexes.

Rzechorzek, N.J., Hardwick, S.W., Jatikusumo, V.A., Chirgadze, D.Y., Pellegrini, L.

(2020) Nucleic Acids Res 48: 6980-6995

  • DOI: https://doi.org/10.1093/nar/gkaa429
  • Primary Citation of Related Structures:  
    6XTX, 6XTY

  • PubMed Abstract: 

    • DNA unwinding in eukaryotic replication is performed by the Cdc45-MCM-GINS (CMG) helicase. Although the CMG architecture has been elucidated, its mechanism of DNA unwinding and replisome interactions remain poorly understood. Here we report the cryoEM structure at 3 ...

    DNA unwinding in eukaryotic replication is performed by the Cdc45-MCM-GINS (CMG) helicase. Although the CMG architecture has been elucidated, its mechanism of DNA unwinding and replisome interactions remain poorly understood. Here we report the cryoEM structure at 3.3 Å of human CMG bound to fork DNA and the ATP-analogue ATPγS. Eleven nucleotides of single-stranded (ss) DNA are bound within the C-tier of MCM2-7 AAA+ ATPase domains. All MCM subunits contact DNA, from MCM2 at the 5'-end to MCM5 at the 3'-end of the DNA spiral, but only MCM6, 4, 7 and 3 make a full set of interactions. DNA binding correlates with nucleotide occupancy: five MCM subunits are bound to either ATPγS or ADP, whereas the apo MCM2-5 interface remains open. We further report the cryoEM structure of human CMG bound to the replisome hub AND-1 (CMGA). The AND-1 trimer uses one β-propeller domain of its trimerisation region to dock onto the side of the helicase assembly formed by Cdc45 and GINS. In the resulting CMGA architecture, the AND-1 trimer is closely positioned to the fork DNA while its CIP (Ctf4-interacting peptide)-binding helical domains remain available to recruit partner proteins.

    Organizational Affiliation: 

    Department of Biochemistry, Tennis Court Road, Cambridge CB2 1GA, UK.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
DNA replication licensing factor MCM2A [auth 2]904Homo sapiensMutation(s): 0 
Gene Names: MCM2, BM28, CCNL1, CDCL1, KIAA0030
EC: 3.6.4.12
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UniProt GroupP49736
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
DNA replication licensing factor MCM3B [auth 3]853Homo sapiensMutation(s): 0 
Gene Names: MCM3
EC: 3.6.4.12
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Find proteins for P25205 (Homo sapiens)
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
DNA replication licensing factor MCM4C [auth 4]883Homo sapiensMutation(s): 0 
Gene Names: MCM4, CDC21
EC: 3.6.4.12
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
DNA replication licensing factor MCM5D [auth 5]734Homo sapiensMutation(s): 0 
Gene Names: MCM5, CDC46
EC: 3.6.4.12
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
DNA replication licensing factor MCM6E [auth 6]821Homo sapiensMutation(s): 0 
Gene Names: MCM6
EC: 3.6.4.12
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
DNA replication licensing factor MCM7F [auth 7]719Homo sapiensMutation(s): 0 
Gene Names: MCM7, CDC47, MCM2
EC: 3.6.4.12
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
DNA replication complex GINS protein PSF1G [auth A]196Homo sapiensMutation(s): 0 
Gene Names: GINS1, KIAA0186, PSF1
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
DNA replication complex GINS protein PSF2H [auth B]222Homo sapiensMutation(s): 0 
Gene Names: GINS2, PSF2, CGI-122, DC5, HSPC037
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
DNA replication complex GINS protein PSF3I [auth C]216Homo sapiensMutation(s): 0 
Gene Names: GINS3, PSF3
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
DNA replication complex GINS protein SLD5J [auth D]223Homo sapiensMutation(s): 0 
Gene Names: GINS4, SLD5
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
Cell division control protein 45 homologK [auth E]566Homo sapiensMutation(s): 1 
Gene Names: CDC45, CDC45L, CDC45L2, UNQ374/PRO710
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Entity ID: 12
MoleculeChainsLengthOrganismImage
DNA (5'-D(P*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3')L [auth M]70synthetic construct
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Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
AGS
Query on AGS
Download Ideal Coordinates CCD File 
Q [auth 4],
S [auth 4],
X [auth 7]		PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
C10 H16 N5 O12 P3 S
NLTUCYMLOPLUHL-KQYNXXCUSA-N		 Ligand Interaction
ADP
Query on ADP
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N [auth 2],
O [auth 3]		ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N		 Ligand Interaction
ZN
Query on ZN
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M [auth 2],
P [auth 4],
T [auth 5],
U [auth 6],
W [auth 7]		ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N		 Ligand Interaction
MG
Query on MG
Download Ideal Coordinates CCD File 
R [auth 4],
V [auth 6],
Y [auth 7]		MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.29 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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View more in-depth experimental data
Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom104641/Z/14/Z

Revision History  (Full details and data files)

  • Version 1.0: 2020-05-27
    Type: Initial release
  • Version 1.1: 2020-06-10
    Changes: Database references
  • Version 1.2: 2020-07-15
    Changes: Database references