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. Author manuscript; available in PMC: 2024 Nov 11.
Published in final edited form as: Mol Cell. 2023 Oct 10;83(22):4017–4031.e9. doi: 10.1016/j.molcel.2023.09.029
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies
Sheep polyclonal anti-Psf2 Gambus lab Gambus et al.56
Sheep polyclonal anti-Cdc45 Gambus lab Gambus et al.56
Sheep polyclonal anti-GINS Gambus lab Tarcan et al.57
Rabbit polyclonal anti-DONSON Gambus lab Kingsley et al.42
Sheep polyclonal anti-DONSON Gambus lab Kingsley et al.42
Sheep polyclonal anti-Mcm7 Gambus lab Priego Moreno et al.58
Sheep polyclonal anti-RecQ4 Gambus lab Moreno et al.59
Sheep polyclonal anti-TopBP1 Gambus lab Moreno et al.59
Sheep polyclonal anti-Treslin Blow lab Volpi et al.60
Sheep polyclonal anti-MTBP Blow lab Volpi et al.60
IgG from rabbit serum Sigma-Aldrich RRID: AB_1163659
Polyclonal rabbit anti-FLAG Sigma-Aldrich RRID: AB_439687
Monoclonal mouse anti-Mcm2 BD Transduction labs RRID: AB_2141952
Monoclonal mouse anti-PCNA Santa Cruz Biotechnology RRID: AB_628110
Monoclonal mouse anti-PCNA Sigma Aldrich RRID: AB_477413
Bacterial and virus strains
Rosetta™(DE3) pLysS Competent Cells Novagen (Merck) 70956
BL21(DE3) Competent Cells Novagen (Merck) 69451
Chemicals, peptides, and recombinant proteins
Aphidicolin Bio-Techne Limited Cat# 5736/1
Caffeine Sigma-Aldrich CAS: 58-08-2
ANTI-FLAG® M2 Magnetic Beads Sigma-Aldrich Cat# M8823
3X FLAG Peptide Stratech Scientific Ltd A6001
HisTrap HP Cytiva Cat# 17524801
HiTrap Heparin HP Cytiva Cat# 17040701
Cdc45-TEV-His10-FLAG5 This study Addgene agreement 83268
DONSON WT Gambus lab Kingsley et al.42
DONSON DEW (D374A; E377A; W381A) This study Addgene agreement 83268
DONSON S437A This study Addgene agreement 83268
DONSON WM (W234L; M463T) This study Addgene agreement 83268
DONSON 3A (V473A; R476A; Y481A) This study Addgene agreement 83268
DONSON D24 (D1-24) This study Addgene agreement 83268
DONSON DEWS (D374A; E377A; W381A; S437A) This study Addgene agreement 83268
DONSON DD1 (D1-155) Gambus lab Kingsley et al.42
GINS: (Psf1, Psf2, Psf3 and Sld5) Gambus lab Tarcan et al.57
Graphene oxide Sigma-Aldrich 763705-25ML
Deposited data
Xenla dCMGDo consensus cryo-EM map This study EMDB: EMD-18191
Xenla dCMGDo ATPase cryo-EM map This study EMDB: EMD-18192
Xenla sCMG consensus cryo-EM map This study EMDB: EMD-18195
Xenla dCMGDo – without MCM ATPase PDB coordinates This study PDB: 8Q6O
Xenla dCMGDo – MCM ATPase PDB coordinates This study PDB: 8Q6P
Xenopus laevis Cdc45-FLAG interactions on chromatin during DNA replication – Mass spectrometry data project This study PRIDE: PXD044422
Experimental models: Cell lines
293FT Thermo Fisher Scientific R70007
Experimental models: Organisms/strains
Xenopus laevis Gambus lab N/A
Oligonucleotides
DONSON DEW (D374A; E377A; W381A) forward: CTCTGCGCTAGAAGAGATGGGAGTTGAAGA
TAAAATTAAAAAG;
Sigma-Aldrich N/A
DONSON DEW (D374A; E377A; W381A) reverse:
AAGCTCGCATCTTCCGCGCTTTCATC
CGATGCCTC
Sigma-Aldrich N/A
DONSON S437A forward: AAACTGTAAGGC
GATTGTCGCTGC
Sigma-Aldrich N/A
DONSON S437A reverse: TGAGGAAGTT CAGTAAAG Sigma-Aldrich N/A
DONSON W234L forward: GTCGCTTCCTCT
GGTACAGCTTTTTC
Sigma-Aldrich N/A
DONSON W234L reverse: GGATGAATCCAG TGCACAAG Sigma-Aldrich N/A
DONSON M463T forward: AGGAGCAACAA
CGCACGCGCTTA
Sigma-Aldrich N/A
DONSON M463T reverse: CGGAATGCGA
CTGGAGAC
Sigma-Aldrich N/A
DONSON 3A (V473A; R476A; Y481A) forward:
GAACTCTGGTGCGAAGGATCAGTTTAGTCTGG;
Sigma-Aldrich N/A
DONSON 3A (V473A; R476A; Y481A) reverse:
ACCGCAGTCTTCGCATTCACACTCCTTG
CCTTAAG
Sigma-Aldrich N/A
DONSON D24 (Δ1-24) forward: AGGAGCAGG
AGCGAGGCT
Sigma-Aldrich N/A
DONSON D24 (Δ1-24) reverse: CAGATCCTCT
TCTGAGATGAGTTTTTGTTCG
Sigma-Aldrich N/A
DONSON DD1 (Δ1-155) forward: TCCGTGAC
TTTTCCTGCT
Sigma-Aldrich N/A
DONSON DD1 (Δ1-155) reverse: CATTTATTT
CCAGGTGTACC
Sigma-Aldrich N/A
Recombinant DNA
pET28a-DONSON Gambus lab Addgene: 208797
pET28a-DONSON ΔD1 Gambus lab Addgene: 208804
pET28a-DONSON-WM (W234L, M463T) This study Addgene: 208798
pET28a-DONSON-DEWS (D374A, E377A,
W381A, S437A)
This study Addgene: 208799
pET28a-DONSON-3A (V473A, R476A, Y481A) This study Addgene: 208800
pET28a-DONSON Δ24 (1-24 removed) This study Addgene: 208801
pET28a-DONSON-S437A This study Addgene: 208803
pET28a-DONSON-DEW (D374A, E377A, W381A) This study Addgene: 208802
Software and algorithms
crYOLO 1.4.0 Wagner et al.61 https://cryolo.readthedocs.io/en/stable/
Relion 3.0.4 and 4.0.0 Kimanius et al.62;
Zivanov et al63
https://www.mrc-lmb.cam.ac.Uk/relion/index.php?title=Main_Page
cryoSPARC v4.2.1 Punjani et al.64 https://cryosparc.com/
Gctf Zhang et al.65 https://sbgrid.org/software/titles/gctf
CtfFind-4.1 Rohou et al.66 https://grigoriefflab.umassmed.edu/ctffind4
Topaz-0.2.5 Bepler et al.67 https://cb.csail.mit.edu/cb/topaz/
Coot V0.9.8.1 Emsley et al.68 https://www.mrc-lmb.cam.ac.uk/personal/pemsley/coot/
PHENIX V1.20.1 Liebschner et al.69 http://www.phenix-online.org/
UCSF Chimera
V1.16
Pettersen et al.70 https://www.cgl.ucsf.edu/chimera/
UCSF ChimeraX Goddard et al.71 https://www.rbvi.ucsf.edu/chimerax/
Mascot v 2.8.0.1 Matrix Science, London, UK https://www.matrixscience.com/
Scaffold v 5.1.0 Proteome Software Inc., Portland https://proteomesoftware.com/
AcquireMP v 2.5 Refeyn Ltd., Oxford, UK https://www.refeyn.com/
DiscoverMP v 2.5 Refeyn Ltd., Oxford, UK https://www.refeyn.com/
GraphPad Prism v 10.0.2 GraphPad Software LLC https://www.graphpad.com/