8S09: H. sapiens MCM2-7 double hexamer

H. sapiens MCM2-7 double hexamer bound to double stranded DNA. Determined by electron microscopy at 3.1 Å resolution. Released 2 Oct 2024.

Method
Electron microscopy
Resolution
3.1 Å
Organisms
synthetic construct, Homo sapiens
Chains
14
Atoms
64,107
Mol. weight
1126.72 kDa
Ligands
ATP, ZN, ADP, MG
Released
2 Oct 2024

Explore 8S09 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8S09 contains 348 α-helices and 368 β-strands across 12 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chains 2 and A: 32 helices, 30 β-strands

ElementResiduesLengthSheet
α-helix182-1876
α-helix189-20517
α-helix214-22310
β-strand229-23241
α-helix234-2407
α-helix242-2476
α-helix252-27019
α-helix274-2774
β-strand282-28541
α-helix289-2924
α-helix299-3013
β-strand305-315112
β-strand319-32352
β-strand325-32953
β-strand335-33953
β-strand361-36333
β-strand369-379112
α-helix3861
β-strand393-39972
α-helix400-4023
β-strand411-41992
β-strand42614
β-strand43415
β-strand43514
β-strand438-44582
α-helix459-46911
α-helix473-4808
α-helix489-50012
β-strand50516
β-strand51316
β-strand519-52357
α-helix529-53911
β-strand543-54757
β-strand559-56248
β-strand569-57248
α-helix575-5784
β-strand582-58767
α-helix589-5913
α-helix594-60512
β-strand608-61369
β-strand616-62169
β-strand624-63077
α-helix643-6464
α-helix651-6566
β-strand659-66357
α-helix669-68517
α-helix714-7163
α-helix717-73014
β-strand734110
α-helix740-75718
α-helix764-78017
β-strand785110
α-helix788-80417
α-helix808-81710
α-helix819-8224
α-helix828-85124
β-strand859-861311
α-helix862-87110
α-helix878-8825
α-helix884-8885
β-strand892-894311
β-strand899-901311
Chains 3 and B: 27 helices, 35 β-strands
ElementResiduesLengthSheet
β-strand5-6212
α-helix10-2213
α-helix32-4211
β-strand46-50513
α-helix51-577
α-helix59-679
α-helix70-8718
α-helix91-933
β-strand99-103513
α-helix107-1093
β-strand110114
α-helix118-1203
β-strand124-1341114
β-strand138-1481115
β-strand153-158615
β-strand177116
β-strand183116
β-strand185-186215
β-strand192-196515
β-strand197-202614
α-helix2091
β-strand216-221614
β-strand234-2441114
α-helix245-2484
β-strand251-252217
β-strand255118
β-strand257-2671114
α-helix282-29110
α-helix293-3019
α-helix311-32212
β-strand327-328219
β-strand334-335219
β-strand340-345620
α-helix351-36111
β-strand365-367320
α-helix375-3784
β-strand380-384521
β-strand391-395521
α-helix397-4004
β-strand404-409620
α-helix411-4133
α-helix416-42712
β-strand430-435622
β-strand438-443622
β-strand446-452720
α-helix465-4695
α-helix473-4786
β-strand481-485520
α-helix491-50616
β-strand516123
β-strand545124
α-helix546-5483
α-helix556-5594
β-strand563124
α-helix565-57713
β-strand581-582225
α-helix584-60017
β-strand608-609226
α-helix616-63116
β-strand636-637225
α-helix639-65315
β-strand654-655226
Chains 4 and C: 24 helices, 28 β-strands
ElementResiduesLengthSheet
α-helix159-17214
α-helix192-20312
β-strand207-211527
α-helix212-2187
α-helix220-2289
α-helix230-24819
β-strand259-263527
α-helix271-2733
α-helix276-2783
β-strand282-2921128
β-strand296-3061128
β-strand312-316528
β-strand318129
β-strand321-324429
β-strand327130
β-strand334130
β-strand337-3562028
β-strand369-375728
α-helix376-3783
β-strand387-3971128
β-strand400131
β-strand408-409231
β-strand411132
β-strand413-4221028
α-helix432-4354
α-helix443-45412
α-helix458-4658
α-helix474-48512
β-strand506-509433
α-helix516-52611
β-strand530-534533
α-helix535-5373
β-strand538134
β-strand545-548435
β-strand556-560535
α-helix562-5654
β-strand570-574533
α-helix581-59313
β-strand595-600636
β-strand603-608636
β-strand612-617633
α-helix630-6345
α-helix638-6425
β-strand646-649433
α-helix656-66813
α-helix684-69714
β-strand701-702237
α-helix704-72118
α-helix727-7293
α-helix732-74716
β-strand752-753237
α-helix755-76814
Chains 5 and D: 33 helices, 36 β-strands
ElementResiduesLengthSheet
β-strand10-11238
α-helix28-4114
β-strand44-46339
β-strand50-52339
α-helix54-6512
β-strand69-73540
α-helix74-807
α-helix82-887
α-helix92-11019
α-helix114-1152
α-helix120-1234
β-strand125-129540
α-helix137-1393
α-helix142-1443
β-strand148-1581118
α-helix159-1613
β-strand162-1721118
β-strand178-183618
α-helix184-1852
β-strand189141
β-strand191-192217
β-strand212-214318
α-helix216-2183
β-strand220-2301118
α-helix236-2372
β-strand244-250718
α-helix251-2533
β-strand262-2711018
β-strand273141
α-helix277-2793
β-strand28912
β-strand292-3011018
α-helix317-32610
α-helix331-3388
α-helix347-35812
β-strand363-364242
β-strand370-371242
β-strand376-381643
α-helix388-39710
β-strand401-405543
β-strand408143
β-strand41119
β-strand417-420444
β-strand427-430444
β-strand441-445543
α-helix452-46312
β-strand466-471645
β-strand474-479645
β-strand483-488643
α-helix508-5125
β-strand516-520543
α-helix526-54217
α-helix553-5553
α-helix556-56914
β-strand570123
β-strand573146
α-helix576-60025
α-helix610-62516
β-strand631146
α-helix634-64411
α-helix645-6495
α-helix650-6523
α-helix668-68215
α-helix6841
β-strand688-690347
α-helix691-70010
α-helix705-71814
β-strand721-723347
β-strand729-732447
Chains 6 and E: 31 helices, 29 β-strands
ElementResiduesLengthSheet
α-helix21-3616
α-helix45-528
β-strand60-63448
α-helix65-717
α-helix73-819
α-helix83-10119
β-strand111-114448
α-helix128-1303
β-strand134-144115
α-helix145-1473
β-strand148-15145
β-strand153-158649
β-strand164-169649
β-strand191-193349
α-helix195-1973
β-strand200-209105
α-helix212-2143
α-helix220-2223
β-strand223-22975
α-helix230-2334
β-strand241-252125
β-strand263-266429
α-helix280-2867
β-strand291129
β-strand294-305125
α-helix322-3287
α-helix331-34111
α-helix345-35410
α-helix362-37312
β-strand378-379250
β-strand385-386250
β-strand392-396551
α-helix402-41211
β-strand416-420551
β-strand424136
β-strand431-435552
β-strand442-446552
α-helix448-4514
β-strand456-460551
α-helix462-4643
α-helix467-47913
β-strand481-486653
β-strand489-494653
β-strand498-503651
α-helix516-5183
α-helix524-5296
β-strand532-536551
α-helix544-55714
α-helix569-57911
β-strand585-586254
α-helix588-60316
β-strand612155
α-helix618-63518
β-strand639-640254
α-helix642-65514
β-strand658155
α-helix718-73720
α-helix745-75612
α-helix763-77816
α-helix779-7846
Chains 7 and F: 27 helices, 26 β-strands
ElementResiduesLengthSheet
α-helix6-1914
α-helix32-4110
β-strand47-51556
α-helix55-573
α-helix60-689
α-helix70-8819
α-helix98-11316
α-helix122-1243
α-helix126-1272
α-helix128-1314
β-strand135-139556
α-helix145-1462
β-strand147157
α-helix149-1513
α-helix154-1563
β-strand160-1701157
α-helix171-1733
β-strand174-1831032
β-strand190-194532
β-strand199-200231
β-strand205158
α-helix209-2146
β-strand219158
β-strand221-2321232
β-strand233-238657
β-strand252-257657
β-strand270-2811257
β-strand293115
β-strand294-3041157
α-helix348-35912
β-strand377-381559
α-helix388-39710
β-strand401-404459
α-helix407-4093
α-helix411-4133
β-strand416-419460
β-strand428-431460
α-helix433-4364
β-strand441-444459
α-helix447-4493
α-helix452-46312
β-strand466-471634
β-strand474-479634
β-strand483-488659
α-helix509-5146
β-strand517-521559
α-helix527-54317
α-helix557-56610
β-strand572161
α-helix575-59420
α-helix603-62018
β-strand624161
α-helix627-64115

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
DNA (45-mer)XDNA45synthetic construct
DNA (45-mer)YDNA45synthetic construct
DNA replication licensing factor MCM22, Aprotein904Homo sapiensP49736 (AlphaFold model)
DNA replication licensing factor MCM33, Bprotein810Homo sapiensP25205 (AlphaFold model)
DNA replication licensing factor MCM44, Cprotein863Homo sapiensP33991 (AlphaFold model)
DNA replication licensing factor MCM55, Dprotein734Homo sapiensP33992 (AlphaFold model)
DNA replication licensing factor MCM66, Eprotein821Homo sapiensQ14566
DNA replication licensing factor MCM77, Fprotein719Homo sapiensP33993
Sequence of entity 1 (X), FASTA
>8S09_1 DNA (45-mer) (chains X)
GCATGCATGCGCATGCATGCATTATGCATGCATGCGCATGCATGC
Sequence of entity 2 (Y), FASTA
>8S09_2 DNA (45-mer) (chains Y)
GCATGCATGCGCATGCATGCATAATGCATGCATGCGCATGCATGC
Sequence of entity 3 (2, A), FASTA
>8S09_3 DNA replication licensing factor MCM2 (chains 2, A)
MAESSESFTMASSPAQRRRGNDPLTSSPGRSSRRTDALTSSPGRDLPPFEDESEGLLGTE
GPLEEEEDGEELIGDGMERDYRAIPELDAYEAEGLALDDEDVEELTASQREAAERAMRQR
DREAGRGLGRMRRGLLYDSDEEDEERPARKRRQVERATEDGEEDEEMIESIENLEDLKGH
SVREWVSMAGPRLEIHHRFKNFLRTHVDSHGHNVFKERISDMCKENRESLVVNYEDLAAR
EHVLAYFLPEAPAELLQIFDEAALEVVLAMYPKYDRITNHIHVRISHLPLVEELRSLRQL
HLNQLIRTSGVVTSCTGVLPQLSMVKYNCNKCNFVLGPFCQSQNQEVKPGSCPECQSAGP
FEVNMEETIYQNYQRIRIQESPGKVAAGRLPRSKDAILLADLVDSCKPGDEIELTGIYHN
NYDGSLNTANGFPVFATVILANHVAKKDNKVAVGELTDEDVKMITSLSKDQQIGEKIFAS
IAPSIYGHEDIKRGLALALFGGEPKNPGGKHKVRGDINVLLCGDPGTAKSQFLKYIEKVS
SRAIFTTGQGASAVGLTAYVQRHPVSREWTLEAGALVLADRGVCLIDEFDKMNDQDRTSI
HEAMEQQSISISKAGIVTSLQARCTVIAAANPIGGRYDPSLTFSENVDLTEPIISRFDIL
CVVRDTVDPVQDEMLARFVVGSHVRHHPSNKEEEGLANGSAAEPAMPNTYGVEPLPQEVL
KKYIIYAKERVHPKLNQMDQDKVAKMYSDLRKESMATGSIPITVRHIESMIRMAEAHARI
HLRDYVIEDDVNMAIRVMLESFIDTQKFSVMRSMRKTFARYLSFRRDNNELLLFILKQLV
AEQVTYQRNRFGAQQDTIEVPEKDLVDKARQINIHNLSAFYDSELFRMNKFSHDLKRKMI
LQQF
Sequence of entity 4 (3, B), FASTA
>8S09_4 DNA replication licensing factor MCM3 (chains 3, B)
GEMAGTVVLDDVELREAQRDYLDFLDDEEDQGIYQSKVRELISDNQYRLIVNVNDLRRKN
EKRANRLLNNAFEELVAFQRALKDFVASIDATYAKQYEEFYVGLEGSFGSKHVSPRTLTS
CFLSCVVCVEGIVTKCSLVRPKVVRSVHYCPATKKTIERRYSDLTTLVAFPSSSVYPTKD
EENNPLETEYGLSVYKDHQTITIQEMPEKAPAGQLPRSVDVILDDDLVDKAKPGDRVQVV
GTYRCLPGKKGGYTSGTFRTVLIACNVKQMSKDAQPSFSAEDIAKIKKFSKTRSKDIFDQ
LAKSLAPSIHGHDYVKKAILCLLLGGVERDLENGSHIRGDINILLIGDPSVAKSQLLRYV
LCTAPRAIPTTGRGSSGVGLTAAVTTDQETGERRLEAGAMVLADRGVVCIDEFDKMSDMD
RTAIHEVMEQGRVTIAKAGIHARLNARCSVLAAANPVYGRYDQYKTPMENIGLQDSLLSR
FDLLFIMLDQMDPEQDREISDHVLRMHRYRAPGEQDGDAMPLGSAVDILATDDPNFSQED
QQDTQIYEKHDNLLHGTKKKKEKMVSAAFMKKYIHVAKIIKPVLTQESATYIAEEYSRLR
SQDSMSSDTARTSPVTARTLETLIRLATAHAKARMSKTVDLQDAEEAVELVQYAYFKKVL
EKEKKRKKRSEDESETEDEEEKSQEDQEQKRKRRKTRQPDAKDGDSYDPYDFSDTEEEMP
QVHTPKTADSQETKESQKVELSESRLKAFKVALLDVFREAHAQSIGMNRLTESINRDSEE
PFSSVEIQAALSKMQDDNQVMVSEGIIFLI
Sequence of entity 5 (4, C), FASTA
>8S09_5 DNA replication licensing factor MCM4 (chains 4, C)
MSSPASTPSRRGSRRGRATPAQTPRSEDARSSPSQRRRGEDSTSTGELQPMPTSPGVDLQ
SPAAQDVLFSSPPQMHSSAIPLDFDVSSPLTYGTPSSRVEGTPRSGVRGTPVRQRPDLGS
AQKGLQVDLQSDGAAAEDIVASEQSLGQKLVIWGTDVNVAACKENFQRFLQRFIDPLAKE
EENVGIDITEPLYMQRLGEINVIGEPFLNVNCEHIKSFDKNLYRQLISYPQEVIPTFDMA
VNEIFFDRYPDSILEHQIQVRPFNALKTKNMRNLNPEDIDQLITISGMVIRTSQLIPEMQ
EAFFQCQVCAHTTRVEMDRGRIAEPSVCGRCHTTHSMALIHNRSLFSDKQMIKLQESPED
MPAGQTPHTVILFAHNDLVDKVQPGDRVNVTGIYRAVPIRVNPRVSNVKSVYKTHIDVIH
YRKTDAKRLHGLDEEAEQKLFSEKRVELLKELSRKPDIYERLASALAPSIYEHEDIKKGI
LLQLFGGTRKDFSHTGRGKFRAEINILLCGDPGTSKSQLLQYVYNLVPRGQYTSGKGSSA
VGLTAYVMKDPETRQLVLQTGALVLSDNGICCIDEFDKMNESTRSVLHEVMEQQTLSIAK
AGIICQLNARTSVLAAANPIESQWNPKKTTIENIQLPHTLLSRFDLIFLMLDPQDEAYDR
RLAHHLVALYYQSEEQAEEELLDMAVLKDYIAYAHSTIMPRLSEEASQALIEAYVDMRKI
GSSRGMVSAYPRQLESLIRLAEAHAKVRLSNKVEAIDVEEAKRLHREALKQSATDPRTGI
VDISILTTGMSATSRKRKEELAEALKKLILSKGKTPALKYQQLFEDIRGQSDIAITKDMF
EEALRALADDDFLTVTGKTVRLL
Sequence of entity 6 (5, D), FASTA
>8S09_6 DNA replication licensing factor MCM5 (chains 5, D)
MSGFDDPGIFYSDSFGGDAQADEGQARKSQLQRRFKEFLRQYRVGTDRTGFTFKYRDELK
RHYNLGEYWIEVEMEDLASFDEDLADYLYKQPAEHLQLLEEAAKEVADEVTRPRPSGEEV
LQDIQVMLKSDASPSSIRSLKSDMMSHLVKIPGIIIAASAVRAKATRISIQCRSCRNTLT
NIAMRPGLEGYALPRKCNTDQAGRPKCPLDPYFIMPDKCKCVDFQTLKLQELPDAVPHGE
MPRHMQLYCDRYLCDKVVPGNRVTIMGIYSIKKFGLTTSRGRDRVGVGIRSSYIRVLGIQ
VDTDGSGRSFAGAVSPQEEEEFRRLAALPNVYEVISKSIAPSIFGGTDMKKAIACLLFGG
SRKRLPDGLTRRGDINLLMLGDPGTAKSQLLKFVEKCSPIGVYTSGKGSSAAGLTASVMR
DPSSRNFIMEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNS
RCSVLAAANSVFGRWDETKGEDNIDFMPTILSRFDMIFIVKDEHNEERDVMLAKHVITLH
VSALTQTQAVEGEIDLAKLKKFIAYCRVKCGPRLSAEAAEKLKNRYIIMRSGARQHERDS
DRRSSIPITVRQLEAIVRIAEALSKMKLQPFATEADVEEALRLFQVSTLDAALSGTLSGV
EGFTSQEDQEMLSRIEKQLKRRFAIGSQVSEHSIIKDFTKQKYPEHAIHKVLQLMLRRGE
IQHRMQRKVLYRLK
Sequence of entity 7 (6, E), FASTA
>8S09_7 DNA replication licensing factor MCM6 (chains 6, E)
MDLAAAAEPGAGSQHLEVRDEVAEKCQKLFLDFLEEFQSSDGEIKYLQLAEELIRPERNT
LVVSFVDLEQFNQQLSTTIQEEFYRVYPYLCRALKTFVKDRKEIPLAKDFYVAFQDLPTR
HKIRELTSSRIGLLTRISGQVVRTHPVHPELVSGTFLCLDCQTVIRDVEQQFKYTQPNIC
RNPVCANRRRFLLDTNKSRFVDFQKVRIQETQAELPRGSIPRSLEVILRAEAVESAQAGD
KCDFTGTLIVVPDVSKLSTPGARAETNSRVSGVDGYETEGIRGLRALGVRDLSYRLVFLA
CCVAPTNPRFGGKELRDEEQTAESIKNQMTVKEWEKVFEMSQDKNLYHNLCTSLFPTIHG
NDEVKRGVLLMLFGGVPKTTGEGTSLRGDINVCIVGDPSTAKSQFLKHVEEFSPRAVYTS
GKASSAAGLTAAVVRDEESHEFVIEAGALMLADNGVCCIDEFDKMDVRDQVAIHEAMEQQ
TISITKAGVKATLNARTSILAAANPISGHYDRSKSLKQNINLSAPIMSRFDLFFILVDEC
NEVTDYAIARRIVDLHSRIEESIDRVYSLDDIRRYLLFARQFKPKISKESEDFIVEQYKH
LRQRDGSGVTKSSWRITVRQLESMIRLSEAMARMHCCDEVQPKHVKEAFRLLNKSIIRVE
TPDVNLDQEEEIQMEVDEGAGGINGHADSPAPVNGINGYNEDINQESAPKASLRLGFSEY
CRISNLIVLHLRKVEEEEDESALKRSELVNWYLKEIESEIDSEEELINKKRIIEKVIHRL
THYDHVLIELTQAGLKGSTEGSESYEEDPYLVVNPNYLLED
Sequence of entity 8 (7, F), FASTA
>8S09_8 DNA replication licensing factor MCM7 (chains 7, F)
MALKDYALEKEKVKKFLQEFYQDDELGKKQFKYGNQLVRLAHREQVALYVDLDDVAEDDP
ELVDSICENARRYAKLFADAVQELLPQYKEREVVNKDVLDVYIEHRLMMEQRSRDPGMVR
SPQNQYPAELMRRFELYFQGPSSNKPRVIREVRADSVGKLVTVRGIVTRVSEVKPKMVVA
TYTCDQCGAETYQPIQSPTFMPLIMCPSQECQTNRSGGRLYLQTRGSRFIKFQEMKMQEH
SDQVPVGNIPRSITVLVEGENTRIAQPGDHVSVTGIFLPILRTGFRQVVQGLLSETYLEA
HRIVKMNKSEDDESGAGELTREELRQIAEEDFYEKLAASIAPEIYGHEDVKKALLLLLVG
GVDQSPRGMKIRGNINICLMGDPGVAKSQLLSYIDRLAPRSQYTTGRGSSGVGLTAAVLR
DSVSGELTLEGGALVLADQGVCCIDEFDKMAEADRTAIHEVMEQQTISIAKAGILTTLNA
RCSILAAANPAYGRYNPRRSLEQNIQLPAALLSRFDLLWLIQDRPDRDNDLRLAQHITYV
HQHSRQPPSQFEPLDMKLMRRYIAMCREKQPMVPESLADYITAAYVEMRREAWASKDATY
TSARTLLAILRLSTALARLRMVDVVEKEDVNEAIRLMEMSKDSLLGDKGQTARTQRPADV
IFATVRELVSGGRSVRFSEAEQRCVSRGFTPAQFQAALDEYEELNVWQVNASRTRITFV

Ligands and cofactors

IDNameFormulaCopies
ATPAdenosine-5'-triphosphateC10 H16 N5 O13 P32
ZNZinc ionZn10
ADPAdenosine-5'-diphosphateC10 H15 N5 O10 P28
MGMagnesium ionMg8

Primary citation

MCM double hexamer loading visualized with human proteins. Weissmann, F., Greiwe, J.F., Puhringer, T. et al. Nature (2024) 636:499-508. DOI 10.1038/s41586-024-08263-6 · PubMed

Other PDB entries of the same protein (UniProt P49736 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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