9LXD: DNA-free MCM SH

Structure of DNA-free MCM SH at 3.2 Angstroms resolution. Determined by electron microscopy at 3.27 Å resolution. Released 18 Feb 2026.

Method
Electron microscopy
Resolution
3.27 Å
Organism
Homo sapiens
Chains
7
Atoms
32,927
Mol. weight
649.73 kDa
Ligands
ADP, ATP
Released
18 Feb 2026

Explore 9LXD in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9LXD contains 171 α-helices and 177 β-strands across 7 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.

Chain 2: 28 helices, 20 β-strands

ElementResiduesLengthSheet
α-helix189-20416
α-helix214-22512
β-strand229-23351
α-helix235-2406
α-helix243-2453
α-helix252-27019
α-helix272-2765
β-strand282-28651
β-strand291-29222
α-helix294-2963
α-helix299-3013
β-strand305-316122
β-strand374-37962
α-helix391-3922
β-strand393-39862
β-strand411-41992
β-strand438-44582
α-helix460-46910
α-helix473-4786
α-helix489-50012
β-strand519-52353
α-helix530-53910
β-strand544-54743
β-strand559-56242
β-strand569-57242
α-helix575-5784
β-strand583-58753
α-helix594-60310
β-strand608-61254
β-strand617-62154
β-strand625-63063
α-helix633-6353
α-helix643-6475
α-helix651-6555
β-strand659-66353
α-helix671-68515
α-helix713-7164
α-helix717-73014
α-helix741-75313
α-helix765-78016
α-helix788-80316
α-helix808-81710
α-helix829-85123
β-strand858-86145
α-helix862-87211
α-helix878-8825
β-strand891-89445
β-strand899-90245
Chain 3: 19 helices, 29 β-strands
ElementResiduesLengthSheet
α-helix14-229
α-helix32-4211
β-strand46-5056
α-helix51-577
α-helix62-676
α-helix74-829
β-strand99-10356
β-strand110-11127
β-strand12418
β-strand126-13057
β-strand131-13559
β-strand140-145610
β-strand156-158310
β-strand177111
β-strand183111
α-helix1841
β-strand192-194310
β-strand200-20129
β-strand234-23747
β-strand24018
β-strand251112
β-strand26118
α-helix281-2888
α-helix296-3016
α-helix311-32212
β-strand327-328213
β-strand334-335213
β-strand341-345514
α-helix352-36110
β-strand365-369514
β-strand382-38439
β-strand391-39449
β-strand405-409514
α-helix416-42712
β-strand430-434515
β-strand439-443515
β-strand447-452614
α-helix473-4786
β-strand481-485514
α-helix491-50414
α-helix516-5194
α-helix567-5759
β-strand581-582216
α-helix584-59714
α-helix600-6034
α-helix615-63117
β-strand636-637216
α-helix639-65315
Chain 4: 26 helices, 35 β-strands
ElementResiduesLengthSheet
α-helix162-17110
α-helix192-20110
β-strand207-208217
β-strand211118
α-helix214-2185
α-helix220-2289
α-helix230-24819
β-strand259-260217
β-strand263118
α-helix276-2783
β-strand282-288719
β-strand291119
β-strand298-299220
β-strand301-306621
β-strand312-316521
β-strand323122
β-strand337-339321
β-strand346-347220
β-strand350-353419
α-helix366-3683
β-strand371-374419
β-strand387-3971119
β-strand400123
β-strand408-409223
β-strand411124
β-strand413-4221019
α-helix434-4418
α-helix445-4539
α-helix458-4658
α-helix474-48512
β-strand506-510525
α-helix517-52610
β-strand531-534425
β-strand545-549526
β-strand556-560526
α-helix562-5665
β-strand570-574525
α-helix581-59313
β-strand595-599527
β-strand604-608527
β-strand612-617625
α-helix620-6223
α-helix630-6345
α-helix638-6414
β-strand646-650525
α-helix656-67116
α-helix684-69714
β-strand701-702228
α-helix704-71916
α-helix731-74717
β-strand752-753228
α-helix755-77218
β-strand774129
β-strand781129
α-helix784-7874
α-helix794-81219
β-strand818130
α-helix820-83011
α-helix837-84913
β-strand854-856330
β-strand859-861330
Chain 5: 29 helices, 28 β-strands
ElementResiduesLengthSheet
α-helix28-4114
β-strand43-44231
β-strand52-53231
α-helix54-6512
β-strand69-73532
α-helix74-807
α-helix82-909
α-helix92-11120
α-helix1121
α-helix1141
β-strand125-129532
α-helix137-1393
α-helix142-1443
β-strand148-1591233
β-strand162-1721134
β-strand178-183634
β-strand191112
β-strand212-2241334
β-strand226-230533
α-helix233-2353
β-strand244-248533
β-strand262-2711033
β-strand292-296533
β-strand301133
α-helix307-3104
α-helix316-32510
α-helix331-3344
α-helix347-3515
α-helix352-3565
α-helix367-3693
β-strand378-379235
α-helix388-39710
β-strand401-405535
β-strand417-420433
β-strand427-430433
α-helix433-4364
β-strand441-445535
α-helix447-4493
α-helix457-4637
β-strand466-467236
α-helix471-4733
β-strand478-479236
β-strand483-487535
β-strand516135
α-helix556-56712
β-strand573-574237
α-helix576-59520
α-helix610-62617
β-strand631-632237
α-helix634-64411
α-helix645-6495
α-helix669-68214
β-strand689-690238
α-helix691-70010
α-helix705-71814
β-strand721-724438
β-strand729-732438
Chain 6: 32 helices, 34 β-strands
ElementResiduesLengthSheet
α-helix16-194
α-helix21-3616
β-strand39139
β-strand42139
α-helix45-528
β-strand60-64540
α-helix65-717
α-helix73-819
α-helix83-9816
α-helix99-1013
β-strand111-115540
α-helix123-1253
α-helix128-1303
β-strand131141
β-strand134-136341
β-strand140-144541
α-helix145-1473
β-strand148-151442
β-strand153-158643
β-strand164-169643
β-strand191-193343
β-strand200-203442
β-strand204-209641
α-helix220-2223
β-strand223-228641
β-strand242144
β-strand245-252841
β-strand288122
β-strand294-302941
β-strand305144
α-helix306-3072
α-helix322-3276
α-helix331-34212
α-helix346-3549
α-helix362-37312
β-strand378-379245
β-strand385-386245
β-strand392-396546
α-helix402-41211
β-strand416-420546
β-strand431-435541
β-strand442-446541
β-strand456-460546
α-helix462-4643
α-helix467-47913
β-strand481-485547
β-strand490-494547
β-strand498-503646
α-helix504-5052
α-helix516-5194
α-helix524-5274
β-strand533-536446
α-helix542-55716
α-helix569-57911
β-strand585-586248
α-helix588-60417
β-strand612149
α-helix619-63416
β-strand639-640248
α-helix642-65514
β-strand658149
α-helix721-73313
α-helix735-7384
α-helix745-75511
α-helix756-7583
α-helix763-78119
Chain 7: 33 helices, 28 β-strands
ElementResiduesLengthSheet
α-helix6-1813
α-helix34-418
β-strand47-51550
α-helix52-587
α-helix60-689
α-helix70-8415
α-helix86-883
α-helix98-11215
β-strand135-139550
α-helix140-1412
β-strand147124
α-helix149-1513
α-helix154-1563
β-strand160-1701124
β-strand174-1841124
β-strand191-194424
β-strand199-200223
α-helix201-2033
β-strand205151
α-helix209-2135
β-strand219151
β-strand220-2381924
α-helix2451
α-helix249-2513
β-strand252-258724
α-helix259-2613
β-strand270-2801124
β-strand286-287210
β-strand292-293210
β-strand295-3051124
α-helix321-3266
α-helix332-3387
α-helix348-35912
α-helix362-3632
β-strand364152
β-strand371152
β-strand377-381553
β-strand383154
β-strand385154
α-helix391-3977
β-strand401-404453
α-helix411-4155
β-strand416-421655
β-strand426-431655
α-helix434-4363
β-strand441-444453
α-helix447-4493
α-helix452-46413
β-strand466-471656
β-strand474-479656
β-strand483-486453
α-helix495-4962
α-helix509-5135
β-strand517-521553
α-helix531-54313
α-helix552-5554
α-helix556-56611
α-helix575-5773
α-helix578-59417
α-helix603-61917
α-helix627-64418
Chain B: 4 helices, 3 β-strands
ElementResiduesLengthSheet
α-helix741-75717
β-strand762-764357
α-helix765-7739
α-helix779-7813
α-helix782-79413
β-strand798-801457
β-strand804-807457

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
DNA replication licensing factor MCM22protein904Homo sapiensP49736 (AlphaFold model)
Isoform 2 of DNA replication licensing factor MCM33, Bprotein853Homo sapiensP25205 (AlphaFold model)
DNA replication licensing factor MCM44protein863Homo sapiensP33991 (AlphaFold model)
DNA replication licensing factor MCM55protein734Homo sapiensP33992 (AlphaFold model)
DNA replication licensing factor MCM66protein821Homo sapiensQ14566
DNA replication licensing factor MCM77protein719Homo sapiensP33993
Sequence of entity 1 (2), FASTA
>9LXD_1 DNA replication licensing factor MCM2 (chains 2)
MAESSESFTMASSPAQRRRGNDPLTSSPGRSSRRTDALTSSPGRDLPPFEDESEGLLGTE
GPLEEEEDGEELIGDGMERDYRAIPELDAYEAEGLALDDEDVEELTASQREAAERAMRQR
DREAGRGLGRMRRGLLYDSDEEDEERPARKRRQVERATEDGEEDEEMIESIENLEDLKGH
SVREWVSMAGPRLEIHHRFKNFLRTHVDSHGHNVFKERISDMCKENRESLVVNYEDLAAR
EHVLAYFLPEAPAELLQIFDEAALEVVLAMYPKYDRITNHIHVRISHLPLVEELRSLRQL
HLNQLIRTSGVVTSCTGVLPQLSMVKYNCNKCNFVLGPFCQSQNQEVKPGSCPECQSAGP
FEVNMEETIYQNYQRIRIQESPGKVAAGRLPRSKDAILLADLVDSCKPGDEIELTGIYHN
NYDGSLNTANGFPVFATVILANHVAKKDNKVAVGELTDEDVKMITSLSKDQQIGEKIFAS
IAPSIYGHEDIKRGLALALFGGEPKNPGGKHKVRGDINVLLCGDPGTAKSQFLKYIEKVS
SRAIFTTGQGASAVGLTAYVQRHPVSREWTLEAGALVLADRGVCLIDEFDKMNDQDRTSI
HEAMEQQSISISKAGIVTSLQARCTVIAAANPIGGRYDPSLTFSENVDLTEPIISRFDIL
CVVRDTVDPVQDEMLARFVVGSHVRHHPSNKEEEGLANGSAAEPAMPNTYGVEPLPQEVL
KKYIIYAKERVHPKLNQMDQDKVAKMYSDLRKESMATGSIPITVRHIESMIRMAEAHARI
HLRDYVIEDDVNMAIRVMLESFIDTQKFSVMRSMRKTFARYLSFRRDNNELLLFILKQLV
AEQVTYQRNRFGAQQDTIEVPEKDLVDKARQINIHNLSAFYDSELFRMNKFSHDLKRKMI
LQQF
Sequence of entity 2 (3, B), FASTA
>9LXD_2 Isoform 2 of DNA replication licensing factor MCM3 (chains 3, B)
MLPRSPPLPRGNLWWREEFGSFRAGVESSWEPPRDFGGGSSLAAGMAGTVVLDDVELREA
QRDYLDFLDDEEDQGIYQSKVRELISDNQYRLIVNVNDLRRKNEKRANRLLNNAFEELVA
FQRALKDFVASIDATYAKQYEEFYVGLEGSFGSKHVSPRTLTSCFLSCVVCVEGIVTKCS
LVRPKVVRSVHYCPATKKTIERRYSDLTTLVAFPSSSVYPTKDEENNPLETEYGLSVYKD
HQTITIQEMPEKAPAGQLPRSVDVILDDDLVDKAKPGDRVQVVGTYRCLPGKKGGYTSGT
FRTVLIACNVKQMSKDAQPSFSAEDIAKIKKFSKTRSKDIFDQLAKSLAPSIHGHDYVKK
AILCLLLGGVERDLENGSHIRGDINILLIGDPSVAKSQLLRYVLCTAPRAIPTTGRGSSG
VGLTAAVTTDQETGERRLEAGAMVLADRGVVCIDEFDKMSDMDRTAIHEVMEQGRVTIAK
AGIHARLNARCSVLAAANPVYGRYDQYKTPMENIGLQDSLLSRFDLLFIMLDQMDPEQDR
EISDHVLRMHRYRAPGEQDGDAMPLGSAVDILATDDPNFSQEDQQDTQIYEKHDNLLHGT
KKKKEKMVSAAFMKKYIHVAKIIKPVLTQESATYIAEEYSRLRSQDSMSSDTARTSPVTA
RTLETLIRLATAHAKARMSKTVDLQDAEEAVELVQYAYFKKVLEKEKKRKKRSEDESETE
DEEEKSQEDQEQKRKRRKTRQPDAKDGDSYDPYDFSDTEEEMPQVHTPKTADSQETKESQ
KVELSESRLKAFKVALLDVFREAHAQSIGMNRLTESINRDSEEPFSSVEIQAALSKMQDD
NQVMVSEGIIFLI
Sequence of entity 3 (4), FASTA
>9LXD_3 DNA replication licensing factor MCM4 (chains 4)
MSSPASTPSRRGSRRGRATPAQTPRSEDARSSPSQRRRGEDSTSTGELQPMPTSPGVDLQ
SPAAQDVLFSSPPQMHSSAIPLDFDVSSPLTYGTPSSRVEGTPRSGVRGTPVRQRPDLGS
AQKGLQVDLQSDGAAAEDIVASEQSLGQKLVIWGTDVNVAACKENFQRFLQRFIDPLAKE
EENVGIDITEPLYMQRLGEINVIGEPFLNVNCEHIKSFDKNLYRQLISYPQEVIPTFDMA
VNEIFFDRYPDSILEHQIQVRPFNALKTKNMRNLNPEDIDQLITISGMVIRTSQLIPEMQ
EAFFQCQVCAHTTRVEMDRGRIAEPSVCGRCHTTHSMALIHNRSLFSDKQMIKLQESPED
MPAGQTPHTVILFAHNDLVDKVQPGDRVNVTGIYRAVPIRVNPRVSNVKSVYKTHIDVIH
YRKTDAKRLHGLDEEAEQKLFSEKRVELLKELSRKPDIYERLASALAPSIYEHEDIKKGI
LLQLFGGTRKDFSHTGRGKFRAEINILLCGDPGTSKSQLLQYVYNLVPRGQYTSGKGSSA
VGLTAYVMKDPETRQLVLQTGALVLSDNGICCIDEFDKMNESTRSVLHEVMEQQTLSIAK
AGIICQLNARTSVLAAANPIESQWNPKKTTIENIQLPHTLLSRFDLIFLLLDPQDEAYDR
RLAHHLVALYYQSEEQAEEELLDMAVLKDYIAYAHSTIMPRLSEEASQALIEAYVDMRKI
GSSRGMVSAYPRQLESLIRLAEAHAKVRLSNKVEAIDVEEAKRLHREALKQSATDPRTGI
VDISILTTGMSATSRKRKEELAEALKKLILSKGKTPALKYQQLFEDIRGQSDIAITKDMF
EEALRALADDDFLTVTGKTVRLL
Sequence of entity 4 (5), FASTA
>9LXD_4 DNA replication licensing factor MCM5 (chains 5)
MSGFDDPGIFYSDSFGGDAQADEGQARKSQLQRRFKEFLRQYRVGTDRTGFTFKYRDELK
RHYNLGEYWIEVEMEDLASFDEDLADYLYKQPAEHLQLLEEAAKEVADEVTRPRPSGEEV
LQDIQVMLKSDASPSSIRSLKSDMMSHLVKIPGIIIAASAVRAKATRISIQCRSCRNTLT
NIAMRPGLEGYALPRKCNTDQAGRPKCPLDPYFIMPDKCKCVDFQTLKLQELPDAVPHGE
MPRHMQLYCDRYLCDKVVPGNRVTIMGIYSIKKFGLTTSRGRDRVGVGIRSSYIRVLGIQ
VDTDGSGRSFAGAVSPQEEEEFRRLAALPNVYEVISKSIAPSIFGGTDMKKAIACLLFGG
SRKRLPDGLTRRGDINLLMLGDPGTAKSQLLKFVEKCSPIGVYTSGKGSSAAGLTASVMR
DPSSRNFIMEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNS
RCSVLAAANSVFGRWDETKGEDNIDFMPTILSRFDMIFIVKDEHNEERDVMLAKHVITLH
VSALTQTQAVEGEIDLAKLKKFIAYCRVKCGPRLSAEAAEKLKNRYIIMRSGARQHERDS
ALLASIPITVRQLEAIVRIAEALSKMKLQPFATEADVEEALRLFQVSTLDATLSGTLSGV
EGFTSQEDQEMLSRIEKQLKRRFAIGSQVSEHSIIKDFTKQKYPEHAIHKVLQLMLRRGE
IQHRMQRKVLYRLK
Sequence of entity 5 (6), FASTA
>9LXD_5 DNA replication licensing factor MCM6 (chains 6)
MDLAAAAEPGAGSQHLEVRDEVAEKCQKLFLDFLEEFQSSDGEIKYLQLAEELIRPERNT
LVVSFVDLEQFNQQLSTTIQEEFYRVYPYLCRALKTFVKDRKEIPLAKDFYVAFQDLPTR
HKIRELTSSRIGLLTRISGQVVRTHPVHPELVSGTFLCLDCQTVIRDVEQQFKYTQPNIC
RNPVCANRRRFLLDTNKSRFVDFQKVRIQETQAELPRGSIPRSLEVILRAEAVESAQAGD
KCDFTGTLIVVPDVSKLSTPGARAETNSRVSGVDGYETEGIRGLRALGVRDLSYRLVFLA
CCVAPTNPRFGGKELRDEEQTAESIKNQMTVKEWEKVFEMSQDKNLYHNLCTSLFPTIHG
NDEVKRGVLLMLFGGVPKTTGEGTSLRGDINVCIVGDPSTAKSQFLKHVEEFSPRAVYTS
GKASSAAGLTAAVVRDEESHEFVIEAGALMLADNGVCCIDEFDKMDVRDQVAIHEAMEQQ
TISITKAGVKATLNARTSILAAANPISGHYDRSKSLKQNINLSAPIMSRFDLFFILVDEC
NEVTDYAIARRIVDLHSRIEESIDRVYSLDDIRRYLLFARQFKPKISKESEDFIVEQYKH
LRQRDGSGVTKSSWRITVRQLESMIRLSEAMARMHCCDEVQPKHVKEAFRLLNKSIIRVE
TPDVNLDQEEEIQMEVDEGAGGINGHADSPAPVNGINGYNEDINQESAPKASLRLGFSEY
CRISNLIVLHLRKVEEEEDESALKRSELVNWYLKEIESEIDSEEELINKKRIIEKVIHRL
THYDHVLIELTQAGLKGSTEGSESYEEDPYLVVNPNYLLED
Sequence of entity 6 (7), FASTA
>9LXD_6 DNA replication licensing factor MCM7 (chains 7)
MALKDYALEKEKVKKFLQEFYQDDELGKKQFKYGNQLVRLAHREQVALYVDLDDVAEDDP
ELVDSICENARRYAKLFADAVQELLPQYKEREVVNKDVLDVYIEHRLMMEQRSRDPGMVR
SPQNQYPAELMRRFELYFQGPSSNKPRVIREVRADSVGKLVTVRGIVTRVSEVKPKMVVA
TYTCDQCGAETYQPIQSPTFMPLIMCPSQECQTNRSGGRLYLQTRGSRFIKFQEMKMQEH
SDQVPVGNIPRSITVLVEGENTRIAQPGDHVSVTGIFLPILRTGFRQVVQGLLSETYLEA
HRIVKMNKSEDDESGAGELTREELRQIAEEDFYEKLAASIAPEIYGHEDVKKALLLLLVG
GVDQSPRGMKIRGNINICLMGDPGVAKSQLLSYIDRLAPRSQYTTGRGSSGVGLTAAVLR
DSVSGELTLEGGALVLADQGVCCIDEFDKMAEADRTAIHEVMEQQTISIAKAGILTTLNA
RCSILAAANPAYGRYNPRRSLEQNIQLPAALLSRFDLLWLIQDRPDRDNDLRLAQHITYV
HQHSRQPPSQFEPLDMKLMRRYIAMCREKQPMVPESLADYITAAYVEMRREAWASKDATY
TSARTLLAILRLSTALARLRMVDVVEKEDVNEAIRLMEMSKDSLLGDKGQTARTQRPADV
IFATVRELVSGGRSVRFSEAEQRCVSRGFTPAQFQAALDEYEELNVWQVNASRTRITFV

Ligands and cofactors

IDNameFormulaCopies
ADPAdenosine-5'-diphosphateC10 H15 N5 O10 P24
ATPAdenosine-5'-triphosphateC10 H16 N5 O13 P31

Primary citation

Structures of DNA-unbound human MCM. Liu, Y., Gao, H., Yu, H. To be published.

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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