7NJ0: Human Separase-Cdk1-cyclin B1-Cks1 complex

CryoEM structure of the human Separase-Cdk1-cyclin B1-Cks1 complex. Determined by electron microscopy at 3.6 Å resolution. Released 4 Aug 2021.

Method
Electron microscopy
Resolution
3.6 Å
Organism
Homo sapiens
Chains
4
Atoms
14,330
Mol. weight
343.74 kDa
Ligands
PO4
Released
4 Aug 2021

Explore 7NJ0 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7NJ0 contains 89 α-helices and 36 β-strands across 4 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 A: 56 helices, 21 β-strands

ElementResiduesLengthSheet
α-helix622-63817
α-helix649-66012
α-helix668-70235
α-helix719-7246
α-helix730-7323
α-helix737-75822
α-helix769-78517
α-helix789-80618
α-helix809-82517
α-helix832-84312
α-helix851-87121
α-helix874-88512
α-helix889-8913
α-helix896-91116
α-helix921-9299
α-helix935-95319
α-helix976-99823
α-helix1004-102118
α-helix1025-104016
α-helix1044-105815
α-helix1106-11083
α-helix11151
α-helix1132-11376
α-helix1154-117320
α-helix1179-120628
α-helix1221-123313
α-helix1245-125612
α-helix1265-127713
α-helix1287-12904
α-helix1574-158815
α-helix1594-160714
α-helix1615-16217
α-helix1627-164418
α-helix1669-16779
α-helix1688-170013
β-strand1706-171491
β-strand171812
β-strand172012
β-strand1724-172741
β-strand173011
α-helix1735-17362
β-strand1739-174241
α-helix1743-17453
α-helix1750-176718
α-helix1773-179321
α-helix1794-17996
α-helix1800-18056
α-helix1815-182713
α-helix1836-18427
α-helix1851-186111
α-helix1870-187910
β-strand1890-189561
α-helix1899-19013
α-helix1904-19063
β-strand1916-191721
α-helix1922-193211
α-helix1937-19404
β-strand194313
β-strand1948-195144
α-helix1959-197113
β-strand1976-197724
α-helix1982-19843
α-helix1985-19939
β-strand1997-200044
α-helix2013-20175
β-strand2023-202424
β-strand203515
β-strand204315
α-helix2045-20517
β-strand205714
β-strand205916
α-helix2066-208318
β-strand208817
α-helix2089-20957
β-strand211116
β-strand211817
β-strand211913
Chain B: 15 helices, 11 β-strands
ElementResiduesLengthSheet
β-strand4-13108
β-strand16-2388
β-strand29-3578
α-helix40-423
α-helix46-5510
β-strand6319
β-strand66-7058
β-strand77-8158
α-helix82-832
β-strand8619
α-helix87-915
α-helix951
α-helix102-12120
β-strand124-125210
β-strand134-13529
β-strand143-14429
β-strand151-152210
α-helix153-1542
α-helix167-1693
α-helix172-1754
α-helix185-19814
α-helix209-22012
α-helix249-2513
α-helix258-26710
α-helix278-2814
α-helix285-2873
Chain C: 15 helices, 0 β-strands
ElementResiduesLengthSheet
α-helix171-18414
α-helix199-21618
α-helix220-23415
α-helix244-25815
α-helix263-2653
α-helix266-2727
α-helix279-29214
α-helix302-31211
α-helix317-33216
α-helix341-35515
α-helix363-3697
α-helix377-39115
α-helix400-4034
α-helix417-4193
α-helix421-4299
Chain D: 3 helices, 4 β-strands
ElementResiduesLengthSheet
β-strand7-8211
β-strand13111
β-strand17-23711
α-helix26-294
α-helix37-393
α-helix40-467
β-strand66-72711

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Securin,SeparinAprotein2233Homo sapiensO95997 (AlphaFold model), Q14674 (AlphaFold model)
Cyclin-dependent kinase 1Bprotein318Homo sapiensP06493 (AlphaFold model)
G2/mitotic-specific cyclin-B1,G2/mitotic-specific cyclin-B1Cprotein473Homo sapiensP14635 (AlphaFold model)
Cyclin-dependent kinases regulatory subunit 1Dprotein79Homo sapiensP61024
Sequence of entity 1 (A), FASTA
>7NJ0_1 Securin,Separin (chains A)
MQLGPPSPVKMPSPPWESNLLQSPSSILSTLDVELPPVCCDIDIGGSGGSGGGSGGGSGE
NLYFQGGGSGGSGMRSFKRVNFGTLLSSQKEAEELLPDLKEFLSNPPAGFPSSRSDAERR
QACDAILRACNQQLTAKLACPRHLGSLLELAELACDGYLVSTPQRPPLYLERILFVLLRN
AAAQGSPEVTLRLAQPLHACLVQCSREAAPQDYEAVARGSFSLLWKGAEALLERRAAFAA
RLKALSFLVLLEDESTPCEVPHFASPTACRAVAAHQLFDASGHGLNEADADFLDDLLSRH
VIRALVGERGSSSGLLSPQRALCLLELTLEHCRRFCWSRHHDKAISAVEKAHSYLRNTNL
APSLQLCQLGVKLLQVGEEGPQAVAKLLIKASAVLSKSMEAPSPPLRALYESCQFFLSGL
ERGTKRRYRLDAILSLFAFLGGYCSLLQQLRDDGVYGGSSKQQQSFLQMYFQGLHLYTVV
VYDFAQGCQIVDLADLTQLVDSCKSTVVWMLEALEGLSGQELTDHMGMTASYTSNLAYSF
YSHKLYAEACAISEPLCQHLGLVKPGTYPEVPPEKLHRCFRLQVESLKKLGKQAQGCKMV
ILWLAALQPCSPEHMAEPVTFWVRVKMDAARAGDKELQLKTLRDSLSGWDPETLALLLRE
ELQAYKAVRADTGQERFNIICDLLELSPEETPAGAWARATHLVELAQVLCYHDFTQQTNC
SALDAIREALQLLDSVRPEAQARDQLLDDKAQALLWLYICTLEAKIQEGIERDRRAQAPG
NLEEFEVNDLNYEDKLQEDRFLYSNIAFNLAADAAQSKCLDQALALWKELLTKGQAPAVR
CLQQTAASLQILAALYQLVAKPMQALEVLLLLRIVSERLKDHSKAAGSSCHITQLLLTLG
CPSYAQLHLEEAASSLKHLDQTTDTYLLLSLTCDLLRSQLYWTHQKVTKGVSLLLSVLRD
PALQKSSKAWYLLRVQVLQLVAAYLSLPSNNLSHSLWEQLCAQGWQTPEIALIDSHKLLR
SIILLLMGSDILSTQKAAVETSFLDYGENLVQKWQVLSEVLSCSEKLVCHLGRLGSVSEA
KAFCLEALKLTTKLQIPRQCALFLVLKGELELARNDIDLCQSDLQQVLFLLESCTEFGGV
TQHLDSVKKVHLQKGKQQAQVPCPPQLPEEELFLRGPALELVATVAKEPGPIAPSTNSSP
VLKTKPQPIPNFLSHSPTCDCSLCASPVLTAVCLRWVLVTAGVRLAMGHQAQGLDLLQVV
LKGCPEAAERLTQALQASLNHKTPPSLVPSLLDEILAQAYTLLALEGLNQPSNESLQKVL
QSGLKFVAARIPHLEPWRASLLLIWALTKLGGLSCCTTQLFASSWGWQPPLIKSVPGSEP
SKTQGQKRSGRGRQKLASAPLSLNNTSQKGLEGRGLPCTPKPPDRIRQAGPHVPFTVFEE
VCPTESKPEVPQAPRVQQRVQTRLKVNFSDDSDLEDPVSAEAWLAEEPKRRGTASRGRGR
ARKGLSLKTDAVVAPGSAPGNPGLNGRSRRAKKVASRHCEERRPQRASDQARPGPEIMRT
IPEEELTDNWRKMSFEILRGSDGEDSASGGKTPAPGPEAASGEWELLRLDSSKKKLPSPC
PDKESDKDLGPRLQLPSAPVATGLSTLDSICDSLSVAFRGISHCPPSGLYAHLCRFLALC
LGHRDPYATAFLVTESVSITCRHQLLTHLHRQLSKAQKHRGSLEIADQLQGLSLQEMPGD
VPLARIQRLFSFRALESGHFPQPEKESFQERLALIPSGVTVCVLALATLQPGTVGNTLLL
TRLEKDSPPVSVQIPTGQNKLHLRSVLNEFDAIQKAQKENSSCTDKREWWTGRLALDHRM
EVLIASLEKSVLGCWKGLLLPSSEEPGPAQEASRLQELLQDCGWKYPDRTLLKIMLSGAG
ALTPQDIQALAYGLCPTQPERAQELLNEAVGRLQGLTVPSNSHLVLVLDKDLQKLPWESM
PSLQALPVTRLPSFRFLLSYSIIKEYGASPVLSQGVDPRSTFYVLNPHNNLSSTEEQFRA
NFSSEAGWRGVVGEVPRPEQVQEALTKHDLYIYAGHGAGARFLDGQAVLRLSCRAVALLF
GSSSAALAVHGNLEGAGIVLKYIMAGCPLFLGNLWDVTDRDIDRYTEALLQGWLGAGPGA
PLLYYVNQARQAPRLKYLIGAAPIAYGLPVSLRSSLAEENLYFQSWSHPQFEKGGGSGGG
SGGGSWSHPQFEK
Sequence of entity 2 (B), FASTA
>7NJ0_2 Cyclin-dependent kinase 1 (chains B)
MEDYTKIEKIGEGTYGVVYKGRHKTTGQVVAMKKIRLESEEEGVPSTAIREISLLKELRH
PNIVSLQDVLMQDSRLYLIFEFLSMDLKKYLDSIPPGQYMDSSLVKSYLYQILQGIVFCH
SRRVLHRDLKPQNLLIDDKGTIKLADFGLARAFGIPIRVYTHEVVTLWYRSPEVLLGSAR
YSTPVDIWSIGTIFAELATKKPLFHGDSEIDQLFRIFRALGTPNNEVWPEVESLQDYKNT
FPKWKPGSLASHVKNLDENGLDLLSKMLIYDPAKRISGKMALNHPYFNDLDNQIKKMIAA
EALEVLFQGPHHHHHHHH
Sequence of entity 3 (C), FASTA
>7NJ0_3 G2/mitotic-specific cyclin-B1,G2/mitotic-specific cyclin-B1 (chains C)
MALRVTRNSKINAENKAKINMAGAKRVPTAPAATSKPGLRPRTALGDIGNKVSEQLQAKM
PMKKEAKPSATGKVIDKKLPKPLEKVPMLVPVPVSEPVPEPEPEPEPEPVKEEKLSPEPI
LVDTASPSPMETSGCAPAEEDLCQAFSDVILAVNDVDAEDGADPNLCSEYVKDIYAYLRQ
LEEEQAVRPKYLLGREVTGNMRAILIDWLVQVQMKFRLLQETMYMTVSIIDRFMQNNCVP
KKMLQLVGVTAMFIASKYEEMYPPEIGDFAFVTDNTYTKHQIRQMEMKILRALNFGLGRP
LPLHFLRRASKIGEVDVEQHTLAKYLMELTMLDYDMVHFPPSQIAAGAFCLALKILDNGE
WTPTLQHYLSYTEESLLPVMQHLAKNVVMVNQGLTKHMTVKNKYATSKHAKISTLPQLNS
ALVQDLAKAVAKVSSLAEENLYFQSWSHPQFEKGGGSGGGSGGGSWSHPQFEK
Sequence of entity 4 (D), FASTA
>7NJ0_4 Cyclin-dependent kinases regulatory subunit 1 (chains D)
MSHKQIYYSDKYDDEEFEYRHVMLPKDIAKLVPKTHLMSESEWRNLGVQQSQGWVHYMIH
EPEPHILLFRRPLPKKPKK

Ligands and cofactors

IDNameFormulaCopies
PO4Phosphate ionO4 P1

Primary citation

Structural basis of human separase regulation by securin and CDK1-cyclin B1. Yu, J., Raia, P., Ghent, C.M. et al. Nature (2021) 596:138-142. DOI 10.1038/s41586-021-03764-0 · PubMed

Other PDB entries of the same protein (UniProt O95997 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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