6TNT: Anaphase-promoting complex subunit 1

SUMOylated apoAPC/C with repositioned APC2 WHB domain. Determined by electron microscopy at 3.78 Å resolution. Released 13 Jan 2021.

Method
Electron microscopy
Resolution
3.78 Å
Organisms
Homo sapiens, unidentified
Chains
20
Atoms
63,827
Mol. weight
1173.8 kDa
Ligands
ZN
Released
13 Jan 2021

Explore 6TNT in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6TNT contains 434 α-helices and 112 β-strands across 19 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: 73 helices, 50 β-strands

ElementResiduesLengthSheet
β-strand12-1321
β-strand18-1922
α-helix23-308
β-strand73-7863
β-strand90-9563
β-strand99-10243
β-strand115-11843
β-strand12314
β-strand127-12935
β-strand150-15235
β-strand153-15426
β-strand15514
β-strand158-16256
β-strand168-17256
β-strand181-18337
β-strand186-18947
β-strand211-21337
α-helix219-2202
β-strand221-22227
β-strand224-22528
β-strand237-23828
β-strand245-25069
β-strand255-25959
β-strand266-27169
β-strand409-41359
β-strand427-434810
β-strand440-446710
β-strand451-459910
β-strand466-474910
β-strand478-482511
β-strand487-491511
β-strand497-500411
β-strand505-508411
β-strand509-51021
β-strand584-59182
β-strand594-59962
β-strand604-60852
α-helix609-6113
α-helix616-62813
α-helix631-64616
α-helix656-66712
α-helix705-7128
α-helix714-7218
α-helix725-7273
α-helix759-77618
α-helix782-79716
α-helix801-8099
α-helix811-8144
α-helix844-85310
α-helix868-88013
α-helix927-93610
α-helix941-9444
α-helix949-96416
α-helix972-9776
α-helix981-99111
α-helix1021-10277
α-helix1034-10418
β-strand1047112
α-helix1052-10543
α-helix1059-107719
α-helix1080-10878
α-helix1093-10953
α-helix1101-11055
β-strand1109-1111312
β-strand1116-1118312
α-helix1133-114513
α-helix1148-11492
α-helix1150-11534
α-helix1169-118214
α-helix1184-11874
α-helix1193-11997
α-helix1202-121615
α-helix1222-123110
α-helix1247-126014
α-helix1267-127711
α-helix1291-130616
α-helix1321-133010
β-strand1352-1353213
α-helix1360-137415
α-helix1381-13866
α-helix1395-13984
α-helix1401-141414
α-helix1423-14275
α-helix1432-14365
α-helix1459-147517
α-helix1482-150019
α-helix1504-15074
α-helix1509-152618
α-helix1533-154412
α-helix1552-156514
α-helix1567-15704
β-strand1572-1574314
α-helix1578-158710
α-helix1592-15932
α-helix1604-16129
β-strand1614-1616314
β-strand1618-1619215
β-strand1620-1623416
β-strand1628-1629216
β-strand1633-1638617
β-strand1647-1652617
β-strand1655-1656215
α-helix1657-16593
α-helix1660-16623
β-strand1663-1669717
β-strand1678117
α-helix1685-16928
β-strand1696-1699416
α-helix1700-17023
α-helix1735-17373
α-helix1738-17414
α-helix1745-175410
α-helix1765-178016
α-helix1784-17863
α-helix1787-180115
α-helix1809-182012
α-helix1824-18274
α-helix1845-186218
α-helix1865-18728
α-helix1882-189110
α-helix1894-18963
α-helix1912-19209
α-helix1925-193410
Chain B: 1 helix, 7 β-strands
ElementResiduesLengthSheet
β-strand13118
β-strand22119
β-strand29119
β-strand46-48320
β-strand49121
β-strand54-56320
α-helix57-6610
β-strand82121
Chain C: 32 helices, 0 β-strands
ElementResiduesLengthSheet
α-helix29-4618
α-helix49-6113
α-helix63-642
α-helix71-766
α-helix78-9619
α-helix99-1057
α-helix112-13625
α-helix151-16313
α-helix170-18112
α-helix185-19814
α-helix203-21210
α-helix216-2216
α-helix228-24114
α-helix244-25411
α-helix255-2595
α-helix263-27513
α-helix279-29214
α-helix300-31011
α-helix313-32614
α-helix331-34313
α-helix347-36014
α-helix367-37812
α-helix381-39414
α-helix399-41214
α-helix415-42814
α-helix433-44614
α-helix449-46214
α-helix469-47911
α-helix483-49917
α-helix510-52314
α-helix526-53813
α-helix545-55612
Chain D: 2 helices, 0 β-strands
ElementResiduesLengthSheet
α-helix9-113
α-helix27-4519
Chain E: 2 helices, 0 β-strands
ElementResiduesLengthSheet
α-helix53-9341
α-helix99-1035
Chain F: 30 helices, 0 β-strands
ElementResiduesLengthSheet
α-helix6-1712
α-helix21-3414
α-helix38-5114
α-helix54-629
α-helix69-8113
α-helix85-928
α-helix103-1108
α-helix111-1133
α-helix114-12714
α-helix131-14414
α-helix150-1589
α-helix164-1674
α-helix456-47722
α-helix481-4899
α-helix493-4964
α-helix499-51113
α-helix515-52814
α-helix536-54510
α-helix549-56214
α-helix567-57913
α-helix586-59611
α-helix601-61313
α-helix619-63012
α-helix635-64713
α-helix651-66414
α-helix669-68012
α-helix694-7018
α-helix703-71513
α-helix719-73214
α-helix737-74812
Chains G and W: 2 helices, 0 β-strands
ElementResiduesLengthSheet
α-helix4-74
α-helix13-2210
Chain H: 31 helices, 0 β-strands
ElementResiduesLengthSheet
α-helix7-1711
α-helix21-3515
α-helix38-5013
α-helix54-6310
α-helix69-8113
α-helix85-939
α-helix103-1108
α-helix111-1133
α-helix114-12815
α-helix131-14414
α-helix149-1579
α-helix165-1739
α-helix452-47827
α-helix481-4888
α-helix494-4974
α-helix499-51214
α-helix515-52814
α-helix536-54611
α-helix549-56214
α-helix567-57913
α-helix583-59614
α-helix601-61313
α-helix617-63014
α-helix635-64713
α-helix651-66414
α-helix669-68113
α-helix685-69814
α-helix703-71614
α-helix719-73214
α-helix737-75014
α-helix753-76614

10 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Anaphase-promoting complex subunit 1Aprotein1944Homo sapiensQ9H1A4 (AlphaFold model)
Anaphase-promoting complex subunit 11Bprotein84Homo sapiensQ9NYG5 (AlphaFold model)
Cell division cycle protein 23 homologC, Pprotein597Homo sapiensQ9UJX2 (AlphaFold model)
Anaphase-promoting complex subunit 15Dprotein121Homo sapiensP60006 (AlphaFold model)
Anaphase-promoting complex subunit 16Eprotein110Homo sapiensQ96DE5
Cell division cycle protein 27 homologF, Hprotein824Homo sapiensP30260
Anaphase-promoting complex subunit CDC26G, Wprotein85Homo sapiensQ8NHZ8
Anaphase-promoting complex subunit 4Iprotein808Homo sapiensQ9UJX5
Cell division cycle protein 16 homologJ, Kprotein620Homo sapiensQ13042
Anaphase-promoting complex subunit 10Lprotein185Homo sapiensQ9UM13
Anaphase-promoting complex subunit 13Mprotein74Homo sapiensQ9BS18
Anaphase-promoting complex subunit 2Nprotein822Homo sapiensQ9UJX6

3 more molecules are not listed.

Sequence of entity 1 (A), FASTA
>6TNT_1 Anaphase-promoting complex subunit 1 (chains A)
MSNFYEERTTMIAARDLQEFVPFGRDHCKHHPNALNLQLRQLQPASELWSSDGAAGLVGS
LQEVTIHEKQKESWQLRKGVSEIGEDVDYDEELYVAGNMVIWSKGSKSQALAVYKAFTVD
SPVQQALWCDFIISQDKSEKAYSSNEVEKCICILQSSCINMHSIEGKDYIASLPFQVANV
WPTKYGLLFERSASSHEVPPGSPREPLPTMFSMLHPLDEITPLVCKSGSLFGSSRVQYVV
DHAMKIVFLNTDPSIVMTYDAVQNVHSVWTLRRVKSEEENVVLKFSEQGGTPQNVATSSS
LTAHLRSLSKGDSPVTSPFQNYSSIHSQSRSTSSPSLHSRSPSISNMAALSRAHSPALGV
HSFSGVQRFNISSHNQSPKRHSISHSPNSNSNGSFLAPETEPIVPELCIDHLWTETITNI
REKNSQASKVFITSDLCGQKFLCFLVESQLQLRCVKFQESNDKTQLIFGSVTNIPAKDAA
PVEKIDTMLVLEGSGNLVLYTGVVRVGKVFIPGLPAPSLTMSNTMPRPSTPLDGVSTPKP
LSKLLGSLDEVVLLSPVPELRDSSKLHDSLYNEDCTFQQLGTYIHSIRDPVHNRVTLELS
NGSMVRITIPEIATSELVQTCLQAIKFILPKEIAVQMLVKWYNVHSAPGGPSYHSEWNLF
VTCLMNMMGYNTDRLAWTRNFDFEGSLSPVIAPKKARPSETGSDDDWEYLLNSDYHQNVE
SHLLNRSLCLSPSEASQMKDEDFSQNLSLDSSTLLFTHIPAIFFVLHLVYEELKLNTLMG
EGICSLVELLVQLARDLKLGPYVDHYYRDYPTLVRTTGQVCTIDPGQTGFMHHPSFFTSE
PPSIYQWVSSCLKGEGMPPYPYLPGICERSRLVVLSIALYILGDESLVSDESSQYLTRIT
IAPQKLQVEQEENRFSFRHSTSVSSLAERLVVWMTNVGFTLRDLETLPFGIALPIRDAIY
HCREQPASDWPEAVCLLIGRQDLSKQACEGNLPKGKSVLSSDVPSGTETEEEDDGMNDMN
HEVMSLIWSEDLRVQDVRRLLQSAHPVRVNVVQYPELSDHEFIEEKENRLLQLCQRTMAL
PVGRGMFTLFSYHPVPTEPLPIPKLNLTGRAPPRNTTVDLNSGNIDVPPNMTSWASFHNG
VAAGLKIAPASQIDSAWIVYNKPKHAELANEYAGFLMALGLNGHLTKLATLNIHDYLTKG
HEMTSIGLLLGVSAAKLGTMDMSITRLLSIHIPALLPPTSTELDVPHNVQVAAVVGIGLV
YQGTAHRHTAEVLLAEIGRPPGPEMEYCTDRESYSLAAGLALGMVCLGHGSNLIGMSDLN
VPEQLYQYMVGGHRRFQTGMHREKHKSPSYQIKEGDTINVDVTCPGATLALAMIYLKTNN
RSIADWLRAPDTMYLLDFVKPEFLLLRTLARCLILWDDILPNSKWVDSNVPQIIRENSIS
LSEIELPCSEDLNLETLSQAHVYIIAGACLSLGFRFAGSENLSAFNCLHKFAKDFMTYLS
APNASVTGPHNLETCLSVVLLSLAMVMAGSGNLKVLQLCRFLHMKTGGEMNYGFHLAHHM
ALGLLFLGGGRYSLSTSNSSIAALLCALYPHFPAHSTDNRYHLQALRHLYVLAAEPRLLV
PVDVDTNTPCYALLEVTYKGTQWYEQTKEELMAPTLLPELHLLKQIKVKGPRYWELLIDL
SKGTQHLKSILSKDGVLYVKLRAGQLSYKEDPMGWQSLLAQTVANRNSEARAFKPETISA
FTSDPALLSFAEYFCKPTVNMGQKQEILDLFSSVLYECVTQETPEMLPAYIAMDQAIRRL
GRREMSETSELWQIKLVLEFFSSRSHQERLQNHPKRGLFMNSEFLPVVKCTIDNTLDQWL
QVGGDMCVHAYLSGQPLEESQLSMLACFLVYHSVPAPQHLPPIGLEGSTSFAELLFKFKQ
LKMPVRALLRLAPLLLGNPQPMVM
Sequence of entity 2 (B), FASTA
>6TNT_2 Anaphase-promoting complex subunit 11 (chains B)
MKVKIKCWNGVATWLWVANDENCGICRMAFNGCCPDCKVPGDDCPLVWGQCSHCFHMHCI
LKWLHAQQVQQHCPMCRQEWKFKE
Sequence of entity 3 (C, P), FASTA
>6TNT_3 Cell division cycle protein 23 homolog (chains C, P)
MAASTSMVPVAVTAAVAPVLSINSDFSDLREIKKQLLLIAGLTRERGLLHSSKWSAELAF
SLPALPLAELQPPPPITEEDAQDMDAYTLAKAYFDVKEYDRAAHFLHGCNSKKAYFLYMY
SRYLSGEKKKDDETVDSLGPLEKGQVKNEALRELRVELSKKHQARELDGFGLYLYGVVLR
KLDLVKEAIDVFVEATHVLPLHWGAWLELCNLITDKEMLKFLSLPDTWMKEFFLAHIYTE
LQLIEEALQKYQNLIDVGFSKSSYIVSQIAVAYHNIRDIDKALSIFNELRKQDPYRIENM
DTFSNLLYVRSMKSELSYLAHNLCEIDKYRVETCCVIGNYYSLRSQHEKAALYFQRALKL
NPRYLGAWTLMGHEYMEMKNTSAAIQAYRHAIEVNKRDYRAWYGLGQTYEILKMPFYCLY
YYRRAHQLRPNDSRMLVALGECYEKLNQLVEAKKCYWRAYAVGDVEKMALVKLAKLHEQL
TESEQAAQCYIKYIQDIYSCGEIVEHLEESTAFRYLAQYYFKCKLWDEASTCAQKCCAFN
DTREEGKALLRQILQLRNQGETPTTEVPAPFFLPASLSANNTPTRRVSPLNLSSVTP
Sequence of entity 4 (D), FASTA
>6TNT_4 Anaphase-promoting complex subunit 15 (chains D)
MSTLFPSLFPRVTETLWFNLDRPCVEETELQQQEQQHQAWLQSIAEKDNNLVPIGKPASE
HYDDEEEEDDEDDEDSEEDSEDDEDMQDMDEMNDYNESPDDGEVNEVDMEGNEQDQDQWM
I
Sequence of entity 5 (E), FASTA
>6TNT_5 Anaphase-promoting complex subunit 16 (chains E)
MAASSSSSSAGGVSGSSVTGSGFSVSDLAPPRKALFTYPKGAGEMLEDGSERFLCESVFS
YQVASTLKQVKHDQQVARMEKLAGLVEELEADEWRFKPIEQLLGFTPSSG
Sequence of entity 6 (F, H), FASTA
>6TNT_6 Cell division cycle protein 27 homolog (chains F, H)
MTVLQEPVQAAIWQALNHYAYRDAVFLAERLYAEVHSEEALFLLATCYYRSGKAYKAYRL
LKGHSCTTPQCKYLLAKCCVDLSKLAEGEQILSGGVFNKQKSHDDIVTEFGDSACFTLSL
LGHVYCKTDRLAKGSECYQKSLSLNPFLWSPFESLCEIGEKPDPDQTFKFTSLQNFSNCL
PNSCTTQVPNHSLSHRQPETVLTETPQDTIELNRLNLESSNSKYSLNTDSSVSYIDSAVI
SPDTVPLGTGTSILSKQVQNKPKTGRSLLGGPAALSPLTPSFGILPLETPSPGDGSYLQN
YTNTPPVIDVPSTGAPSKKSVARIGQTGTKSVFSQSGNSREVTPILAQTQSSGPQTSTTP
QVLSPTITSPPNALPRRSSRLFTSDSSTTKENSKKLKMKFPPKIPNRKTKSKTNKGGITQ
PNINDSLEITKLDSSIISEGKISTITPQIQAFNLQKAAAEGLMSLLREMGKGYLALCSYN
CKEAINILSHLPSHHYNTGWVLCQIGRAYFELSEYMQAERIFSEVRRIENYRVEGMEIYS
TTLWHLQKDVALSVLSKDLTDMDKNSPEAWCAAGNCFSLQREHDIAIKFFQRAIQVDPNY
AYAYTLLGHEFVLTEELDKALACFRNAIRVNPRHYNAWYGLGMIYYKQEKFSLAEMHFQK
ALDINPQSSVLLCHIGVVQHALKKSEKALDTLNKAIVIDPKNPLCKFHRASVLFANEKYK
SALQELEELKQIVPKESLVYFLIGKVYKKLGQTHLALMNFSWAMDLDPKGANNQIKEAID
KRYLPDDEEPITQEEQIMGTDESQESSMTDADDTQLHAAESDEF
Sequence of entity 7 (G, W), FASTA
>6TNT_7 Anaphase-promoting complex subunit CDC26 (chains G, W)
MLRRKPTRLELKLDDIEEFENIRKDLETRKKQKEDVEVVGGSDGEGAIGLSSDPKSREQM
INDRIGYKPQPKPNNRSSQFGSLEF
Sequence of entity 8 (I), FASTA
>6TNT_8 Anaphase-promoting complex subunit 4 (chains I)
MLRFPTCFPSFRVVGEKQLPQEIIFLVWSPKRDLIALANTAGEVLLHRLASFHRVWSFPP
NENTGKEVTCLAWRPDGKLLAFALADTKKIVLCDVEKPESLHSFSVEAPVSCMHWMEVTV
ESSVLTSFYNAEDESNLLLPKLPTLPKNYSNTSKIFSEENSDEIIKLLGDVRLNILVLGG
SSGFIELYAYGMFKIARVTGIAGTCLALCLSSDLKSLSVVTEVSTNGASEVSYFQLETNL
LYSFLPEVTRMARKFTHISALLQYINLSLTCMCEAWEEILMQMDSRLTKFVQEKNTTTSV
QDEFMHLLLWGKASAELQTLLMNQLTVKGLKKLGQSIESSYSSIQKLVISHLQSGSESLL
YHLSELKGMASWKQKYEPLGLDAAGIEEAITAVGSFILKANELLQVIDSSMKNFKAFFRW
LYVAMLRMTEDHVLPELNKMTQKDITFVAEFLTEHFNEAPDLYNRKGKYFNVERVGQYLK
DEDDDLVSPPNTEGNQWYDFLQNSSHLKESPLLFPYYPRKSLHFVKRRMENIIDQCLQKP
ADVIGKSMNQAICIPLYRDTRSEDSTRRLFKFPFLWNNKTSNLHYLLFTILEDSLYKMCI
LRRHTDISQSVSNGLIAIKFGSFTYATTEKVRRSIYSCLDAQFYDDETVTVVLKDTVGRE
GRDRLLVQLPLSLVYNSEDSAEYQFTGTYSTRLDEQCSAIPTRTMHFEKHWRLLESMKAQ
YVAGNGFRKVSCVLSSNLRHVRVFEMDIDDEWELDESSDEEEEASNKPVKIKEEVLSESE
AENQQAGAAALAPEIVIKVEKLDPELDS
Sequence of entity 9 (J, K), FASTA
>6TNT_9 Cell division cycle protein 16 homolog (chains J, K)
MNLERLRKRVRQYLDQQQYQSALFWADKVASLSREEPQDIYWLAQCLYLTAQYHRAAHAL
RSRKLDKLYEACRYLAARCHYAAKEHQQALDVLDMEEPINKRLFEKYLKDESGFKDPSSD
WEMSQSSIKSSICLLRGKIYDALDNRTLATYSYKEALKLDVYCFEAFDLLTSHHMLTAQE
EKELLESLPLSKLCNEEQELLRFLFENKLKKYNKPSETVIPESVDGLQENLDVVVSLAER
HYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPV
SWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTA
AQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKT
AEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNAS
TYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSEAYIGADIKD
KLKCYDFDVHTMKTLKNIISPPWDFREFEVEKQTAEETGLTPLETSRKTPDSRPSLEETF
EIEMNESDMMLETSMSDHST
Sequence of entity 10 (L), FASTA
>6TNT_10 Anaphase-promoting complex subunit 10 (chains L)
MTTPNKTPPGADPKQLERTGTVREIGSQAVWSLSSCKPGFGVDQLRDDNLETYWQSDGSQ
PHLVNIQFRRKTTVKTLCIYADYKSDESYTPSKISVRVGNNFHNLQEIRQLELVEPSGWI
HVPLTDNHKKPTRTFMIQIAVLANHQNGRDTHMRQIKIYTPVEESSIGKFPRCTTIDFMM
YRSIR
Sequence of entity 11 (M), FASTA
>6TNT_11 Anaphase-promoting complex subunit 13 (chains M)
MDSEVQRDGRILDLIDDAWREDKLPYEDVAIPLNELPEPEQDNGGTTESVKEQEMKWTDL
ALQYLHENVPPIGN
Sequence of entity 12 (N), FASTA
>6TNT_12 Anaphase-promoting complex subunit 2 (chains N)
MAAAVVVAEGDSDSRPGQELLVAWNTVSTGLVPPAALGLVSSRTSGAVPPKEEELRAAVE
VLRGHGLHSVLEEWFVEVLQNDLQANISPEFWNAISQCENSADEPQCLLLLLDAFGLLES
RLDPYLRSLELLEKWTRLGLLMGTGAQGLREEVHTMLRGVLFFSTPRTFQEMIQRLYGCF
LRVYMQSKRKGEGGTDPELEGELDSRYARRRYYRLLQSPLCAGCSSDKQQCWCRQALEQF
HQLSQVLHRLSLLERVSAEAVTTTLHQVTRERMEDRCRGEYERSFLREFHKWIERVVGWL
GKVFLQDGPARPASPEAGNTLRRWRCHVQRFFYRIYASLRIEELFSIVRDFPDSRPAIED
LKYCLERTDQRQQLLVSLKAALETRLLHPGVNTCDIITLYISAIKALRVLDPSMVILEVA
CEPIRRYLRTREDTVRQIVAGLTGDSDGTGDLAVELSKTDPASLETGQDSEDDSGEPEDW
VPDPVDADPGKSSSKRRSSDIISLLVSIYGSKDLFINEYRSLLADRLLHQFSFSPEREIR
NVELLKLRFGEAPMHFCEVMLKDMADSRRINANIREEDEKRPAEEQPPFGVYAVILSSEF
WPPFKDEKLEVPEDIRAALEAYCKKYEQLKAMRTLSWKHTLGLVTMDVELADRTLSVAVT
PVQAVILLYFQDQASWTLEELSKAVKMPVALLRRRMSVWLQQGVLREEPPGTFSVIEEER
PQDRDNMVLIDSDDESDSGMASQADQKEEELLLFWTYIQAMLTNLESLSLDRIYNMLRMF
VVTGPALAEIDLQELQGYLQKKVRDQQLVYSAGVYRLPKNCS

Ligands and cofactors

IDNameFormulaCopies
ZNZinc ionZn3

Primary citation

Molecular mechanisms of APC/C release from spindle assembly checkpoint inhibition by APC/C SUMOylation. Yatskevich, S., Kroonen, J.S., Alfieri, C. et al. Cell Rep (2021) 34:108929-108929. DOI 10.1016/j.celrep.2021.108929 · PubMed

Other PDB entries of the same protein (UniProt Q9H1A4 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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