6MSJ: 26S proteasome non-ATPase regulatory subunit 1

Cryo-EM structures and dynamics of substrate-engaged human 26S proteasome. Determined by electron microscopy at 3.3 Å resolution. Released 21 Nov 2018.

Method
Electron microscopy
Resolution
3.3 Å
Organisms
Homo sapiens, Saccharomyces cerevisiae RM11-1a
Chains
47
Atoms
105,316
Mol. weight
1664.64 kDa
Ligands
ATP, ADP, MG, ZN
Released
21 Nov 2018

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

Secondary structure: helices and β-sheets

6MSJ contains 577 α-helices and 541 β-strands across 47 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: 25 helices, 3 β-strands

ElementResiduesLengthSheet
α-helix5-106
α-helix181
α-helix19-235
α-helix25-284
α-helix36-4611
α-helix54-6613
α-helix73-8715
α-helix90-10213
α-helix111-12010
α-helix131-14111
α-helix150-16112
α-helix162-1643
α-helix170-18213
α-helix190-20617
α-helix220-2234
α-helix231-24111
α-helix249-2568
α-helix262-2643
α-helix265-2739
α-helix277-2837
β-strand291-292240
α-helix293-2997
α-helix304-3063
α-helix307-31711
β-strand323-324240
β-strand330-332340
α-helix344-37027
α-helix372-3754
Chain A: 17 helices, 12 β-strands
ElementResiduesLengthSheet
α-helix27-359
α-helix42-6322
α-helix75-784
α-helix87-904
β-strand97-98273
β-strand100-103474
β-strand111-114474
β-strand120-123474
β-strand125173
β-strand139-142473
β-strand149-153573
α-helix174-1763
α-helix181-1877
α-helix188-1925
α-helix193-1964
α-helix200-2045
β-strand212-215475
α-helix222-23110
β-strand236-240575
α-helix253-26412
β-strand270-274575
α-helix295-30612
β-strand316-321675
α-helix329-3324
β-strand339-342475
α-helix349-36012
α-helix371-3755
α-helix382-39817
α-helix406-42015
Chain b: 6 helices, 10 β-strands
ElementResiduesLengthSheet
β-strand4-9645
β-strand13146
α-helix14-163
α-helix25-4319
β-strand48-52545
β-strand55147
β-strand65145
α-helix69-757
β-strand82146
β-strand84147
α-helix87-948
β-strand106-113845
α-helix121-13212
β-strand137-142645
α-helix151-1588
β-strand170-171245
Chain B: 19 helices, 13 β-strands
ElementResiduesLengthSheet
α-helix33-386
α-helix59-8426
α-helix94-1029
β-strand107-114873
β-strand120-124573
β-strand130-135673
β-strand149-152473
β-strand159-162473
α-helix163-1642
α-helix169-1735
β-strand175180
α-helix191-1977
α-helix198-2025
α-helix203-2064
α-helix217-2193
β-strand221-225580
α-helix232-24110
β-strand247-251580
α-helix252-2543
α-helix262-27615
β-strand280-285680
α-helix287-2893
α-helix302-31615
β-strand325-330680
α-helix339-3424
β-strand349-352480
α-helix360-3689
β-strand374181
α-helix380-3867
α-helix392-40817
β-strand414181
α-helix416-42712
Chain c: 11 helices, 8 β-strands
ElementResiduesLengthSheet
β-strand31-34453
α-helix35-4713
β-strand54-60753
β-strand67-74853
α-helix76-783
α-helix89-10012
β-strand107-114853
α-helix124-13613
β-strand141-145553
β-strand157-162653
α-helix189-1924
β-strand200-203453
β-strand205-208453
α-helix214-2218
α-helix226-2294
α-helix237-26125
α-helix267-2726
α-helix279-2835
α-helix286-30823
Chain C: 17 helices, 13 β-strands
ElementResiduesLengthSheet
α-helix14-163
α-helix17-215
α-helix22-6645
α-helix69-702
β-strand71-76673
β-strand84-88573
β-strand94-99673
β-strand112-116573
β-strand122-127673
β-strand138186
α-helix155-17016
α-helix173-1786
α-helix181-1833
β-strand185-188486
α-helix198-2058
β-strand210-214586
β-strand223187
α-helix226-24015
β-strand244-249686
α-helix269-27911
β-strand289-294686
α-helix298-3003
β-strand313-315386
α-helix318-3203
α-helix322-33211
α-helix344-3496
α-helix359-37214
α-helix380-39011
α-helix400-4045
β-strand405188
Chain d: 14 helices, 2 β-strands
ElementResiduesLengthSheet
α-helix17-2913
α-helix46-6419
α-helix68-8114
α-helix95-10814
α-helix112-1187
α-helix119-1213
α-helix131-14212
α-helix148-1536
α-helix164-18219
β-strand188-189259
α-helix191-1933
α-helix194-1985
α-helix205-2128
β-strand222-223259
α-helix224-2263
α-helix240-25314
Chain D: 18 helices, 14 β-strands
ElementResiduesLengthSheet
α-helix42-8039
β-strand88-971073
β-strand100-105673
β-strand106193
β-strand108193
β-strand111-114473
α-helix121-1233
β-strand129-132473
β-strand139-142473
α-helix143-1442
α-helix164-1663
α-helix171-1777
α-helix178-1825
α-helix183-1864
α-helix188-1947
β-strand201-205594
α-helix212-22110
β-strand226-231694
α-helix242-25615
β-strand260-265694
β-strand272195
α-helix273-2742
α-helix282-29716
β-strand305-311794
β-strand317195
α-helix319-3224
β-strand329-332494
α-helix341-3499
α-helix360-3634
α-helix372-38716
α-helix398-40710
α-helix413-4153

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

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
26S proteasome non-ATPase regulatory subunit 1Uprotein953Homo sapiensQ99460 (AlphaFold model)
26S proteasome non-ATPase regulatory subunit 3Vprotein533Homo sapiensO43242 (AlphaFold model)
26S proteasome non-ATPase regulatory subunit 12Wprotein456Homo sapiensO00232 (AlphaFold model)
26S proteasome non-ATPase regulatory subunit 11Xprotein422Homo sapiensO00231 (AlphaFold model)
26S proteasome non-ATPase regulatory subunit 6Yprotein389Homo sapiensQ15008
26S proteasome non-ATPase regulatory subunit 7Zprotein324Homo sapiensP51665
26S proteasome non-ATPase regulatory subunit 13aprotein376Homo sapiensQ9UNM6
26S proteasome non-ATPase regulatory subunit 4bprotein377Homo sapiensP55036
26S proteasome non-ATPase regulatory subunit 14cprotein309Homo sapiensO00487
26S proteasome non-ATPase regulatory subunit 8dprotein349Homo sapiensP48556
26S proteasome complex subunit SEM1eprotein70Homo sapiensP60896
26S proteasome non-ATPase regulatory subunit 2fprotein892Homo sapiensQ13200

22 more molecules are not listed.

Sequence of entity 1 (U), FASTA
>6MSJ_1 26S proteasome non-ATPase regulatory subunit 1 (chains U)
MITSAAGIISLLDEDEPQLKEFALHKLNAVVNDFWAEISESVDKIEVLYEDEGFRSRQFA
ALVASKVFYHLGAFEESLNYALGAGDLFNVNDNSEYVETIIAKCIDHYTKQCVENADLPE
GEKKPIDQRLEGIVNKMFQRCLDDHKYKQAIGIALETRRLDVFEKTILESNDVPGMLAYS
LKLCMSLMQNKQFRNKVLRVLVKIYMNLEKPDFINVCQCLIFLDDPQAVSDILEKLVKED
NLLMAYQICFDLYESASQQFLSSVIQNLRTVGTPIASVPGSTNTGTVPGSEKDSDSMETE
EKTSSAFVGKTPEASPEPKDQTLKMIKILSGEMAIELHLQFLIRNNNTDLMILKNTKDAV
RNSVCHTATVIANSFMHCGTTSDQFLRDNLEWLARATNWAKFTATASLGVIHKGHEKEAL
QLMATYLPKDTSPGSAYQEGGGLYALGLIHANHGGDIIDYLLNQLKNASNDIVRHGGSLG
LGLAAMGTARQDVYDLLKTNLYQDDAVTGEAAGLALGLVMLGSKNAQAIEDMVGYAQETQ
HEKILRGLAVGIALVMYGRMEEADALIESLCRDKDPILRRSGMYTVAMAYCGSGNNKAIR
RLLHVAVSDVNDDVRRAAVESLGFILFRTPEQCPSVVSLLSESYNPHVRYGAAMALGICC
AGTGNKEAINLLEPMTNDPVNYVRQGALIASALIMIQQTEITCPKVNQFRQLYSKVINDK
HDDVMAKFGAILAQGILDAGGHNVTISLQSRTGHTHMPSVVGVLVFTQFWFWFPLSHFLS
LAYTPTCVIGLNKDLKMPKVQYKSNCKPSTFAYPAPLEVPKEKEKEKVSTAVLSITAKAK
KKEKEKEKKEEEKMEVDEAEKKEEKEKKKEPEPNFQLLDNPARVMPAQLKVLTMPETCRY
QPFKPLSIGGIIILKDTSEDIEELVEPVAAHGPKIEEEEQEPEPPEPFEYIDD
Sequence of entity 2 (V), FASTA
>6MSJ_2 26S proteasome non-ATPase regulatory subunit 3 (chains V)
KQEGSARRRGADKAKPPPGGGEQEPPPPPAPQDVEMKEEAATGGGSTGEADGKTAAAAAE
HSQRELDTVTLEDIKEHVKQLEKAVSGKEPRFVLRALRMLPSTSRRLNHYVLYKAVQGFF
TSNNATRDFLLPFLEEPMDTEADLQFRPRTGKAASTPLLPEVEAYLQLLVVIFMMNSKRY
KEAQKISDDLMQKISTQNRRALDLVAAKCYYYHARVYEFLDKLDVVRSFLHARLRTATLR
HDADGQATLLNLLLRNYLHYSLYDQAEKLVSKSVFPEQANNNEWARYLYYTGRIKAIQLE
YSEARRTMTNALRKAPQHTAVGFKQTVHKLLIVVELLLGEIPDRLQFRQPSLKRSLMPYF
LLTQAVRTGNLAKFNQVLDQFGEKFQADGTYTLIIRLRHNVIKTGVRMISLSYSRISLAD
IAQKLQLDSPEDAEFIVAKAIRDGVIEASINHEKGYVQSKEMIDIYSTREPQLAFHQRIS
FCLDIHNMSVKAMRFPPKSYNKDLESAEERREREQQDLEFAKEMAEDDDDSFP
Sequence of entity 3 (W), FASTA
>6MSJ_3 26S proteasome non-ATPase regulatory subunit 12 (chains W)
MADGGSERADGRIVKMEVDYSATVDQRLPECAKLAKEGRLQEVIETLLSLEKQTRTASDM
VSTSRILVAVVKMCYEAKEWDLLNENIMLLSKRRSQLKQAVAKMVQQCCTYVEEITDLPI
KLRLIDTLRMVTEGKIYVEIERARLTKTLATIKEQNGDVKEAASILQELQVETYGSMEKK
ERVEFILEQMRLCLAVKDYIRTQIISKKINTKFFQEENTEKLKLKYYNLMIQLDQHEGSY
LSICKHYRAIYDTPCIQAESEKWQQALKSVVLYVILAPFDNEQSDLVHRISGDKKLEEIP
KYKDLLKLFTTMELMRWSTLVEDYGMELRKGSLESPATDVFGSTEEGEKRWKDLKNRVVE
HNIRIMAKYYTRITMKRMAQLLDLSVDESEAFLSNLVVNKTIFAKVDRLAGIINFQRPKD
PNNLLNDWSQKLNSLMSLVNKTTHLIAKEEMIHNLQ
Sequence of entity 4 (X), FASTA
>6MSJ_4 26S proteasome non-ATPase regulatory subunit 11 (chains X)
MAAAAVVEFQRAQSLLSTDREASIDILHSIVKRDIQENDEEAVQVKEQSILELGSLLAKT
GQAAELGGLLKYVRPFLNSISKAKAARLVRSLLDLFLDMEAATGQEVELCLECIEWAKSE
KRTFLRQALEARLVSLYFDTKRYQEALHLGSQLLRELKKMDDKALLVEVQLLESKTYHAL
SNLPKARAALTSARTTANAIYCPPKLQATLDMQSGIIHAAEEKDWKTAYSYFYEAFEGYD
SIDSPKAITSLKYMLLCKIMLNTPEDVQALVSGKLALRYAGRQTEALKCVAQASKNRSLA
DFEKALTDYRAELRDDPIISTHLAKLYDNLLEQNLIRVIEPFSRVQIEHISSLIKLSKAD
VERKLSQMILDKKFHGILDQGEGVLIIFDEPPVDKTYEAALETIQNMSKVVDSLYNKAKK
LT
Sequence of entity 5 (Y), FASTA
>6MSJ_5 26S proteasome non-ATPase regulatory subunit 6 (chains Y)
MPLENLEEEGLPKNPDLRIAQLRFLLSLPEHRGDAAVRDELMAAVRDNNMAPYYEALCKS
LDWQIDVDLLNKMKKANEDELKRLDEELEDAEKNLGESEIRDAMMAKAEYLCRIGDKEGA
LTAFRKTYDKTVALGHRLDIVFYLLRIGLFYMDNDLITRNTEKAKSLIEEGGDWDRRNRL
KVYQGLYCVAIRDFKQAAELFLDTVSTFTSYELMDYKTFVTYTVYVSMIALERPDLREKV
IKGAEILEVLHSLPAVRQYLFSLYECRYSVFFQSLAVVEQEMKKDWLFAPHYRYYVREMR
IHAYSQLLESYRSLTLGYMAEAFGVGVEFIDQELSRFIAAGRLHCKIDKVNEIVETNRPD
SKNWQYQETIKKGDLLLNRVQKLSRVINM
Sequence of entity 6 (Z), FASTA
>6MSJ_6 26S proteasome non-ATPase regulatory subunit 7 (chains Z)
MPELAVQKVVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDE
DDKDDSVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSV
LVIIDVKPKDLGLPTEAYISVEEVHDDGTPTSKTFEHVTSEIGAEEAEEVGVEHLLRDIK
DTTVGTLSQRITNQVHGLKGLNSKLLDIRSYLEKVATGKLPINHQIIYQLQDVFNLLPDV
SLQEFVKAFYLKTNDQMVVVYLASLIRSVVALHNLINNKIANRDAEKKEGQEKEESKKDR
KEDKEKDKDKEKSDVKKEEKKEKK
Sequence of entity 7 (a), FASTA
>6MSJ_7 26S proteasome non-ATPase regulatory subunit 13 (chains a)
MKDVPGFLQQSQNSGPGQPAVWHRLEELYTKKLWHQLTLQVLDFVQDPCFAQGDGLIKLY
ENFISEFEHRVNPLSLVEIILHVVRQMTDPNVALTFLEKTREKVKSSDEAVILCKTAIGA
LKLNIGDLQVTKETIEDVEEMLNNLPGVTSVHSRFYDLSSKYYQTIGNHASYYKDALRFL
GCVDIKDLPVSEQQERAFTLGLAGLLGEGVFNFGELLMHPVLESLRNTDRQWLIDTLYAF
NSGNVERFQTLKTAWGQQPDLAANEAQLLRKIQLLCLMEMTFTRPANHRQLTFEEIAKSA
KITVNEVELLVMKALSVGLVKGSIDEVDKRVHMTWVQPRVLDLQQIKGMKDRLEFWCTDV
KSMEMLVEHQAHDILT
Sequence of entity 8 (b), FASTA
>6MSJ_8 26S proteasome non-ATPase regulatory subunit 4 (chains b)
MVLESTMVCVDNSEYMRNGDFLPTRLQAQQDAVNIVCHSKTRSNPENNVGLITLANDCEV
LTTLTPDTGRILSKLHTVQPKGKITFCTGIRVAHLALKHRQGKNHKMRIIAFVGSPVEDN
EKDLVKLAKRLKKEKVNVDIINFGEEEVNTEKLTAFVNTLNGKDGTGSHLVTVPPGPSLA
DALISSPILAGEGGAMLGLGASDFEFGVDPSADPELALALRVSMEEQRQRQEEEARRAAA
ASAAEAGIATTGTEDSDDALLKMTISQQEFGRTGLPDLSSMTEEEQIAYAMQMSLQGAEF
GQAESADIDASSAMDTSEPAKEEDDYDVMQDPEFLQSVLENLPGVDPNNEAIRNAMGSLA
SQATKDGKKDKKEEDKK
Sequence of entity 9 (c), FASTA
>6MSJ_9 26S proteasome non-ATPase regulatory subunit 14 (chains c)
DRLLRLGGGMPGLGQGPPTDAPAVDTAEQVYISSLALLKMLKHGRAGVPMEVMGLMLGEF
VDDYTVRVIDVFAMPQSGTGVSVEAVDPVFQAKMLDMLKQTGRPEMVVGWYHSHPGFGCW
LSGVDINTQQSFEALSERAVAVVVDPIQSVKGKVVIDAFRLINANMMVLGHEPRQTTSNL
GHLNKPSIQALIHGLNRHYYSITINYRKNELEQKMLLNLHKKSWMEGLTLQDYSEHCKHN
ESVVKEMLELAKNYNKAVEEEDKMTPEQLAIKNVGKQDPKRHLEEHVDVLMTSNIVQCLA
AMLDTVVFK
Sequence of entity 10 (d), FASTA
>6MSJ_10 26S proteasome non-ATPase regulatory subunit 8 (chains d)
FIKGRAPRAPPRERRRATRGGLRQVVAPPRALGSTSRPHFRRASVCRRRCRKSGGLLAAS
RKMAAAAVNGAAGFSSSGPAATSGAVLQAATGMYEQLKGEWNRKSPNLSKCGEELGRLKL
VLLELNFLPTTGTKLTKQQLILARDILEIGAQWSILRKDIPSFERYMAQLKCYYFDYKEQ
LPESAYMHQLLGLNLLFLLSQNRVAEFHTELERLPAKDIQTNVYIKHPVSLEQYLMEGSY
NKVFLAKGNIPAESYTFFIDILLDTIRDEIAGCIEKAYEKILFTEATRILFFNTPKKMTD
YAKKRGWVLGPNNYYSFASQQQKPEDTTIPSTELAKQVIEYARQLEMIV
Sequence of entity 11 (e), FASTA
>6MSJ_11 26S proteasome complex subunit SEM1 (chains e)
MSEKKQPVDLGLLEEDDEFEEFPAEDWAGLDEDEDAHVWEDNWDDDNVEDDFSNQLRAEL
EKHGYKMETS
Sequence of entity 12 (f), FASTA
>6MSJ_12 26S proteasome non-ATPase regulatory subunit 2 (chains f)
MEEGGRDKAPVQPQQSPAAAPGGTDEKPSGKERRDAGDKDKEQELSEEDKQLQDELEMLV
ERLGEKDTSLYRPALEELRRQIRSSTTSMTSVPKPLKFLRPHYGKLKEIYENMAPGENKR
FAADIISVLAMTMSGERECLKYRLVGSQEELASWGHEYVRHLAGEVAKEWQELDDAEKVQ
REPLLTLVKEIVPYNMAHNAEHEACDLLMEIEQVDMLEKDIDENAYAKVCLYLTSCVNYV
PEPENSALLRCALGVFRKFSRFPEALRLALMLNDMELVEDIFTSCKDVVVQKQMAFMLGR
HGVFLELSEDVEEYEDLTEIMSNVQLNSNFLALARELDIMEPKVPDDIYKTHLENNRFGG
SGSQVDSARMNLASSFVNGFVNAAFGQDKLLTDDGNKWLYKNKDHGMLSAAASLGMILLW
DVDGGLTQIDKYLYSSEDYIKSGALLACGIVNSGVRNECDPALALLSDYVLHNSNTMRLG
SIFGLGLAYAGSNREDVLTLLLPVMGDSKSSMEVAGVTALACGMIAVGSCNGDVTSTILQ
TIMEKSETELKDTYARWLPLGLGLNHLGKGEAIEAILAALEVVSEPFRSFANTLVDVCAY
AGSGNVLKVQQLLHICSEHFDSKEKEEDKDKKEKKDKDKKEAPADMGAHQGVAVLGIALI
AMGEEIGAEMALRTFGHLLRYGEPTLRRAVPLALALISVSNPRLNILDTLSKFSHDADPE
VSYNSIFAMGMVGSGTNNARLAAMLRQLAQYHAKDPNNLFMVRLAQGLTHLGKGTLTLCP
YHSDRQLMSQVAVAGLLTVLVSFLDVRNIILGKSHYVLYGLVAAMQPRMLVTFDEELRPL
PVSVRVGQAVDVVGQAGKPKTITGFQTHTTPVLLAHGERAELATEEFLPVTP

Ligands and cofactors

IDNameFormulaCopies
ATPAdenosine-5'-triphosphateC10 H16 N5 O13 P34
ADPAdenosine-5'-diphosphateC10 H15 N5 O10 P21
MGMagnesium ionMg4
ZNZinc ionZn1

Primary citation

Cryo-EM structures and dynamics of substrate-engaged human 26S proteasome. Dong, Y., Zhang, S., Wu, Z. et al. Nature (2019) 565:49-55. DOI 10.1038/s41586-018-0736-4 · PubMed

Other PDB entries of the same protein (UniProt Q99460 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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