9GBK: Blm10-20S proteasome complex from pre1-1

Blm10-20S proteasome complex from pre1-1. Determined by electron microscopy at 2.39 Å resolution. Released 11 Sept 2024.

Method
Electron microscopy
Resolution
2.39 Å
Organism
Saccharomyces cerevisiae
Chains
29
Atoms
64,984
Mol. weight
978.59 kDa
Released
11 Sept 2024

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

Secondary structure: helices and β-sheets

9GBK contains 324 α-helices and 397 β-strands across 29 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 1: 7 helices, 15 β-strands

ElementResiduesLengthSheet
β-strand11-1661
β-strand21-2661
β-strand29-3132
β-strand34-3742
β-strand43-4753
β-strand50-5673
α-helix58-7821
α-helix82-854
α-helix86-9813
β-strand107-11483
β-strand120-12563
β-strand131-13443
β-strand136-14051
α-helix143-1453
α-helix147-1537
β-strand16014
β-strand16914
α-helix170-1723
α-helix177-19418
β-strand19515
β-strand201-20771
β-strand212-21871
Chain 2: 7 helices, 16 β-strands
ElementResiduesLengthSheet
β-strand7110
β-strand11-16611
β-strand19-25711
β-strand27112
β-strand33113
β-strand37112
β-strand42-45414
β-strand49-55714
β-strand56110
α-helix57-7418
α-helix89-10517
β-strand112-119814
β-strand125-131714
α-helix132-1343
β-strand137-138214
β-strand141-143311
α-helix147-1559
α-helix162-1676
α-helix170-18718
β-strand188115
β-strand194-201811
β-strand205-213911
α-helix220-2245
Chain 3: 113 helices, 24 β-strands
ElementResiduesLengthSheet
α-helix82-887
α-helix97-1037
α-helix133-15220
α-helix164-1707
α-helix240-25011
α-helix251-2533
α-helix257-27014
β-strand274118
α-helix281-29010
β-strand295119
β-strand298119
α-helix300-3078
β-strand311120
α-helix313-3219
α-helix339-35517
α-helix356-3583
β-strand359120
α-helix366-37712
α-helix383-39311
β-strand398121
β-strand403121
α-helix404-4074
α-helix408-4158
α-helix422-4254
α-helix429-44416
β-strand458122
β-strand460123
β-strand461122
β-strand463123
α-helix465-47713
α-helix478-4825
α-helix488-4969
α-helix505-52218
α-helix531-55626
α-helix568-57811
α-helix582-5865
α-helix591-5988
α-helix600-6067
α-helix612-62716
α-helix635-65218
α-helix656-67015
α-helix678-69316
β-strand697124
α-helix709-7135
α-helix714-72613
α-helix730-7323
α-helix738-7425
α-helix744-7474
α-helix751-76515
α-helix772-78716
β-strand789124
α-helix791-80616
α-helix819-83113
α-helix833-8353
α-helix836-85217
α-helix870-88213
α-helix893-90614
α-helix910-9167
α-helix918-92811
β-strand931-932225
α-helix957-9604
β-strand969-970225
α-helix974-100027
α-helix1006-102520
α-helix1027-10293
α-helix1161-11644
α-helix1167-119327
α-helix1199-121315
α-helix1229-12302
α-helix1231-12377
α-helix1249-126416
β-strand1271-1272226
α-helix1275-128814
α-helix1293-130917
β-strand1310-1311226
α-helix1313-133018
α-helix1334-134411
α-helix1347-13537
α-helix1360-137112
α-helix1378-139215
α-helix1393-13964
β-strand1401118
α-helix1404-14063
α-helix1408-14103
α-helix1418-145235
α-helix1458-147316
α-helix1478-14792
α-helix1481-14888
α-helix1489-14935
α-helix1496-151823
α-helix1523-15264
β-strand1536-1540527
α-helix1546-15549
β-strand1563127
β-strand1574128
β-strand1578-1582527
α-helix1586-15872
α-helix1593-160412
α-helix1608-162013
α-helix1630-164415
α-helix1654-16629
α-helix1668-168316
α-helix1690-170718
α-helix1716-172611
α-helix1727-17293
α-helix1733-17353
α-helix1739-17446
α-helix1758-177316
α-helix1784-17874
α-helix1795-181117
β-strand1817128
α-helix1820-18278
α-helix1843-185816
α-helix1859-18635
α-helix1868-18714
α-helix1875-189016
α-helix1900-19023
α-helix1903-19075
α-helix1908-19158
α-helix1918-19247
α-helix1928-19347
α-helix1935-19373
α-helix1942-195211
α-helix1961-197717
α-helix1984-199815
α-helix2005-201915
α-helix2024-203512
α-helix2036-20383
α-helix2045-205410
α-helix2056-207015
α-helix2078-20792
α-helix2081-209313
α-helix2098-211316
α-helix2118-21214
α-helix2122-21243
α-helix2127-21315
β-strand2142129
Chain A: 9 helices, 14 β-strands
ElementResiduesLengthSheet
α-helix29-346
β-strand42-46534
β-strand47135
β-strand51-56634
β-strand64136
α-helix66-683
β-strand72-74337
β-strand80-82337
α-helix87-10822
α-helix111-1133
α-helix114-13017
β-strand131138
α-helix135-1373
β-strand142-146537
β-strand152-156537
β-strand164-166337
β-strand168-171434
α-helix175-18915
β-strand194135
α-helix199-21416
β-strand223-228634
β-strand233-235334
α-helix238-24912
Chain B: 11 helices, 14 β-strands
ElementResiduesLengthSheet
α-helix20-2910
β-strand35-39539
β-strand42-48739
β-strand56137
β-strand65-68440
β-strand71-77740
α-helix79-9214
α-helix93-975
α-helix104-1063
α-helix107-12317
β-strand127138
α-helix128-1303
β-strand132-140940
β-strand144-150740
β-strand156-158340
β-strand159141
β-strand161-163339
α-helix168-17811
α-helix185-19814
β-strand209-214639
α-helix219-2213
β-strand224-225242
β-strand235-237339
α-helix238-2392
α-helix240-2478
Chain C: 8 helices, 12 β-strands
ElementResiduesLengthSheet
α-helix20-3011
β-strand35-39543
β-strand43-49743
β-strand57141
β-strand66-68344
β-strand73-79744
α-helix81-10222
α-helix105-1073
α-helix108-12215
β-strand133-141944
β-strand145-151744
β-strand157-159344
β-strand160145
β-strand162-165443
α-helix169-17810
α-helix186-19813
α-helix208-2103
β-strand211-217743
β-strand228-229243
α-helix232-24211
Chain D: 9 helices, 11 β-strands
ElementResiduesLengthSheet
α-helix20-289
α-helix31-322
β-strand33-37546
β-strand42-44346
β-strand55145
β-strand64-68547
β-strand71-77747
α-helix79-10022
α-helix103-1053
α-helix106-12116
β-strand131-138847
β-strand145-150647
α-helix152-1543
β-strand156-158347
β-strand161-164446
α-helix169-17810
α-helix188-1925
β-strand213-216446
β-strand220-223446
α-helix226-24621
Chain E: 10 helices, 11 β-strands
ElementResiduesLengthSheet
α-helix22-287
α-helix30-323
β-strand37-41548
β-strand46-51648
α-helix52-532
α-helix61-633
β-strand67-71549
β-strand74-78549
α-helix87-10317
α-helix106-1083
α-helix109-12214
β-strand142-148749
β-strand152-159849
β-strand163-166449
β-strand167150
β-strand170-172348
α-helix176-18611
α-helix193-20816
β-strand217-223748
β-strand227-230448
α-helix233-24816

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

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Proteasome subunit beta type-61, Mprotein222Saccharomyces cerevisiaeP23724 (AlphaFold model)
Proteasome subunit beta type-72, Nprotein233Saccharomyces cerevisiaeP30657 (AlphaFold model)
Proteasome activator BLM103protein2143Saccharomyces cerevisiaeP43583 (AlphaFold model)
Proteasome subunit alpha type-1A, Oprotein252Saccharomyces cerevisiaeP21243 (AlphaFold model)
Proteasome subunit alpha type-2B, Pprotein250Saccharomyces cerevisiaeP23639
Proteasome subunit alpha type-3C, Qprotein258Saccharomyces cerevisiaeP23638
Proteasome subunit alpha type-4D, Rprotein254Saccharomyces cerevisiaeP40303
Proteasome subunit alpha type-5E, Sprotein260Saccharomyces cerevisiaeP32379
Proteasome subunit alpha type-6F, Tprotein234Saccharomyces cerevisiaeP40302
Probable proteasome subunit alpha type-7G, Uprotein288Saccharomyces cerevisiaeP21242
Proteasome subunit beta type-1H, Vprotein196Saccharomyces cerevisiaeP38624
Proteasome subunit beta type-2I, Wprotein232Saccharomyces cerevisiaeP25043

3 more molecules are not listed.

Sequence of entity 1 (1, M), FASTA
>9GBK_1 Proteasome subunit beta type-6 (chains 1, M)
QFNPYGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAAD
GDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKG
AVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEV
IKLVRDSFTSATERHIQVGDGLEILIVTKDGVRKEFYELKRD
Sequence of entity 2 (2, N), FASTA
>9GBK_2 Proteasome subunit beta type-7 (chains 2, N)
TQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDM
QHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQ
SNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNA
MRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDFAKDIKGYGTQKI
Sequence of entity 3 (3), FASTA
>9GBK_3 Proteasome activator BLM10 (chains 3)
MTANNDDDIKSPIPITNKTLSQLKRFERSPGRPSSSQGEIKRKKSRLYAADGRPHSPLRA
RSATPTLQDQKLFNGMDSTSLLNERLQHYTLDYVSDRAQHMKNIYDPSSRWFSRSVRPEF
PIEEFLPYKTESHEDQAKYLCHVLVNLYIAISSLDIQGLISISSKDLADLKKEVDDLALK
TDLFRLSNNTAENDLLGNDIADYDDAEGLEDELDEYFDLAGPDFNATGKITAKSATIVNV
NHWTNELKNCLHFDFPVALRKSLATVYYYLSLVQGQKVYRQMHVDMFERLVSLDDDRTNF
TELLQKQGLLLDHQIMLNFLCEFLPYPDPDYARYELSSKEDLQLFRLLLKHAHNAKPFFD
KSKESLLVDTMNFLLSSLAPSTMMAVMPIVTSVVPYHYHIHSKIIDYFPFCYSIWSSVSA
NVAIDTHMYDFVGSISKDVHNKILSSEHEKDVVGVEFGEFGIFTDDQMTFMFNRLQGHLR
TDGQIHSYSRTVKPFVYAINGSKKDRFFEKLVSLAKAIETFIHPSNNGFWTKPNAKFVHA
FIKSYHGRVKYEEDICARGVTNGICLTSFCHEEIVEIFLNIISLGSQNKNPDIANYYISC
FAYLLELDPSNAYLIYDKILIDLYDTLADQFINSRHRIISSLKQFTRVIRFIVMDKLYRV
HITNVLSMLVSKLDMNDTNLTSNLINGIVSIAAFIPIQDLTGEDDYISFESDTLPLVQQH
FYHIKCGESSKTFRVDDELLNNAFKASTTVFQSMLKVYVEKIFQLVDVDLEDSLVTKINQ
TTMILQESMDDKIFNYFASLLQRNFWSNDSFKEKDPNYELVTIPLAALVRRNNGLSKELV
RTLLFHIKEQIKRGAGSVRSTSEIQQRDVKLVLYLTALNDVLRQCHESLLEYSDELITFM
KYLYDNVTNPPLDVITSIVIHSALATLCTTEITDCRLFPEDSKIPEKDRWGGLQFDPRRF
DKQHLSFQWHVPSSDEITLSISILESLSEYCINNVEELMKAPRHDSEYGDMIQKYVLVMT
HTLSGSSLLFDPDFNKYRTQSNLSYREKLILLKNIRENNCDPQELDIDIEQIRSGKDDED
YIESKDIEAGLNAGVSDVVQLRDEFPDELIVDEEVVSEMPSGVNTPIAGTHGTDNSAMSS
DLAFRDLDIYTCNYYFGNTTEEKLQNPQYLQVHRVRARIGHFFHKLYVFLSTNFENNTNM
FQILLHGLKVWFTDLGQETVFNEDPNAFIDVDFLENVQSLSHVNEPFTRTNFAIRANSLH
QSRVLLHSTNRKASKLENLLLVDIIQLATSLYPDIYKPAQGTLVHCMKQLVGSYGVVINK
IIPSLEKAIKDHDYMKIQVILNVLLIKKIHRKLMTDYKDIGRLIFLLIECCRVNELEIGM
YADKILTDIVIGIKIPSSVCVISDQAFLPLAPPDGTINLQVEAVKLAKKKKREYYLSLLV
DLQDKLLDKLDNEKDMGWKIRMFILRFVTQIQSNLESKPDKRAVFSIISQISTKHPEIIH
LVVKSLLSTCNKIISLSDYEYDITRAYKNEFNPSFVEILDTSTTSFPKTFTEEMNNFDNP
KYFIDLRAYVGWLCWGRLMYVMSPKALKLNLRENELEVLKTAGHLLTREFLRDVTMNLVQ
DNETRGVFSSGNVSFFSLVILLISSGFCELNMSDLFELCESYYNKDDKASMIMSVEIVAG
LVCGSKFMSVSDLDKRDTFIENFLAKCLDYELNHDAFEIWSTLAWWLPAVVDLRRSKTFF
CHFINADGMFDRESDAATHQTSKIYMLRSILMSMEFRAPDVGKLFDELVFDHPYDQVRQA
VAKLLTTLVQNQSNPSISDPTTLLEAERNDPDGLGLPLKSVPEKVDAYIKKQFEIIKNLE
DSVVGLNPQQFIKTDYFYRTSTIFYWIKEMARGPNKVLLVPYLVDYVLPFLIGLVKHKDV
CALASLDPVRLYAGLGYMPIRKNHVAAIVDYVCSSNVALSSNQTKLQLAFIQHFLSAELL
QLTEEEKNKILEFVVSNLYNEQFVEVRVRAASILSDIVHNWKEEQPLLSLIERFAKGLDV
NKYTSKERQKLSKTDIKIHGNVLGLGAIISAFPYVFPLPPWIPKQLSNLSSWARTSGMTG
QAAKNTISEFKKVRADTWKFDRASFNTEELEDLEGVLWRSYYA
Sequence of entity 4 (A, O), FASTA
>9GBK_4 Proteasome subunit alpha type-1 (chains A, O)
MSGAAAASAAGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVP
DKLLDPTTVSYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKR
MANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITT
NLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAEN
IEERLVAIAEQD
Sequence of entity 5 (B, P), FASTA
>9GBK_5 Proteasome subunit alpha type-2 (chains B, P)
MTDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSET
LSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQE
ATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWN
DELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTS
QEINDRLEAL
Sequence of entity 6 (C, Q), FASTA
>9GBK_6 Proteasome subunit alpha type-3 (chains C, Q)
MGSRRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQD
TSTEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQ
GYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDY
KDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILV
KTGITKKDEDEEADEDMK
Sequence of entity 7 (D, R), FASTA
>9GBK_7 Proteasome subunit alpha type-4 (chains D, R)
MSGYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRIT
PSKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRY
TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYD
RKEPPATVEECVKLTVRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEINQYVTQIEQEK
QEQQEQDKKKKSNH
Sequence of entity 8 (E, S), FASTA
>9GBK_8 Proteasome subunit alpha type-5 (chains E, S)
MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE
SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA
LRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQ
AELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELI
KELKEKEAAESPEEADVEMS
Sequence of entity 9 (F, T), FASTA
>9GBK_9 Proteasome subunit alpha type-6 (chains F, T)
MFRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSSYQ
KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNT
QSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFI
KIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI
Sequence of entity 10 (G, U), FASTA
>9GBK_10 Probable proteasome subunit alpha type-7 (chains G, U)
MTSIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLV
PQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYV
QAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLV
DHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAI
DFAQKEINGDDDEDEDDSDNVMSSDDENAPVATNANATTDQEGDIHLE
Sequence of entity 11 (H, V), FASTA
>9GBK_11 Proteasome subunit beta type-1 (chains H, V)
TSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQ
YHLELYTSQYGTPSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGSVH
KLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTA
AGVERLIFYPDEYEQL
Sequence of entity 12 (I, W), FASTA
>9GBK_12 Proteasome subunit beta type-2 (chains I, W)
TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG
SNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAHGSTD
VGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEI
GKDAEYLRNYLTPNVREEKQKSYKFPRGTTAVLKESIVNICDIQEEQVDITA

Primary citation

Structural roles of Ump1 and beta-subunit propeptides in proteasome biogenesis. Mark, E., Ramos, P.C., Kayser, F. et al. Life Sci Alliance (2024) 7. DOI 10.26508/lsa.202402865 · PubMed

Other PDB entries of the same protein (UniProt P23724 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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