9RM1: 13S+Beta1+Beta5 proteasome precursor complex

13S+Beta1+Beta5 proteasome precursor complex. Determined by electron microscopy at 4.11 Å resolution. Released 18 Mar 2026.

Method: Electron microscopy
Resolution: 4.11 Å
Organism: Saccharomyces cerevisiae
Chains: 15
Atoms: 13,220
Mol. weight: 407.11 kDa
Released: 18 Mar 2026

Explore 9RM1 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9RM1 contains 124 α-helices and 184 β-strands across 15 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 3: 9 helices, 0 β-strands

Element	Residues	Length
α-helix	-11--8	4
α-helix	43-47	5
α-helix	54-58	5
α-helix	61-75	15
α-helix	79-94	16
α-helix	103-104	2
α-helix	105-110	6
α-helix	119-122	4
α-helix	138-146	9

Chain 4: 10 helices, 15 β-strands

Element	Residues	Length	Sheet
α-helix	10-12	3
α-helix	30-32	3
α-helix	44-46	3
β-strand	49-50	2	31
α-helix	55-60	6
α-helix	63-66	4
β-strand	72-73	2	32
β-strand	78	1	33
α-helix	96-99	4
β-strand	118	1	33
β-strand	123-124	2	32
β-strand	126-127	2	31
β-strand	130-131	2	31
α-helix	144-158	15
β-strand	164-167	4	31
β-strand	170	1	34
β-strand	180	1	31
α-helix	196-206	11
β-strand	214-216	3	31
β-strand	219	1	34
β-strand	222	1	35
β-strand	229	1	35
α-helix	232-246	15
α-helix	250-262	13
β-strand	275	1	24

Chain 5: 10 helices, 17 β-strands

Element	Residues	Length	Sheet
α-helix	11-13	3
α-helix	14-24	11
β-strand	34-35	2	36
β-strand	41	1	37
β-strand	51	1	38
β-strand	71-72	2	36
β-strand	75	1	39
β-strand	80	1	39
β-strand	83	1	36
β-strand	89	1	37
α-helix	95-100	6
α-helix	103-110	8
β-strand	131	1	40
β-strand	141-142	2	41
β-strand	144	1	42
α-helix	149-153	5
β-strand	164-165	2	43
β-strand	169-170	2	41
β-strand	176	1	40
β-strand	179-180	2	43
α-helix	184-194	11
β-strand	204	1	42
α-helix	218-230	13
α-helix	244-245	2
β-strand	246	1	38
α-helix	247-251	5
α-helix	258-261	4

Chain A: 8 helices, 17 β-strands

Element	Residues	Length	Sheet
β-strand	19	1	1
β-strand	25	1	1
α-helix	26-35	10
β-strand	42-45	4	2
β-strand	47	1	3
β-strand	53-55	3	2
β-strand	56	1	4
β-strand	79-83	5	5
α-helix	87-105	19
α-helix	111-113	3
α-helix	114-130	17
β-strand	131	1	6
β-strand	141-145	5	5
β-strand	153-154	2	5
β-strand	157	1	5
β-strand	168-171	4	2
α-helix	175-189	15
β-strand	194	1	3
α-helix	201-214	14
α-helix	217-219	3
β-strand	223	1	4
β-strand	226	1	2
β-strand	228	1	7
β-strand	233	1	7
α-helix	238-245	8

Chain B: 13 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	12	1	44
β-strand	18	1	44
α-helix	19-29	11
β-strand	37	1	45
β-strand	38	1	46
β-strand	43	1	46
β-strand	44	1	47
β-strand	48	1	48
α-helix	58-60	3
β-strand	71	1	49
α-helix	79-93	15
α-helix	94-98	5
α-helix	99-101	3
α-helix	104-106	3
α-helix	107-119	13
β-strand	127	1	6
α-helix	128-130	3
β-strand	134	1	50
β-strand	137-140	4	49
β-strand	144-148	5	49
β-strand	150	1	50
β-strand	158-159	2	49
β-strand	161	1	45
α-helix	168-178	11
α-helix	185-199	15
β-strand	209	1	48
β-strand	213-214	2	47
α-helix	219-221	3
β-strand	225	1	51
β-strand	235-236	2	47
α-helix	237-239	3
α-helix	240-248	9

Chain C: 9 helices, 13 β-strands

Element	Residues	Length	Sheet
α-helix	20-29	10
β-strand	35-38	4	52
β-strand	45-48	4	52
α-helix	59-61	3
β-strand	79	1	53
α-helix	81-102	22
α-helix	105-107	3
α-helix	108-122	15
β-strand	125	1	11
α-helix	129-131	3
β-strand	133	1	53
β-strand	140	1	54
β-strand	146	1	54
β-strand	150	1	55
β-strand	158	1	55
β-strand	162-165	4	52
α-helix	170-178	9
α-helix	186-199	14
β-strand	212-215	4	52
β-strand	218	1	56
β-strand	225	1	56
α-helix	232-242	11

Chain D: 12 helices, 9 β-strands

Element	Residues	Length	Sheet
α-helix	10-12	3
α-helix	18-29	12
β-strand	37	1	8
β-strand	42	1	8
β-strand	45-46	2	9
α-helix	49-52	4
β-strand	65-66	2	10
β-strand	72-73	2	10
α-helix	79-100	22
α-helix	103-105	3
α-helix	106-120	15
β-strand	126	1	11
α-helix	127-129	3
α-helix	138-139	2
α-helix	168-178	11
α-helix	188-202	15
β-strand	211-212	2	9
β-strand	213-216	4	8
β-strand	220-223	4	8
α-helix	226-244	19
α-helix	245-249	5

Chain E: 9 helices, 14 β-strands

Element	Residues	Length	Sheet
β-strand	15	1	12
β-strand	21	1	12
α-helix	22-32	11
β-strand	37-41	5	13
β-strand	46-51	6	13
β-strand	75	1	14
β-strand	79-80	2	15
α-helix	82-103	22
α-helix	106-108	3
α-helix	109-120	12
α-helix	121-123	3
α-helix	137-138	2
β-strand	140-141	2	15
β-strand	142	1	16
β-strand	145-148	4	14
β-strand	152-155	4	14
β-strand	158	1	16
β-strand	169-172	4	13
α-helix	176-186	11
α-helix	193-207	15
β-strand	217-223	7	13
β-strand	227-230	4	13
α-helix	233-249	17

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

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Proteasome subunit alpha type-1	A	protein	252	Saccharomyces cerevisiae	P21243 (AlphaFold model)
Proteasome subunit alpha type-4	D	protein	254	Saccharomyces cerevisiae	P40303 (AlphaFold model)
Proteasome subunit alpha type-5	E	protein	260	Saccharomyces cerevisiae	P32379 (AlphaFold model)
Proteasome subunit alpha type-6	F	protein	234	Saccharomyces cerevisiae	P40302 (AlphaFold model)
Proteasome subunit beta type-1	H	protein	215	Saccharomyces cerevisiae	P38624
Proteasome maturation factor UMP1	3	protein	162	Saccharomyces cerevisiae	P38293
Proteasome chaperone 1	4	protein	276	Saccharomyces cerevisiae	Q05778
Proteasome assembly chaperone 2	5	protein	267	Saccharomyces cerevisiae	P36040
Proteasome subunit alpha type-2	B	protein	250	Saccharomyces cerevisiae	P23639
Proteasome subunit alpha type-3	C	protein	258	Saccharomyces cerevisiae	P23638
Probable proteasome subunit alpha type-7	G	protein	288	Saccharomyces cerevisiae	P21242
Proteasome subunit beta type-2	I	protein	261	Saccharomyces cerevisiae	P25043

3 more molecules are not listed.

Sequence of entity 1 (A), FASTA

>9RM1_1 Proteasome subunit alpha type-1 (chains A)
MSGAAAASAAGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVP
DKLLDPTTVSYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKR
MANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITT
NLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAEN
IEERLVAIAEQD

Sequence of entity 2 (D), FASTA

>9RM1_2 Proteasome subunit alpha type-4 (chains D)
MSGYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRIT
PSKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRY
TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYD
RKEPPATVEECVKLTVRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEINQYVTQIEQEK
QEQQEQDKKKKSNH

Sequence of entity 3 (E), FASTA

>9RM1_3 Proteasome subunit alpha type-5 (chains E)
MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE
SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA
LRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQ
AELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELI
KELKEKEAAESPEEADVEMS

Sequence of entity 4 (F), FASTA

>9RM1_4 Proteasome subunit alpha type-6 (chains F)
MFRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSSYQ
KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNT
QSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFI
KIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI

Sequence of entity 5 (H), FASTA

>9RM1_5 Proteasome subunit beta type-1 (chains H)
MNGIQVDINRLKKGEVSLGTSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKI
WCCRSGSAADTQAIADIVQYHLELYTSQYGTPSTETAASVFKELCYENKDNLTAGIIVAG
YDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQ
AIKWDGSSGGVIRMVVLTAAGVERLIFYPDEYEQL

Sequence of entity 6 (3), FASTA

>9RM1_6 Proteasome maturation factor UMP1 (chains 3)
DYKDDDDKHHHHHHMNIVPQDTFKSQVSTDQDKSVLSSAVPSLPDTLRQQEGGAVPLSTQ
LNDRHPLESTLKNWETTQRQRQMEQYRQIFGIAEPMKRTMEMEIVNRTDFNPLSTNGSIH
RDILLNKECSIDWEDVYPGTGLQASTMVGDDVHSKIEKQLGI

Sequence of entity 7 (4), FASTA

>9RM1_7 Proteasome chaperone 1 (chains 4)
MLFKQWNDLPEPKHLLDLPEISKNLQSLEVCPVPKVEFPQDLDVPQYSTAVITTKIMNPL
FPKNLLQLTSIGEIKTTLTVKSPSLPQSSGKHSWNYDENFPNEVDPDQKNDTADETVYGF
SFPIYSFGKTLLFSMEENFISISPIFGNMISRSIISQLAQFSPDIIVIGTSDKIASMKVM
TENECTLQPPEFITGFIGSVLTQLIVGPSKGLKFKCLVAPSEGPNGFEKLSLSDMGSLVD
LCGQWLGFEPSRYSEECYRLWRCDSAAIGAQSGLYI

Sequence of entity 8 (5), FASTA

>9RM1_8 Proteasome assembly chaperone 2 (chains 5)
MSCLVLPLVSVGNIPQLSIDWLLNSQANEWEYLEALDSKYLVEFVGPLDRPEDGSDSLYK
DADMKYSSALEVFYNKKRGLFAIQQRTPLVSVNYLNNFIVEIILPFLSKYNISEICIWDS
LYAMEDENGVIVRPQEVYSLGEFYFDDEAELLSNLHLNDQESMVNNWLHFTPTSFQDKIS
VDQPIFKILFQILNASQRPKALRSIKYCSCLANEGDNSLDSQQFLQWIISQKVIKNAPPI
VKFVRPISWQGAYGMADARDKFVDLYN

Sequence of entity 9 (B), FASTA

>9RM1_9 Proteasome subunit alpha type-2 (chains B)
MTDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSET
LSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQE
ATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWN
DELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTS
QEINDRLEAL

Sequence of entity 10 (C), FASTA

>9RM1_10 Proteasome subunit alpha type-3 (chains C)
MGSRRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQD
TSTEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQ
GYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDY
KDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILV
KTGITKKDEDEEADEDMK

Sequence of entity 11 (G), FASTA

>9RM1_11 Probable proteasome subunit alpha type-7 (chains G)
MTSIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLV
PQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYV
QAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLV
DHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAI
DFAQKEINGDDDEDEDDSDNVMSSDDENAPVATNANATTDQEGDIHLE

Sequence of entity 12 (I), FASTA

>9RM1_12 Proteasome subunit beta type-2 (chains I)
MAGLSFDNYQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNC
AKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ
GHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEA
IKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREEKQKSYKFPRGTTA
VLKESIVNICDIQEEQVDITA

Primary citation

Structural transitions in the stepwise assembly of proteasome core particles. Mark, E., Ramos, P.C., Nunes, M.M. et al. Nat Commun (2026) 17. DOI 10.1038/s41467-026-70525-w · PubMed

Other PDB entries of the same protein (UniProt P21243 (AlphaFold model), which also has an AlphaFold model), best resolution first:

1RYP 1.9 Å, Crystal structure of the 20S proteasome from yeast at 2.4 Å resolution
8RVQ 2.02 Å, 20S proteasome from pre1-1
4R17 2.1 Å, Ligand-induced aziridine-formation at subunit beta5 of the yeast 20S proteasome
8RVL 2.14 Å, Proteasomal late precursor complex from pre1-1
8U7U 2.16 Å, Proteasome 20S Core Particle from Beta 3 D205 deletion
1G65 2.25 Å, Crystal structure of epoxomicin:20s proteasome reveals a molecular basis for selectivity…
8RVP 2.28 Å, Proteasomal late precursor complex from pre1-1, state 2
4QVP 2.3 Å, yCP beta5-M45T mutant in complex with bortezomib
5CZ4 2.3 Å, Yeast 20S proteasome at 2.3 A resolution
6HWE 2.3 Å, Yeast 20S proteasome beta2-G45A mutant in complex with carfilzomib
9GBK 2.39 Å, Blm10-20S proteasome complex from pre1-1
1G0U 2.4 Å, A gated channel into the proteasome core particle

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