7LS6: Proteasome subunit alpha type-1

Cryo-EM structure of Pre-15S proteasome core particle assembly intermediate purified from Pre3-1 proteasome mutant (G34D). Determined by electron microscopy at 3.17 Å resolution. Released 14 Apr 2021.

Method: Electron microscopy
Resolution: 3.17 Å
Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Chains: 15
Atoms: 25,097
Mol. weight: 408.62 kDa
Released: 14 Apr 2021

Explore 7LS6 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7LS6 contains 144 α-helices and 179 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 A: 10 helices, 12 β-strands

Element	Residues	Length	Sheet
α-helix	12-14	3
α-helix	26-34	9
β-strand	42-46	5	1
β-strand	50-56	7	1
β-strand	64	1	2
β-strand	72-74	3	3
β-strand	79-84	6	3
α-helix	87-108	22
α-helix	111-113	3
α-helix	114-130	17
β-strand	131	1	4
β-strand	140-147	8	3
β-strand	151-157	7	3
β-strand	163-166	4	3
β-strand	168-171	4	1
α-helix	175-189	15
α-helix	199-214	16
α-helix	220-222	3
β-strand	223-229	7	1
β-strand	233-236	4	1
α-helix	237	1
α-helix	238-250	13

Chain B: 16 helices, 16 β-strands

Element	Residues	Length	Sheet
β-strand	12	1	5
β-strand	18	1	5
α-helix	19-29	11
α-helix	32-33	2
β-strand	34-39	6	6
β-strand	42-48	7	6
β-strand	56	1	3
α-helix	58-60	3
β-strand	65-68	4	7
β-strand	71-77	7	7
α-helix	79-92	14
α-helix	93-98	6
α-helix	99-101	3
α-helix	104-106	3
α-helix	107-120	14
α-helix	121-123	3
β-strand	127	1	4
α-helix	128-130	3
β-strand	132-138	7	7
β-strand	146-150	5	7
β-strand	156-158	3	7
β-strand	159	1	8
β-strand	161-164	4	6
α-helix	168-178	11
α-helix	185-198	14
β-strand	209-214	6	6
α-helix	219-221	3
β-strand	224-225	2	9
α-helix	231-233	3
β-strand	235-237	3	6
α-helix	238-239	2
α-helix	240-248	9

Chain C: 10 helices, 13 β-strands

Element	Residues	Length	Sheet
α-helix	20-29	10
α-helix	33-34	2
β-strand	35-40	6	10
β-strand	43-49	7	10
β-strand	57	1	8
β-strand	66-70	5	11
β-strand	73-79	7	11
α-helix	81-102	22
α-helix	105-107	3
α-helix	108-124	17
β-strand	125	1	12
α-helix	129-131	3
β-strand	133-141	9	11
β-strand	145-151	7	11
β-strand	157-159	3	11
β-strand	160	1	13
β-strand	162-165	4	10
α-helix	169-179	11
α-helix	186-200	15
α-helix	208-210	3
β-strand	211-217	7	10
β-strand	226-229	4	10
α-helix	232-241	10

Chain D: 9 helices, 15 β-strands

Element	Residues	Length	Sheet
α-helix	18-27	10
α-helix	31-32	2
β-strand	33-37	5	14
β-strand	42-47	6	14
β-strand	55	1	13
β-strand	65-66	2	15
β-strand	71-74	4	15
β-strand	77	1	16
α-helix	79-99	21
α-helix	103-105	3
α-helix	106-119	14
β-strand	126	1	12
β-strand	131	1	16
β-strand	134-138	5	15
β-strand	145-150	6	15
β-strand	156-158	3	15
β-strand	159	1	17
β-strand	161-164	4	14
α-helix	168-176	9
α-helix	188-200	13
α-helix	207-209	3
β-strand	210-216	7	14
β-strand	220-223	4	14
α-helix	227-237	11

Chain E: 14 helices, 12 β-strands

Element	Residues	Length	Sheet
α-helix	14-16	3
α-helix	17-19	3
α-helix	22-33	12
α-helix	35-36	2
β-strand	37-42	6	18
β-strand	45-51	7	18
β-strand	59	1	17
α-helix	61-63	3
β-strand	67-71	5	19
β-strand	74-80	7	19
α-helix	82-103	22
α-helix	106-108	3
α-helix	109-120	12
α-helix	121-123	3
α-helix	130-132	3
β-strand	140-146	7	19
β-strand	154-158	5	19
β-strand	164-166	3	19
β-strand	167	1	20
β-strand	169-172	4	18
α-helix	176-186	11
α-helix	193-207	15
β-strand	217-222	6	18
β-strand	229-230	2	18
α-helix	231-232	2
α-helix	233-247	15

Chain F: 13 helices, 14 β-strands

Element	Residues	Length	Sheet
α-helix	3-6	4
α-helix	20-27	8
α-helix	28-31	4
α-helix	33-34	2
β-strand	35-39	5	21
β-strand	43-49	7	21
β-strand	57	1	20
α-helix	58-60	3
β-strand	63-67	5	22
β-strand	70-76	7	22
β-strand	77	1	23
α-helix	78-98	21
α-helix	102-104	3
α-helix	105-118	14
β-strand	122	1	24
β-strand	130-138	9	22
β-strand	141-148	8	22
β-strand	152-155	4	22
β-strand	156	1	25
β-strand	158-161	4	21
α-helix	165-174	10
α-helix	176-179	4
α-helix	180-182	3
α-helix	186-198	13
β-strand	211-217	7	21
β-strand	223-226	4	21
α-helix	227-230	4

Chain G: 10 helices, 13 β-strands

Element	Residues	Length	Sheet
α-helix	22-31	10
α-helix	35-36	2
β-strand	37-41	5	26
β-strand	45-53	9	26
β-strand	59	1	25
β-strand	68-71	4	27
β-strand	74-80	7	27
α-helix	82-103	22
α-helix	106-108	3
α-helix	109-122	14
β-strand	129	1	24
α-helix	130-132	3
β-strand	134-142	9	27
β-strand	145-151	7	27
β-strand	157-159	3	27
β-strand	160	1	2
β-strand	162-165	4	26
α-helix	170-182	13
α-helix	189-204	16
α-helix	205-207	3
β-strand	212-220	9	26
β-strand	229-230	2	26
α-helix	234-244	11

Chain H: 9 helices, 0 β-strands

Element	Residues	Length
α-helix	41	1
α-helix	43	1
α-helix	44-47	4
α-helix	54-57	4
α-helix	60-76	17
α-helix	79-94	16
α-helix	105-110	6
α-helix	119-122	4
α-helix	138-146	9

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 (strain ATCC 204508 / S288c)	P21243 (AlphaFold model)
Proteasome subunit alpha type-2	B	protein	250	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	P23639 (AlphaFold model)
Proteasome subunit alpha type-3	C	protein	258	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	P23638 (AlphaFold model)
Proteasome subunit alpha type-4	D	protein	254	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	P40303 (AlphaFold model)
Proteasome subunit alpha type-5	E	protein	260	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	P32379
Proteasome subunit alpha type-6	F	protein	234	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	P40302
Proteasome subunit alpha type-7	G	protein	288	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	P21242
Proteasome maturation factor UMP1	H	protein	148	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	P38293
Proteasome subunit beta type-2	I	protein	261	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	P25043
Proteasome subunit beta type-3	J	protein	205	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	P25451
Proteasome subunit beta type-4	K	protein	198	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	P22141
Proteasome chaperone 1	O	protein	276	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	Q05778

3 more molecules are not listed.

Sequence of entity 1 (A), FASTA

>7LS6_1 Proteasome subunit alpha type-1 (chains A)
MSGAAAASAAGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVP
DKLLDPTTVSYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKR
MANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITT
NLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAEN
IEERLVAIAEQD

Sequence of entity 2 (B), FASTA

>7LS6_2 Proteasome subunit alpha type-2 (chains B)
MTDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSET
LSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQE
ATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWN
DELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTS
QEINDRLEAL

Sequence of entity 3 (C), FASTA

>7LS6_3 Proteasome subunit alpha type-3 (chains C)
MGSRRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQD
TSTEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQ
GYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDY
KDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILV
KTGITKKDEDEEADEDMK

Sequence of entity 4 (D), FASTA

>7LS6_4 Proteasome subunit alpha type-4 (chains D)
MSGYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRIT
PSKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRY
TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYD
RKEPPATVEECVKLTVRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEINQYVTQIEQEK
QEQQEQDKKKKSNH

Sequence of entity 5 (E), FASTA

>7LS6_5 Proteasome subunit alpha type-5 (chains E)
MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE
SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA
LRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQ
AELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELI
KELKEKEAAESPEEADVEMS

Sequence of entity 6 (F), FASTA

>7LS6_6 Proteasome subunit alpha type-6 (chains F)
MFRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSSYQ
KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNT
QSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFI
KIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI

Sequence of entity 7 (G), FASTA

>7LS6_7 Proteasome subunit alpha type-7 (chains G)
MTSIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLV
PQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYV
QAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLV
DHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAI
DFAQKEINGDDDEDEDDSDNVMSSDDENAPVATNANATTDQEGDIHLE

Sequence of entity 8 (H), FASTA

>7LS6_8 Proteasome maturation factor UMP1 (chains H)
MNIVPQDTFKSQVSTDQDKSVLSSAVPSLPDTLRQQEGGAVPLSTQLNDRHPLESTLKNW
ETTQRQRQMEQYRQIFGIAEPMKRTMEMEIVNRTDFNPLSTNGSIHRDILLNKECSIDWE
DVYPGTGLQASTMVGDDVHSKIEKQLGI

Sequence of entity 9 (I), FASTA

>7LS6_9 Proteasome subunit beta type-2 (chains I)
MAGLSFDNYQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNC
AKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ
GHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEA
IKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREEKQKSYKFPRGTTA
VLKESIVNICDIQEEQVDITA

Sequence of entity 10 (J), FASTA

>7LS6_10 Proteasome subunit beta type-3 (chains J)
MSDPSSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLGITGLATDV
TTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPF
IAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDAL
SGWGAVVYIIKKDEVVKRYLKMRQD

Sequence of entity 11 (K), FASTA

>7LS6_11 Proteasome subunit beta type-4 (chains K)
MDIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYI
QANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQID
YLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVI
VKIVDKDGIRQVDDFQAQ

Sequence of entity 12 (O), FASTA

>7LS6_12 Proteasome chaperone 1 (chains O)
MLFKQWNDLPEPKHLLDLPEISKNLQSLEVCPVPKVEFPQDLDVPQYSTAVITTKIMNPL
FPKNLLQLTSIGEIKTTLTVKSPSLPQSSGKHSWNYDENFPNEVDPDQKNDTADETVYGF
SFPIYSFGKTLLFSMEENFISISPIFGNMISRSIISQLAQFSPDIIVIGTSDKIASMKVM
TENECTLQPPEFITGFIGSVLTQLIVGPSKGLKFKCLVAPSEGPNGFEKLSLSDMGSLVD
LCGQWLGFEPSRYSEECYRLWRCDSAAIGAQSGLYI

Primary citation

Structures of chaperone-associated assembly intermediates reveal coordinated mechanisms of proteasome biogenesis. Schnell, H.M., Walsh Jr., R.M., Rawson, S. et al. Nat Struct Mol Biol (2021) 28:418-425. DOI 10.1038/s41594-021-00583-9 · 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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