7QO5: Proteasome subunit alpha type-1

26S proteasome Rpt1-RK -Ubp6-UbVS complex in the si state. Determined by electron microscopy at 6.0 Å resolution. Released 16 Mar 2022.

Method: Electron microscopy
Resolution: 6.0 Å
Organisms: Saccharomyces cerevisiae, Homo sapiens
Chains: 49
Atoms: 112,834
Mol. weight: 1761.62 kDa
Ligands: ATP, MG, ADP
Released: 16 Mar 2022

Explore 7QO5 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7QO5 contains 582 α-helices and 559 β-strands across 49 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: 6 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	11-16	6	121
β-strand	20-26	7	121
β-strand	29-31	3	77
β-strand	34-37	4	77
β-strand	43-45	3	122
β-strand	50-56	7	122
α-helix	58-79	22
α-helix	84-96	13
β-strand	104-111	8	122
β-strand	117-122	6	122
β-strand	129-131	3	122
β-strand	133-137	5	121
α-helix	144-150	7
α-helix	157-174	18
β-strand	175	1	74
α-helix	181	1
β-strand	182-188	7	121
β-strand	192-197	6	121
α-helix	199-204	6

Chain 2: 7 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	31-37	7	87
β-strand	40-46	7	87
β-strand	49-51	3	73
β-strand	54-57	4	73
β-strand	63-65	3	129
β-strand	71-76	6	129
α-helix	78-99	22
α-helix	102-104	3
α-helix	105-119	15
β-strand	125-133	9	129
β-strand	136-142	7	129
β-strand	148-150	3	129
β-strand	153-157	5	87
α-helix	160-170	11
α-helix	177-194	18
β-strand	202-208	7	87
β-strand	213-220	8	87
α-helix	225-228	4
β-strand	244-247	4	130
α-helix	252-254	3

Chain 3: 5 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	11-16	6	130
β-strand	20-26	7	130
β-strand	29-31	3	67
β-strand	34-37	4	67
β-strand	43-46	4	132
β-strand	49-55	7	132
α-helix	57-78	22
α-helix	81-83	3
α-helix	84-97	14
β-strand	105-113	9	132
β-strand	118-125	8	132
β-strand	128-133	6	132
β-strand	136-140	5	130
α-helix	143-153	11
α-helix	160-175	16
β-strand	178	1	65
β-strand	185-191	7	130
β-strand	195-200	6	130

Chains 4 and k: 5 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	4-8	5	133
β-strand	12-18	7	133
β-strand	21-23	3	134
β-strand	26-29	4	134
β-strand	35-39	5	135
β-strand	42-48	7	135
α-helix	52-70	19
α-helix	74-76	3
α-helix	77-93	17
β-strand	100-108	9	135
β-strand	113-119	7	135
β-strand	125-127	3	135
β-strand	130-132	3	133
α-helix	137-147	11
α-helix	154-171	18
β-strand	174	1	62
β-strand	179-185	7	133
β-strand	188-192	5	133

Chains 5 and l: 6 helices, 14 β-strands

Element	Residues	Length	Sheet
β-strand	77-82	6	136
β-strand	87-91	5	136
β-strand	95-97	3	57
β-strand	100-103	4	57
β-strand	109-113	5	137
β-strand	116-119	4	137
β-strand	121	1	137
α-helix	124-145	22
α-helix	148-150	3
α-helix	151-164	14
β-strand	173-180	8	137
β-strand	184-191	8	137
β-strand	196-199	4	137
β-strand	201-205	5	136
α-helix	208-217	10
α-helix	225-242	18
β-strand	243	1	55
β-strand	249-256	8	136
β-strand	259-267	9	136
α-helix	268-279	12

Chain 6: 5 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	19-24	6	5
β-strand	29-34	6	5
β-strand	37-39	3	6
β-strand	42-45	4	6
β-strand	52-53	2	7
β-strand	58-64	7	7
α-helix	66-85	20
α-helix	94-106	13
β-strand	115-122	8	7
β-strand	128-134	7	7
β-strand	137-142	6	7
β-strand	144-148	5	5
α-helix	151-162	12
β-strand	168	1	8
β-strand	177	1	8
α-helix	179-181	3
α-helix	185-202	18
β-strand	203	1	47
β-strand	209-216	8	5
β-strand	219-226	8	5

Chain 7: 6 helices, 14 β-strands

Element	Residues	Length	Sheet
β-strand	40-41	2	13
β-strand	44-49	6	14
β-strand	52-58	7	14
β-strand	60-63	4	13
β-strand	65-70	6	13
β-strand	75-78	4	13
β-strand	82-89	8	13
α-helix	90-108	19
α-helix	122-139	18
β-strand	145-152	8	13
β-strand	158-164	7	13
β-strand	170-171	2	13
β-strand	174-176	3	14
α-helix	178-181	4
α-helix	184-191	8
α-helix	203-220	18
β-strand	221	1	40
β-strand	228-234	7	14
β-strand	238-245	8	14
α-helix	255-257	3

Chain 8: 13 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	111	1	123
α-helix	112-113	2
α-helix	118-129	12
α-helix	131-138	8
α-helix	154-172	19
β-strand	179	1	123
α-helix	182-191	10
β-strand	198	1	124
α-helix	199	1
β-strand	205	1	124
α-helix	210-224	15
α-helix	227-230	4
β-strand	235-243	9	125
β-strand	250-253	4	125
β-strand	257-258	2	125
β-strand	261-263	3	126
β-strand	271	1	127
α-helix	272-277	6
β-strand	281-285	5	125
β-strand	296-305	10	125
β-strand	311-314	4	126
β-strand	317-320	4	128
β-strand	325-328	4	128
β-strand	334	1	127
β-strand	338-340	3	126
α-helix	342-344	3
β-strand	345	1	125
α-helix	347-375	29
α-helix	402-415	14
β-strand	429-438	10	126
β-strand	449-453	5	126
β-strand	461-465	5	126
β-strand	468-472	5	126
α-helix	474-478	5
β-strand	488-497	10	126

35 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, a	protein	252	Saccharomyces cerevisiae	P21243 (AlphaFold model)
Proteasome subunit alpha type-2	B, b	protein	250	Saccharomyces cerevisiae	P23639 (AlphaFold model)
Proteasome subunit alpha type-3	C, c	protein	258	Saccharomyces cerevisiae	P23638 (AlphaFold model)
Proteasome subunit alpha type-4	D, d	protein	254	Saccharomyces cerevisiae	P40303 (AlphaFold model)
Proteasome subunit alpha type-5	E, e	protein	260	Saccharomyces cerevisiae	P32379
Proteasome subunit alpha type-6	F, f	protein	234	Saccharomyces cerevisiae	P40302
Probable proteasome subunit alpha type-7	G, g	protein	288	Saccharomyces cerevisiae	P21242
Proteasome subunit beta type-1	1, h	protein	215	Saccharomyces cerevisiae	P38624
Proteasome subunit beta type-2	2, i	protein	261	Saccharomyces cerevisiae	P25043
Proteasome subunit beta type-3	3, j	protein	205	Saccharomyces cerevisiae	P25451
Proteasome subunit beta type-4	4, k	protein	198	Saccharomyces cerevisiae	P22141
Proteasome subunit beta type-5	5, l	protein	287	Saccharomyces cerevisiae	P30656

23 more molecules are not listed.

Sequence of entity 1 (A, a), FASTA

>7QO5_1 Proteasome subunit alpha type-1 (chains A, a)
MSGAAAASAAGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVP
DKLLDPTTVSYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKR
MANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITT
NLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAEN
IEERLVAIAEQD

Sequence of entity 2 (B, b), FASTA

>7QO5_2 Proteasome subunit alpha type-2 (chains B, b)
MTDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSET
LSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQE
ATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWN
DELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTS
QEINDRLEAL

Sequence of entity 3 (C, c), FASTA

>7QO5_3 Proteasome subunit alpha type-3 (chains C, c)
MGSRRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQD
TSTEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQ
GYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDY
KDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILV
KTGITKKDEDEEADEDMK

Sequence of entity 4 (D, d), FASTA

>7QO5_4 Proteasome subunit alpha type-4 (chains D, d)
MSGYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRIT
PSKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRY
TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYD
RKEPPATVEECVKLTVRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEINQYVTQIEQEK
QEQQEQDKKKKSNH

Sequence of entity 5 (E, e), FASTA

>7QO5_5 Proteasome subunit alpha type-5 (chains E, e)
MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE
SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA
LRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQ
AELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELI
KELKEKEAAESPEEADVEMS

Sequence of entity 6 (F, f), FASTA

>7QO5_6 Proteasome subunit alpha type-6 (chains F, f)
MFRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSSYQ
KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNT
QSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFI
KIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI

Sequence of entity 7 (G, g), FASTA

>7QO5_7 Probable proteasome subunit alpha type-7 (chains G, g)
MTSIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLV
PQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYV
QAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLV
DHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAI
DFAQKEINGDDDEDEDDSDNVMSSDDENAPVATNANATTDQEGDIHLE

Sequence of entity 8 (1, h), FASTA

>7QO5_8 Proteasome subunit beta type-1 (chains 1, h)
MNGIQVDINRLKKGEVSLGTSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKI
WCCRSGSAADTQAIADIVQYHLELYTSQYGTPSTETAASVFKELCYENKDNLTAGIIVAG
YDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQ
AIKWDGSSGGVIRMVVLTAAGVERLIFYPDEYEQL

Sequence of entity 9 (2, i), FASTA

>7QO5_9 Proteasome subunit beta type-2 (chains 2, i)
MAGLSFDNYQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNC
AKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ
GHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEA
IKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREEKQKSYKFPRGTTA
VLKESIVNICDIQEEQVDITA

Sequence of entity 10 (3, j), FASTA

>7QO5_10 Proteasome subunit beta type-3 (chains 3, j)
MSDPSSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLGITGLATDV
TTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPF
IAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDAL
SGWGAVVYIIKKDEVVKRYLKMRQD

Sequence of entity 11 (4, k), FASTA

>7QO5_11 Proteasome subunit beta type-4 (chains 4, k)
MDIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYI
QANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQID
YLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVI
VKIVDKDGIRQVDDFQAQ

Sequence of entity 12 (5, l), FASTA

>7QO5_12 Proteasome subunit beta type-5 (chains 5, l)
MQAIADSFSVPNRLVKELQYDNEQNLESDFVTGASQFQRLAPSLTVPPIASPQQFLRAHT
DDSRNPDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTM
AGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYT
RKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAA
HRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKEEEGSFNNVIG

Ligands and cofactors

ID	Name	Formula	Copies
ATP	Adenosine-5'-triphosphate	C10 H16 N5 O13 P3	5
MG	Magnesium ion	Mg	6
ADP	Adenosine-5'-diphosphate	C10 H15 N5 O10 P2	1

Primary citation

Allosteric control of Ubp6 and the proteasome via a bidirectional switch. Hung, K.Y.S., Klumpe, S., Eisele, M.R. et al. Nat Commun (2022) 13:838-838. DOI 10.1038/s41467-022-28186-y · 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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