7W3J: 26S proteasome regulatory subunit 10B

Structure of USP14-bound human 26S proteasome in substrate-inhibited state SC_USP14. Determined by electron microscopy at 3.5 Å resolution. Released 4 May 2022.

Method: Electron microscopy
Resolution: 3.5 Å
Organism: Homo sapiens
Chains: 48
Atoms: 110,559
Mol. weight: 1732.87 kDa
Ligands: ZN, ADP, ATP
Released: 4 May 2022

Explore 7W3J in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7W3J contains 617 α-helices and 566 β-strands across 48 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: 22 helices, 5 β-strands

Element	Residues	Length	Sheet
α-helix	7-10	4
α-helix	18-25	8
α-helix	35-37	3
α-helix	53-66	14
α-helix	73-86	14
α-helix	90-103	14
α-helix	110-121	12
α-helix	131-139	9
α-helix	151-161	11
α-helix	171-182	12
α-helix	190-206	17
α-helix	220-223	4
α-helix	232-241	10
α-helix	247-256	10
α-helix	265-274	10
α-helix	277-283	7
β-strand	290-292	3	77
α-helix	293-299	7
α-helix	304-306	3
α-helix	307-317	11
β-strand	320	1	97
β-strand	323-325	3	77
β-strand	330-332	3	77
β-strand	335	1	97
α-helix	340-342	3
α-helix	343-345	3
α-helix	346-375	30

Chain A: 21 helices, 13 β-strands

Element	Residues	Length	Sheet
α-helix	27-35	9
α-helix	39-46	8
α-helix	51-55	5
α-helix	56-58	3
α-helix	85-89	5
β-strand	97-101	5	1
β-strand	111-114	4	1
β-strand	120-123	4	1
β-strand	125	1	1
β-strand	129	1	36
β-strand	139-142	4	1
β-strand	149-152	4	1
α-helix	159-162	4
β-strand	165	1	46
α-helix	174-177	4
α-helix	181-196	16
α-helix	200-204	5
β-strand	211-215	5	46
α-helix	222-231	10
β-strand	236-240	5	46
α-helix	242-244	3
α-helix	252-266	15
β-strand	270-274	5	46
α-helix	277-280	4
α-helix	294-306	13
β-strand	315-318	4	46
α-helix	324-326	3
α-helix	329-332	4
β-strand	339-342	4	46
α-helix	349-359	11
α-helix	371-376	6
α-helix	382-398	17
α-helix	406-415	10
α-helix	416-420	5

Chain b: 9 helices, 10 β-strands

Element	Residues	Length	Sheet
β-strand	4-9	6	101
β-strand	13	1	102
α-helix	14-17	4
α-helix	25-43	19
β-strand	48-52	5	101
β-strand	53	1	103
β-strand	59	1	103
β-strand	65	1	101
α-helix	69-74	6
β-strand	82	1	102
α-helix	89-97	9
α-helix	105	1
β-strand	106-113	8	101
α-helix	121-134	14
β-strand	137-142	6	101
α-helix	151-160	10
β-strand	171	1	101
α-helix	172-174	3
α-helix	180-183	4

Chain B: 21 helices, 16 β-strands

Element	Residues	Length	Sheet
α-helix	35-38	4
α-helix	59-81	23
α-helix	87-88	2
α-helix	97-101	5
β-strand	108-116	9	1
β-strand	120-124	5	1
β-strand	130-134	5	1
β-strand	135	1	51
β-strand	149-152	4	1
β-strand	159	1	51
β-strand	161-162	2	1
β-strand	175	1	52
α-helix	184-186	3
α-helix	191-197	7
α-helix	198-202	5
α-helix	203-206	4
α-helix	210-214	5
α-helix	217-219	3
β-strand	221-225	5	52
α-helix	232-241	10
β-strand	247-251	5	52
α-helix	252-255	4
α-helix	262-276	15
β-strand	281-285	5	52
α-helix	289-292	4
α-helix	302-317	16
β-strand	326-331	6	52
α-helix	334-336	3
β-strand	349-352	4	52
α-helix	354-356	3
α-helix	358-368	11
β-strand	374	1	53
α-helix	380-383	4
α-helix	392-408	17
β-strand	414	1	53
α-helix	416-430	15
β-strand	439	1	40

Chain c: 10 helices, 10 β-strands

Element	Residues	Length	Sheet
β-strand	31-33	3	108
α-helix	35-47	13
β-strand	54-55	2	109
β-strand	56-61	6	108
β-strand	67-73	7	108
α-helix	89-99	11
β-strand	108	1	108
β-strand	110-114	5	109
α-helix	124-136	13
β-strand	141-145	5	109
β-strand	157-160	4	109
α-helix	165-167	3
α-helix	189-192	4
β-strand	202-203	2	109
β-strand	205-207	3	108
α-helix	214-221	8
α-helix	226-228	3
α-helix	237-261	25
α-helix	267-273	7
α-helix	286-308	23

Chain C: 19 helices, 16 β-strands

Element	Residues	Length	Sheet
α-helix	13-64	52
α-helix	70	1
β-strand	71	1	1
β-strand	72-75	4	56
β-strand	76	1	1
β-strand	84	1	57
β-strand	87	1	1
β-strand	94-95	2	1
β-strand	98	1	57
β-strand	113-116	4	56
β-strand	122	1	57
β-strand	123-126	4	56
α-helix	130-132	3
α-helix	155-170	16
α-helix	173-178	6
α-helix	181-183	3
β-strand	185-189	5	58
α-helix	196-206	11
β-strand	210-212	3	58
α-helix	219-223	5
α-helix	230-233	4
α-helix	234	1
α-helix	235-239	5
β-strand	244-249	6	58
α-helix	267-280	14
β-strand	290-294	5	58
α-helix	298-300	3
β-strand	313-316	4	58
α-helix	318-320	3
α-helix	322-332	11
α-helix	345-348	4
α-helix	358-372	15
α-helix	380-390	11
α-helix	399-402	4
β-strand	405	1	26

Chain d: 11 helices, 0 β-strands

Element	Residues	Length
α-helix	16-30	15
α-helix	47-64	18
α-helix	68-82	15
α-helix	97-108	12
α-helix	112-119	8
α-helix	131-145	15
α-helix	149-154	6
α-helix	164-182	19
α-helix	193-196	4
α-helix	205-212	8
α-helix	237-253	17

Chain D: 13 helices, 11 β-strands

Element	Residues	Length	Sheet
α-helix	40-81	42
β-strand	87-97	11	1
β-strand	100-105	6	1
β-strand	111-114	4	1
β-strand	129-133	5	1
β-strand	139-141	3	1
β-strand	153	1	62
α-helix	171-186	16
α-helix	188-194	7
β-strand	201-205	5	62
α-helix	212-221	10
β-strand	227-230	4	62
α-helix	242-257	16
β-strand	261-264	4	62
α-helix	267-269	3
α-helix	282-297	16
β-strand	306-308	3	62
β-strand	329-332	4	62
α-helix	334-336	3
α-helix	338-349	12
α-helix	360-364	5
α-helix	374-388	15
α-helix	396-402	7
α-helix	403-407	5

40 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
26S proteasome regulatory subunit 10B	E	protein	403	Homo sapiens	A0A087X2I1 (AlphaFold model)
26S protease regulatory subunit 6A	F	protein	439	Homo sapiens	P17980 (AlphaFold model)
Proteasome subunit alpha type-6	G, g	protein	246	Homo sapiens	P60900 (AlphaFold model)
Proteasome subunit alpha type-2	H, h	protein	234	Homo sapiens	P25787 (AlphaFold model)
Proteasome subunit alpha type-4	I, i	protein	261	Homo sapiens	P25789
Proteasome subunit alpha type-7	J, j	protein	248	Homo sapiens	O14818
Proteasome subunit alpha type-5	K, k	protein	241	Homo sapiens	P28066
Isoform Long of Proteasome subunit alpha type-1	L, l	protein	269	Homo sapiens	P25786
Proteasome subunit alpha type-3	M, m	protein	255	Homo sapiens	P25788
Proteasome subunit beta type-6	N, n	protein	239	Homo sapiens	P28072
Proteasome subunit beta type-7	O, o	protein	277	Homo sapiens	Q99436
Proteasome subunit beta type-3	P, p	protein	205	Homo sapiens	P49720

22 more molecules are not listed.

Sequence of entity 1 (E), FASTA

>7W3J_1 26S proteasome regulatory subunit 10B (chains E)
MAIPGIPYERRLLIMADPRDKALQDYRKKLLEHKEIDGRLKELREQLKELTKQYEKSEND
LKALQSVGQIVGEVLKQLTEEKFIVKATNGPRYVVGCRRQLDKSKLKPGTRVALDMTTLT
IMRYLPREVDPLVYNMSHEDPGNVSYSEIGGLSEQIRELREVIELPLTNPELFQRVGIIP
PKGCLLYGPPGTGKTLLARAVASQLDCNFLKVVSSSIVDKYIGESARLIREMFNYARDHQ
PCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDTLHRVKMIMATNRPDTLD
PALLRPGRLDRKIHIDLPNEQARLDILKIHAGPITKHGEIDYEAIVKLSDGFNGADLRNV
CTEAGMFAIRADHDFVVQEDFMKAVRKVADSKKLESKLDYKPV

Sequence of entity 2 (F), FASTA

>7W3J_2 26S protease regulatory subunit 6A (chains F)
MNLLPNIESPVTRQEKMATVWDEAEQDGIGEEVLKMSTEEIIQRTRLLDSEIKIMKSEVL
RVTHELQAMKDKIKENSEKIKVNKTLPYLVSNVIELLDVDPNDQEEDGANIDLDSQRKGK
CAVIKTSTRQTYFLPVIGLVDAEKLKPGDLVGVNKDSYLILETLPTEYDSRVKAMEVDER
PTEQYSDIGGLDKQIQELVEAIVLPMNHKEKFENLGIQPPKGVLMYGPPGTGKTLLARAC
AAQTKATFLKLAGPQLVQMFIGDGAKLVRDAFALAKEKAPSIIFIDELDAIGTKRFDSEK
AGDREVQRTMLELLNQLDGFQPNTQVKVIAATNRVDILDPALLRSGRLDRKIEFPMPNEE
ARARIMQIHSRKMNVSPDVNYEELARCTDDFNGAQCKAVCVEAGMIALRRGATELTHEDY
MEGILEVQAKKKANLQYYA

Sequence of entity 3 (G, g), FASTA

>7W3J_3 Proteasome subunit alpha type-6 (chains G, g)
MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL
LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD
ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLE
KKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLV
ALAERD

Sequence of entity 4 (H, h), FASTA

>7W3J_4 Proteasome subunit alpha type-2 (chains H, h)
MAERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDER
SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE
YTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE
DLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAIA

Sequence of entity 5 (I, i), FASTA

>7W3J_5 Proteasome subunit alpha type-4 (chains I, i)
MSRRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVF
FSEKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQA
YTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYK
EGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKH
EEEEAKAEREKKEKEQKEKDK

Sequence of entity 6 (J, j), FASTA

>7W3J_6 Proteasome subunit alpha type-7 (chains J, j)
MSYDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVR
KICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQ
SNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEA
IETDDLTIKLVIKALLEVVQSGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKEKEENE
KKKQKKAS

Sequence of entity 7 (K, k), FASTA

>7W3J_7 Proteasome subunit alpha type-5 (chains K, k)
MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME
PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA
LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS
LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKD
I

Sequence of entity 8 (L, l), FASTA

>7W3J_8 Isoform Long of Proteasome subunit alpha type-1 (chains L, l)
MQLSKVKFRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQS
ELAAHQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGS
KTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLER
HMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLE
GLEERPQRKAQPAQPADEPAEKADEPMEH

Sequence of entity 9 (M, m), FASTA

>7W3J_9 Proteasome subunit alpha type-3 (chains M, m)
MSSIGTGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYE
EGSNKRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYV
HAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKL
QMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKYA
KESLKEEDESDDDNM

Sequence of entity 10 (N, n), FASTA

>7W3J_10 Proteasome subunit beta type-6 (chains N, n)
MAATLLAARGAGPAPAWGPEAFTPDWESREVSTGTTIMAVQFDGGVVLGADSRTTTGSYI
ANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEM
CYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREG
MTKEECLQFTANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFAVATLPPA

Sequence of entity 11 (O, o), FASTA

>7W3J_11 Proteasome subunit beta type-7 (chains O, o)
MAAVSVYAPPVGGFSFDNCRRNAVLEADFAKRGYKLPKVRKTGTTIAGVVYKDGIVLGAD
TRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVV
TANRMLKQMLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAV
FEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKGT
RLGRYRCEKGTTAVLTEKITPLEIEVLEETVQTMDTS

Sequence of entity 12 (P, p), FASTA

>7W3J_12 Proteasome subunit beta type-3 (chains P, p)
MSIMSYNGGAVMAMKGKNCVAIAADRRFGIQAQMVTTDFQKIFPMGDRLYIGLAGLATDV
QTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPF
ICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAV
SGMGVIVHIIEKDKITTRTLKARMD

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	1
ADP	Adenosine-5'-diphosphate	C10 H15 N5 O10 P2	2
ATP	Adenosine-5'-triphosphate	C10 H16 N5 O13 P3	4

Primary citation

USP14-regulated allostery of the human proteasome by time-resolved cryo-EM. Zhang, S., Zou, S., Yin, D. et al. Nature (2022) 605:567-574. DOI 10.1038/s41586-022-04671-8 · PubMed

Other PDB entries of the same protein (UniProt A0A087X2I1 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9K53 2.5 Å, Structure of substrate-engaged human 26S proteasome RP-CP subcomplex in state ED2.1
9MBP 2.75 Å, Substrate-engaged human 26S proteasome bound to midnolin with RPT1 at top of spiral…
9NKG 2.8 Å, Structure of substrate engaged MIDN-bound human 26S proteasome, EB-MIDN (Composite map)
9K4J 2.9 Å, Structure of substrate-engaged human 26S proteasome RP-CP subcomplex in state EA1.0
9NKF 2.9 Å, Structure of human substrate-free 26S proteasome in the presence of ATPgS and…
9U3L 2.91 Å, Substrate-engaged human 26S proteasome bound to midnolin with RPT2 at top of spiral…
9NKI 2.94 Å, Structure of substrate engaged MIDN-bound human 26S proteasome, EB MIDN_UBL state…
7W37 3.0 Å, Structure of USP14-bound human 26S proteasome in state EA1_UBL
7W38 3.1 Å, Structure of USP14-bound human 26S proteasome in state EA2.0_UBL
9K4R 3.1 Å, Structure of substrate-engaged human 26S proteasome RP-CP subcomplex in state EB.1
9U7R 3.17 Å, Substrate-free human 26S proteasome purified by midnolin, 20S proteasome, RPTs and RPN11…
7W39 3.2 Å, Structure of USP14-bound human 26S proteasome in state EA2.1_UBL

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