6TU3: Rat 20S proteasome

Rat 20S proteasome. Determined by electron microscopy at 2.7 Å resolution. Released 13 May 2020.

Method: Electron microscopy
Resolution: 2.7 Å
Organism: Rattus norvegicus
Chains: 28
Atoms: 47,002
Mol. weight: 762.57 kDa
Released: 13 May 2020

Explore 6TU3 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6TU3 contains 190 α-helices and 410 β-strands across 28 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.

Chains a and M: 4 helices, 17 β-strands

Element	Residues	Length	Sheet
β-strand	11-16	6	87
β-strand	21-26	6	87
β-strand	29-31	3	88
β-strand	34-37	4	88
β-strand	43-47	5	89
β-strand	50-53	4	89
β-strand	56	1	90
α-helix	58-79	22
α-helix	85-98	14
β-strand	106	1	90
β-strand	109-112	4	89
β-strand	113	1	91
β-strand	119	1	91
β-strand	121-124	4	89
β-strand	130-133	4	89
β-strand	135-139	5	87
α-helix	142-152	11
α-helix	168-183	16
β-strand	186	1	40
β-strand	192-198	7	87
β-strand	204-209	6	87

Chain A: 9 helices, 12 β-strands

Element	Residues	Length	Sheet
α-helix	23-32	10
β-strand	38-43	6	1
β-strand	47-53	7	1
β-strand	61	1	2
α-helix	63-65	3
β-strand	69-73	5	3
β-strand	76-82	7	3
α-helix	84-105	22
α-helix	108-110	3
α-helix	111-125	15
β-strand	136-144	9	3
β-strand	148-154	7	3
β-strand	162	1	3
β-strand	163	1	4
β-strand	165-169	5	1
α-helix	172-180	9
α-helix	186-188	3
α-helix	194-204	11
β-strand	215-221	7	1
β-strand	228-229	2	1
α-helix	232-241	10

Chains b and N: 5 helices, 17 β-strands

Element	Residues	Length	Sheet
β-strand	7-8	2	92
β-strand	11-16	6	93
β-strand	19-25	7	93
β-strand	28-29	2	92
β-strand	33	1	38
β-strand	34-36	3	92
β-strand	42-46	5	94
β-strand	49-52	4	94
β-strand	55-56	2	92
α-helix	57-76	20
α-helix	85-101	17
β-strand	108	1	92
β-strand	110-116	7	94
β-strand	119-125	7	94
β-strand	131-133	3	94
β-strand	136-138	3	93
α-helix	142-145	4
α-helix	147-156	10
α-helix	162-179	18
β-strand	180	1	35
β-strand	187-193	7	93
β-strand	196-203	8	93

Chains B and P: 9 helices, 14 β-strands

Element	Residues	Length	Sheet
β-strand	8	1	7
α-helix	19-28	10
β-strand	34-39	6	8
β-strand	42-48	7	8
β-strand	56	1	4
α-helix	58-60	3
β-strand	65-66	2	9
β-strand	72-76	5	9
α-helix	79-100	22
α-helix	103-105	3
α-helix	106-119	14
β-strand	124	1	7
β-strand	132-138	7	9
β-strand	143-148	6	9
β-strand	154-156	3	9
β-strand	157	1	10
β-strand	159-162	4	8
α-helix	166-176	11
α-helix	183-196	14
β-strand	207-213	7	8
β-strand	216-219	4	8
α-helix	220-221	2
α-helix	222-230	9

Chains C and Q: 8 helices, 12 β-strands

Element	Residues	Length	Sheet
α-helix	19-29	11
β-strand	34-39	6	15
β-strand	42-48	7	15
β-strand	56	1	10
β-strand	67	1	16
β-strand	73-78	6	16
α-helix	80-101	22
α-helix	104-106	3
α-helix	107-120	14
β-strand	124	1	17
α-helix	128-130	3
β-strand	132-138	7	16
β-strand	146-150	5	16
β-strand	159	1	18
β-strand	161-164	4	15
α-helix	168-176	9
α-helix	186-200	15
β-strand	211-219	9	15
β-strand	222-227	6	15
α-helix	230-247	18

Chains D and R: 8 helices, 13 β-strands

Element	Residues	Length	Sheet
α-helix	17-26	10
β-strand	32-36	5	19
β-strand	40-46	7	19
β-strand	54	1	18
α-helix	56-58	3
β-strand	62-64	3	20
β-strand	69-74	6	20
α-helix	77-98	22
α-helix	101-103	3
α-helix	104-117	14
β-strand	124	1	17
β-strand	130-135	6	20
β-strand	143-147	5	20
β-strand	153-155	3	20
β-strand	156	1	21
β-strand	158-161	4	19
α-helix	165-175	11
α-helix	184-196	13
β-strand	206-212	7	19
β-strand	218-219	2	19
α-helix	222-232	11

Chains E and S: 8 helices, 15 β-strands

Element	Residues	Length	Sheet
α-helix	22-29	8
β-strand	37-41	5	22
β-strand	46-51	6	22
β-strand	59	1	21
α-helix	61-63	3
β-strand	67-71	5	23
β-strand	74-77	4	23
β-strand	79-80	2	24
α-helix	85-103	19
α-helix	109-117	9
β-strand	123	1	25
β-strand	133	1	25
β-strand	139-140	2	24
β-strand	141-145	5	23
β-strand	152-156	5	23
β-strand	162-165	4	23
β-strand	167-170	4	22
α-helix	174-184	11
α-helix	191-205	15
β-strand	215-220	6	22
β-strand	227-228	2	22
α-helix	229-230	2
α-helix	233-240	8

Chains F and T: 9 helices, 16 β-strands

Element	Residues	Length	Sheet
α-helix	20-29	10
α-helix	33-34	2
β-strand	35-39	5	26
β-strand	43-49	7	26
β-strand	58	1	23
β-strand	63-65	3	27
β-strand	70-73	4	27
β-strand	75-76	2	28
α-helix	78-99	22
α-helix	105-117	13
α-helix	118-121	4
β-strand	130-131	2	28
β-strand	132-133	2	29
β-strand	134-136	3	27
β-strand	143	1	27
β-strand	146-147	2	29
β-strand	154	1	29
β-strand	156	1	30
β-strand	158-159	2	26
α-helix	166-175	10
α-helix	176-178	3
α-helix	184-197	14
β-strand	210-216	7	26
β-strand	219-224	6	26
α-helix	230-232	3

8 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-6	A, O	protein	246	Rattus norvegicus	P60901 (AlphaFold model)
Proteasome subunit alpha type-2	B, P	protein	234	Rattus norvegicus	P17220 (AlphaFold model)
Proteasome subunit alpha type-4	C, Q	protein	261	Rattus norvegicus	P21670 (AlphaFold model)
Proteasome subunit alpha type-7	D, R	protein	254	Rattus norvegicus	P48004 (AlphaFold model)
Proteasome subunit alpha type-5	E, S	protein	241	Rattus norvegicus	P34064
Proteasome subunit alpha type-1	F, T	protein	263	Rattus norvegicus	P18420
Proteasome subunit alpha type-3	G, U	protein	255	Rattus norvegicus	P18422
Proteasome subunit beta type-6	H, V	protein	238	Rattus norvegicus	P28073
Proteasome subunit beta type-7	I, W	protein	277	Rattus norvegicus	Q9JHW0
Proteasome subunit beta type-3	J, X	protein	205	Rattus norvegicus	P40112
Proteasome subunit beta type-2	K, Y	protein	201	Rattus norvegicus	P40307
Proteasome subunit beta type-5	L, Z	protein	263	Rattus norvegicus	P28075

2 more molecules are not listed.

Sequence of entity 1 (A, O), FASTA

>6TU3_1 Proteasome subunit alpha type-6 (chains A, O)
MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL
LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD
ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLE
KKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLV
ALAERD

Sequence of entity 2 (B, P), FASTA

>6TU3_2 Proteasome subunit alpha type-2 (chains B, P)
MAERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDER
SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE
YTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE
DLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAGFRRLTPTEVRDYLAAIA

Sequence of entity 3 (C, Q), FASTA

>6TU3_3 Proteasome subunit alpha type-4 (chains C, Q)
MSRRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVF
FSEKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQA
YTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYK
EGEMTLKSALALAVKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKH
EEEEAKAEREKKEKEQREKDK

Sequence of entity 4 (D, R), FASTA

>6TU3_4 Proteasome subunit alpha type-7 (chains D, R)
MSYDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVR
KICALDDNVCMAFAVVASVSGLTADARIVINRARVECQSHRLTVGDPVTVEYITRYIASL
KQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEK
NYTDDAIETDDLTIKLVIKALLEVVQSGGKNIELAVMRRDQPLKILSPEEIEKYVAEIEK
EKEENEKKKQKKAS

Sequence of entity 5 (E, S), FASTA

>6TU3_5 Proteasome subunit alpha type-5 (chains E, S)
MFLTRSEYDRGVNTFSPEGRLFQVEYAIEGHKLGSTAIGIQTSEGVCLAVEKRITSPLME
PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA
LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS
LQEVYHKSTTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKD
I

Sequence of entity 6 (F, T), FASTA

>6TU3_6 Proteasome subunit alpha type-1 (chains F, T)
MFRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAAHQ
KKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPT
QRYGRRPYGVGLLIAGYDDMGPHVFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFM
QCNLDELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLDGLEERP
QRKAQPSQAADEPAEKADEPMEH

Sequence of entity 7 (G, U), FASTA

>6TU3_7 Proteasome subunit alpha type-3 (chains G, U)
MSSIGTGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYE
EGSNKRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYV
HAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKL
QMKEMTCRDVVKEVAKIIYIVHDEVKDKAFELELSWVGELTKGRHEIVPKDVREEAEKYA
KESLKEEDESDDDNM

Sequence of entity 8 (H, V), FASTA

>6TU3_8 Proteasome subunit beta type-6 (chains H, V)
MAAALAVRGAVSAPAFGPEALTPDWENREVSTGTTIMAVQFDGGVVLGADSRTTTGSYIA
NRVTDKLTPIHDHIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMC
YRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGM
TKDECLQFTANALALAMERDGSSGGVIRLAAIQQSGVERQVLLGDQIPKVTISTLPPP

Sequence of entity 9 (I, W), FASTA

>6TU3_9 Proteasome subunit beta type-7 (chains I, W)
MAAVSVFQAPVGGFSFDNCRRNAVLEADFAKKGFKLPKARKTGTTIAGVVYKDGIVLGAD
TRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLTTGRLPRVV
TANRMLKQMLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAV
FEDKFRPDMEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGT
RFGRYRCEKGTTAVLTEKVTPLELEVLEEIVQTMDTS

Sequence of entity 10 (J, X), FASTA

>6TU3_10 Proteasome subunit beta type-3 (chains J, X)
MSVMSYNGGAVMAMKGKNCVAIAADRRFGIQAQMVTTDFQKIFPMGDRLYIGLAGLATDV
QTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPF
ICSLDLIGCPMVTDDFVVSGTCSEQMYGMCESLWEPNMDPEHLFETISQAMLNAVDRDAV
SGMGVIVHIIEKDKITTRTLKARMD

Sequence of entity 11 (K, Y), FASTA

>6TU3_11 Proteasome subunit beta type-2 (chains K, Y)
MEYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYI
QKNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDY
LAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSV
RVIDKDGIHNLENITFTKRSS

Sequence of entity 12 (L, Z), FASTA

>6TU3_12 Proteasome subunit beta type-5 (chains L, Z)
MALASVLQRPMPVNQHGFFGLGGRADLLDLGPGSPGDGLSLAAPSWGVPEEPRIEMLHGT
TTLAFKFQHGVIVAADSRATAGPYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR
QCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRI
SGTAFSVGSGSVYAFGVMDRGYSYDLQVEEAYDLARRAIYQATYRDAYSGGAVNLYHVRE
DGWIRVSSDNVADLHDKYTSSIP

Primary citation

Comparative Structural Analysis of 20S Proteasome Ortholog Protein Complexes by Native Mass Spectrometry. Vimer, S., Ben-Nissan, G., Morgenstern, D. et al. ACS Cent Sci (2020) 6:573-588. DOI 10.1021/acscentsci.0c00080 · PubMed

Other PDB entries of the same protein (UniProt P60901 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6EPF 11.8 Å, Ground state 26S proteasome (GS1)
6EPC 12.3 Å, Ground state 26S proteasome (GS2)
6EPE 12.8 Å, Substrate processing state 26S proteasome (SPS2)
6EPD 15.4 Å, Substrate processing state 26S proteasome (SPS1)

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