› 5t0c

Electron Microscopy
3.8Å resolution

Structural basis for dynamic regulation of the human 26S proteasome

Released:
DOI: 10.2210/pdb5t0c/pdb
PDB entry 5t0c coloured by chain, front view.
PDB entry 5t0c coloured by chain, side view.
PDB entry 5t0c coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for dynamic regulation of the human 26S proteasome.
Chen S, Wu J, Lu Y, Ma YB, Lee BH, Yu Z, Ouyang Q, Finley DJ, Kirschner MW, Mao Y
Proc Natl Acad Sci U S A 113 12991-12996 (2016)
PMID: 27791164
Related structures: EMD-8332, EMD-8333

Function and Biology Details

Reaction catalysed: 
Cleavage of peptide bonds with very broad specificity.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 64-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-126191 (preferred)
Entry contents:
32 distinct polypeptide molecules
Macromolecules (32 distinct):
26S proteasome non-ATPase regulatory subunit 1 Chains: AU, BU
Molecule details ›
Chains: AU, BU
Length: 953 amino acids
Theoretical weight: 105.96 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q99460 (Residues: 1-953; Coverage: 100%)
Gene name: PSMD1
Sequence domains:
26S proteasome non-ATPase regulatory subunit 3 Chains: AV, BV
Molecule details ›
Chains: AV, BV
Length: 533 amino acids
Theoretical weight: 60.94 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: O43242 (Residues: 2-534; Coverage: 100%)
Gene name: PSMD3
Sequence domains:
26S proteasome non-ATPase regulatory subunit 12 Chains: AW, BW
Molecule details ›
Chains: AW, BW
Length: 456 amino acids
Theoretical weight: 52.98 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: O00232 (Residues: 1-456; Coverage: 100%)
Gene name: PSMD12
Sequence domains:
26S proteasome non-ATPase regulatory subunit 11 Chains: AX, BX
Molecule details ›
Chains: AX, BX
Length: 422 amino acids
Theoretical weight: 47.53 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: O00231 (Residues: 1-422; Coverage: 100%)
  • Best match: O00231-2 (Residues: 1-423)
Gene name: PSMD11
Sequence domains:
26S proteasome non-ATPase regulatory subunit 6 Chains: AY, BY
Molecule details ›
Chains: AY, BY
Length: 389 amino acids
Theoretical weight: 45.59 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q15008 (Residues: 1-389; Coverage: 100%)
Gene names: KIAA0107, PFAAP4, PSMD6
Sequence domains:
26S proteasome non-ATPase regulatory subunit 7 Chains: AZ, BZ
Molecule details ›
Chains: AZ, BZ
Length: 324 amino acids
Theoretical weight: 37.09 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P51665 (Residues: 1-324; Coverage: 100%)
Gene names: MOV34L, PSMD7
Sequence domains:
26S proteasome non-ATPase regulatory subunit 13 Chains: Aa, Ba
Molecule details ›
Chains: Aa, Ba
Length: 376 amino acids
Theoretical weight: 43 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q9UNM6 (Residues: 1-376; Coverage: 100%)
Gene name: PSMD13
Sequence domains:
26S proteasome non-ATPase regulatory subunit 4 Chains: Ab, Bb
Molecule details ›
Chains: Ab, Bb
Length: 377 amino acids
Theoretical weight: 40.78 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P55036 (Residues: 1-377; Coverage: 100%)
Gene names: MCB1, PSMD4
Sequence domains:
26S proteasome non-ATPase regulatory subunit 14 Chains: Ac, Bc
Molecule details ›
Chains: Ac, Bc
Length: 310 amino acids
Theoretical weight: 34.62 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: O00487 (Residues: 1-310; Coverage: 100%)
Gene names: POH1, PSMD14
Sequence domains: JAB1/Mov34/MPN/PAD-1 ubiquitin protease
26S proteasome non-ATPase regulatory subunit 8 Chains: Ad, Bd
Molecule details ›
Chains: Ad, Bd
Length: 257 amino acids
Theoretical weight: 30.04 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P48556 (Residues: 94-350; Coverage: 73%)
Gene name: PSMD8
Sequence domains: CSN8/PSMD8/EIF3K family
26S proteasome complex subunit SEM1 Chains: Ae, Be
Molecule details ›
Chains: Ae, Be
Length: 70 amino acids
Theoretical weight: 8.28 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P60896 (Residues: 1-70; Coverage: 100%)
Gene names: C7orf76, DSS1, SEM1, SHFDG1, SHFM1
Sequence domains: DSS1/SEM1 family
26S proteasome non-ATPase regulatory subunit 2 Chains: Af, Bf
Molecule details ›
Chains: Af, Bf
Length: 908 amino acids
Theoretical weight: 100.31 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q13200 (Residues: 1-908; Coverage: 100%)
Gene names: PSMD2, TRAP2
Sequence domains:
26S proteasome regulatory subunit 7 Chains: AA, BA
Molecule details ›
Chains: AA, BA
Length: 433 amino acids
Theoretical weight: 48.7 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P35998 (Residues: 1-433; Coverage: 100%)
Gene names: MSS1, PSMC2
Sequence domains:
26S proteasome regulatory subunit 4 Chains: AB, BB
Molecule details ›
Chains: AB, BB
Length: 440 amino acids
Theoretical weight: 49.26 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P62191 (Residues: 1-440; Coverage: 100%)
Gene name: PSMC1
Sequence domains:
26S proteasome regulatory subunit 6B Chains: AD, BD
Molecule details ›
Chains: AD, BD
Length: 418 amino acids
Theoretical weight: 47.43 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P43686 (Residues: 1-418; Coverage: 100%)
Gene names: MIP224, PSMC4, TBP7
Sequence domains:
26S proteasome regulatory subunit 10B Chains: AE, BE
Molecule details ›
Chains: AE, BE
Length: 389 amino acids
Theoretical weight: 44.24 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P62333 (Residues: 1-389; Coverage: 100%)
Gene names: PSMC6, SUG2
Sequence domains:
26S proteasome regulatory subunit 6A Chains: AF, BF
Molecule details ›
Chains: AF, BF
Length: 439 amino acids
Theoretical weight: 49.27 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P17980 (Residues: 1-439; Coverage: 100%)
Gene names: PSMC3, TBP1
Sequence domains:
26S proteasome regulatory subunit 8 Chains: AC, BC
Molecule details ›
Chains: AC, BC
Length: 406 amino acids
Theoretical weight: 45.69 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P62195 (Residues: 1-406; Coverage: 100%)
Gene names: PSMC5, SUG1
Sequence domains:
Proteasome subunit alpha type-6 Chains: AG, BG
Molecule details ›
Chains: AG, BG
Length: 245 amino acids
Theoretical weight: 27.3 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P60900 (Residues: 2-246; Coverage: 100%)
Gene names: PROS27, PSMA6
Sequence domains:
Proteasome subunit alpha type-2 Chains: AH, BH
Molecule details ›
Chains: AH, BH
Length: 233 amino acids
Theoretical weight: 25.8 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P25787 (Residues: 2-234; Coverage: 100%)
Gene names: HC3, PSC3, PSMA2
Sequence domains:
Proteasome subunit alpha type-4 Chains: AI, BI
Molecule details ›
Chains: AI, BI
Length: 260 amino acids
Theoretical weight: 29.39 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P25789 (Residues: 2-261; Coverage: 100%)
Gene names: HC9, PSC9, PSMA4
Sequence domains:
Proteasome subunit alpha type-7 Chains: AJ, BJ
Molecule details ›
Chains: AJ, BJ
Length: 247 amino acids
Theoretical weight: 27.8 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: O14818 (Residues: 2-248; Coverage: 100%)
Gene names: HSPC, PSMA7
Sequence domains:
Proteasome subunit alpha type-5 Chains: AK, BK
Molecule details ›
Chains: AK, BK
Length: 240 amino acids
Theoretical weight: 26.3 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P28066 (Residues: 2-241; Coverage: 100%)
Gene name: PSMA5
Sequence domains:
Proteasome subunit alpha type-1 Chains: AL, BL
Molecule details ›
Chains: AL, BL
Length: 268 amino acids
Theoretical weight: 30.15 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P25786 (Residues: 2-263; Coverage: 100%)
  • Best match: P25786-2 (Residues: 2-269)
Gene names: HC2, NU, PROS30, PSC2, PSMA1
Sequence domains:
Proteasome subunit alpha type-3 Chains: AM, BM
Molecule details ›
Chains: AM, BM
Length: 254 amino acids
Theoretical weight: 28.34 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P25788 (Residues: 2-255; Coverage: 100%)
Gene names: HC8, PSC8, PSMA3
Sequence domains:
Proteasome subunit beta type-6 Chains: AN, BN
Molecule details ›
Chains: AN, BN
Length: 238 amino acids
Theoretical weight: 25.25 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P28072 (Residues: 2-239; Coverage: 100%)
Gene names: LMPY, PSMB6, Y
Sequence domains: Proteasome subunit
Proteasome subunit beta type-7 Chains: AO, BO
Molecule details ›
Chains: AO, BO
Length: 276 amino acids
Theoretical weight: 29.87 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q99436 (Residues: 2-277; Coverage: 100%)
Gene names: PSMB7, Z
Sequence domains:
Proteasome subunit beta type-3 Chains: AP, BP
Molecule details ›
Chains: AP, BP
Length: 204 amino acids
Theoretical weight: 22.84 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P49720 (Residues: 2-205; Coverage: 100%)
Gene name: PSMB3
Sequence domains: Proteasome subunit
Proteasome subunit beta type-2 Chains: AQ, BQ
Molecule details ›
Chains: AQ, BQ
Length: 201 amino acids
Theoretical weight: 22.86 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P49721 (Residues: 1-201; Coverage: 100%)
Gene name: PSMB2
Sequence domains: Proteasome subunit
Proteasome subunit beta type-5 Chains: AR, BR
Molecule details ›
Chains: AR, BR
Length: 262 amino acids
Theoretical weight: 28.38 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P28074 (Residues: 2-263; Coverage: 100%)
Gene names: LMPX, MB1, PSMB5, X
Sequence domains: Proteasome subunit
Proteasome subunit beta type-1 Chains: AS, BS
Molecule details ›
Chains: AS, BS
Length: 240 amino acids
Theoretical weight: 26.39 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P20618 (Residues: 2-241; Coverage: 100%)
Gene names: PSC5, PSMB1
Sequence domains: Proteasome subunit
Proteasome subunit beta type-4 Chains: AT, BT
Molecule details ›
Chains: AT, BT
Length: 263 amino acids
Theoretical weight: 29.1 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P28070 (Residues: 2-264; Coverage: 100%)
Gene names: PROS26, PSMB4
Sequence domains: Proteasome subunit

Ligands and Environments

3 bound ligands:
Ligand ZN 2 x ZN
Ligand ATP 8 x ATP
Ligand ADP 4 x ADP
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.8Å
Relevant EMDB volumes: EMD-8332, EMD-8333

Quick links

Citations

38 review citations

The Logic of the 26S Proteasome.
Collins et al. (2017)
37 more

5 mentions without citation

Functional Differences between Proteasome Subtypes.
Abi Habib et al. (2022)
4 more