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Structural basis for dynamic regulation of the human 26S proteasome

Electron Microscopy
4.4Å resolution
PDB entry 5t0g coloured by chain, front view.
PDB entry 5t0g coloured by chain, side view.
PDB entry 5t0g coloured by chain, top view.
Source organism: Homo sapiens
Assembly composition:
hetero 32-mer (preferred)
Entry contents: 32 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Proteasome complex
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Multimeric state: hetero 32-mer
Accessible surface area: 442443.32 Å2
Buried surface area: 145739.79 Å2
Dissociation area: 624.06 Å2
Dissociation energy (ΔGdiss): -15.16 kcal/mol
Dissociation entropy (TΔSdiss): 16.65 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-126174

Macromolecules

Proteasome subunit alpha type-6
Chain: G
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
Pfam:
InterPro:
Proteasome subunit alpha type-6 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit alpha type-6 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit alpha type-6 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit alpha type-2
Chain: H
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
Pfam:
InterPro:
Proteasome subunit alpha type-2 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit alpha type-2 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit alpha type-2 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit alpha type-4
Chain: I
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
Pfam:
InterPro:
Proteasome subunit alpha type-4 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit alpha type-4 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit alpha type-4 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit alpha type-7
Chain: J
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
Pfam:
InterPro:
Proteasome subunit alpha type-7 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit alpha type-7 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit alpha type-7 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit alpha type-5
Chain: K
Length: 240 amino acids
Theoretical weight: 26.3 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P28066 (Residues: 2-241; Coverage: 100%)
Gene name: PSMA5
Pfam:
InterPro:
Proteasome subunit alpha type-5 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit alpha type-5 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit alpha type-5 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit alpha type-1
Chain: L
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
Pfam:
InterPro:
Proteasome subunit alpha type-1 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit alpha type-1 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit alpha type-1 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit alpha type-3
Chain: M
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
Pfam:
InterPro:
Proteasome subunit alpha type-3 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit alpha type-3 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit alpha type-3 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit beta type-6
Chain: N
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
Pfam: Proteasome subunit
InterPro:
Proteasome subunit beta type-6 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit beta type-6 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit beta type-6 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit beta type-7
Chain: O
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
Pfam:
InterPro:
Proteasome subunit beta type-7 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit beta type-7 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit beta type-7 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit beta type-3
Chain: P
Length: 204 amino acids
Theoretical weight: 22.84 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P49720 (Residues: 2-205; Coverage: 100%)
Gene name: PSMB3
Pfam: Proteasome subunit
InterPro:
Proteasome subunit beta type-3 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit beta type-3 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit beta type-3 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit beta type-2
Chain: Q
Length: 201 amino acids
Theoretical weight: 22.86 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P49721 (Residues: 1-201; Coverage: 100%)
Gene name: PSMB2
Pfam: Proteasome subunit
InterPro:
Proteasome subunit beta type-2 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit beta type-2 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit beta type-2 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit beta type-5
Chain: R
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
Pfam: Proteasome subunit
InterPro:
Proteasome subunit beta type-5 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit beta type-5 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit beta type-5 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit beta type-1
Chain: S
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
Pfam: Proteasome subunit
InterPro:
Proteasome subunit beta type-1 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit beta type-1 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit beta type-1 in PDB entry 5t0g, assembly 1, top view.
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Proteasome subunit beta type-4
Chain: T
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
Pfam: Proteasome subunit
InterPro:
Proteasome subunit beta type-4 in PDB entry 5t0g, assembly 1, front view.
Proteasome subunit beta type-4 in PDB entry 5t0g, assembly 1, side view.
Proteasome subunit beta type-4 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome regulatory subunit 7
Chain: A
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
Pfam:
InterPro:
26S proteasome regulatory subunit 7 in PDB entry 5t0g, assembly 1, front view.
26S proteasome regulatory subunit 7 in PDB entry 5t0g, assembly 1, side view.
26S proteasome regulatory subunit 7 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome regulatory subunit 4
Chain: B
Length: 440 amino acids
Theoretical weight: 49.26 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P62191 (Residues: 1-440; Coverage: 100%)
Gene name: PSMC1
Pfam:
InterPro:
26S proteasome regulatory subunit 4 in PDB entry 5t0g, assembly 1, front view.
26S proteasome regulatory subunit 4 in PDB entry 5t0g, assembly 1, side view.
26S proteasome regulatory subunit 4 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome regulatory subunit 6B
Chain: D
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
Pfam:
InterPro:
26S proteasome regulatory subunit 6B in PDB entry 5t0g, assembly 1, front view.
26S proteasome regulatory subunit 6B in PDB entry 5t0g, assembly 1, side view.
26S proteasome regulatory subunit 6B in PDB entry 5t0g, assembly 1, top view.
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26S proteasome regulatory subunit 10B
Chain: E
Length: 403 amino acids
Theoretical weight: 45.87 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P62333 (Residues: 1-389; Coverage: 100%)
Gene names: PSMC6, SUG2
Pfam:
InterPro:
26S proteasome regulatory subunit 10B in PDB entry 5t0g, assembly 1, front view.
26S proteasome regulatory subunit 10B in PDB entry 5t0g, assembly 1, side view.
26S proteasome regulatory subunit 10B in PDB entry 5t0g, assembly 1, top view.
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26S proteasome regulatory subunit 6A
Chain: F
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
Pfam:
InterPro:
26S proteasome regulatory subunit 6A in PDB entry 5t0g, assembly 1, front view.
26S proteasome regulatory subunit 6A in PDB entry 5t0g, assembly 1, side view.
26S proteasome regulatory subunit 6A in PDB entry 5t0g, assembly 1, top view.
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26S proteasome regulatory subunit 8
Chain: C
Length: 398 amino acids
Theoretical weight: 44.85 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P62195 (Residues: 9-406; Coverage: 98%)
Gene names: PSMC5, SUG1
Pfam:
InterPro:
26S proteasome regulatory subunit 8 in PDB entry 5t0g, assembly 1, front view.
26S proteasome regulatory subunit 8 in PDB entry 5t0g, assembly 1, side view.
26S proteasome regulatory subunit 8 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome non-ATPase regulatory subunit 1
Chain: U
Length: 953 amino acids
Theoretical weight: 105.96 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q99460 (Residues: 1-953; Coverage: 100%)
Gene name: PSMD1
Pfam:
InterPro:
26S proteasome non-ATPase regulatory subunit 1 in PDB entry 5t0g, assembly 1, front view.
26S proteasome non-ATPase regulatory subunit 1 in PDB entry 5t0g, assembly 1, side view.
26S proteasome non-ATPase regulatory subunit 1 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome non-ATPase regulatory subunit 3
Chain: V
Length: 533 amino acids
Theoretical weight: 60.94 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: O43242 (Residues: 2-534; Coverage: 100%)
Gene name: PSMD3
Pfam:
InterPro:
26S proteasome non-ATPase regulatory subunit 3 in PDB entry 5t0g, assembly 1, front view.
26S proteasome non-ATPase regulatory subunit 3 in PDB entry 5t0g, assembly 1, side view.
26S proteasome non-ATPase regulatory subunit 3 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome non-ATPase regulatory subunit 12
Chain: W
Length: 456 amino acids
Theoretical weight: 52.98 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: O00232 (Residues: 1-456; Coverage: 100%)
Gene name: PSMD12
Pfam:
InterPro:
26S proteasome non-ATPase regulatory subunit 12 in PDB entry 5t0g, assembly 1, front view.
26S proteasome non-ATPase regulatory subunit 12 in PDB entry 5t0g, assembly 1, side view.
26S proteasome non-ATPase regulatory subunit 12 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome non-ATPase regulatory subunit 11
Chain: X
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
Pfam:
InterPro:
26S proteasome non-ATPase regulatory subunit 11 in PDB entry 5t0g, assembly 1, front view.
26S proteasome non-ATPase regulatory subunit 11 in PDB entry 5t0g, assembly 1, side view.
26S proteasome non-ATPase regulatory subunit 11 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome non-ATPase regulatory subunit 6
Chain: Y
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
Pfam:
InterPro:
26S proteasome non-ATPase regulatory subunit 6 in PDB entry 5t0g, assembly 1, front view.
26S proteasome non-ATPase regulatory subunit 6 in PDB entry 5t0g, assembly 1, side view.
26S proteasome non-ATPase regulatory subunit 6 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome non-ATPase regulatory subunit 7
Chain: Z
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
Pfam:
InterPro:
26S proteasome non-ATPase regulatory subunit 7 in PDB entry 5t0g, assembly 1, front view.
26S proteasome non-ATPase regulatory subunit 7 in PDB entry 5t0g, assembly 1, side view.
26S proteasome non-ATPase regulatory subunit 7 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome non-ATPase regulatory subunit 13
Chain: a
Length: 376 amino acids
Theoretical weight: 43 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q9UNM6 (Residues: 1-376; Coverage: 100%)
Gene name: PSMD13
Pfam:
InterPro:
26S proteasome non-ATPase regulatory subunit 13 in PDB entry 5t0g, assembly 1, front view.
26S proteasome non-ATPase regulatory subunit 13 in PDB entry 5t0g, assembly 1, side view.
26S proteasome non-ATPase regulatory subunit 13 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome non-ATPase regulatory subunit 4
Chain: b
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
Pfam:
InterPro:
26S proteasome non-ATPase regulatory subunit 4 in PDB entry 5t0g, assembly 1, front view.
26S proteasome non-ATPase regulatory subunit 4 in PDB entry 5t0g, assembly 1, side view.
26S proteasome non-ATPase regulatory subunit 4 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome non-ATPase regulatory subunit 14
Chain: c
Length: 309 amino acids
Theoretical weight: 34.49 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: O00487 (Residues: 2-310; Coverage: 100%)
Gene names: POH1, PSMD14
Pfam: JAB1/Mov34/MPN/PAD-1 ubiquitin protease
InterPro:
26S proteasome non-ATPase regulatory subunit 14 in PDB entry 5t0g, assembly 1, front view.
26S proteasome non-ATPase regulatory subunit 14 in PDB entry 5t0g, assembly 1, side view.
26S proteasome non-ATPase regulatory subunit 14 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome non-ATPase regulatory subunit 8
Chain: d
Length: 349 amino acids
Theoretical weight: 39.54 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P48556 (Residues: 2-350; Coverage: 100%)
Gene name: PSMD8
Pfam: CSN8/PSMD8/EIF3K family
InterPro:
26S proteasome non-ATPase regulatory subunit 8 in PDB entry 5t0g, assembly 1, front view.
26S proteasome non-ATPase regulatory subunit 8 in PDB entry 5t0g, assembly 1, side view.
26S proteasome non-ATPase regulatory subunit 8 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome complex subunit SEM1
Chain: e
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
Pfam: DSS1/SEM1 family
InterPro: DSS1/SEM1
26S proteasome complex subunit SEM1 in PDB entry 5t0g, assembly 1, front view.
26S proteasome complex subunit SEM1 in PDB entry 5t0g, assembly 1, side view.
26S proteasome complex subunit SEM1 in PDB entry 5t0g, assembly 1, top view.
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26S proteasome non-ATPase regulatory subunit 2
Chain: f
Length: 749 amino acids
Theoretical weight: 82.28 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q13200 (Residues: 162-908; Coverage: 82%)
  • Best match: Q13200-2 (Residues: 1-749)
Gene names: PSMD2, TRAP2
Pfam:
InterPro:
26S proteasome non-ATPase regulatory subunit 2 in PDB entry 5t0g, assembly 1, front view.
26S proteasome non-ATPase regulatory subunit 2 in PDB entry 5t0g, assembly 1, side view.
26S proteasome non-ATPase regulatory subunit 2 in PDB entry 5t0g, assembly 1, top view.
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