› 6ode

X-ray diffraction
2.9Å resolution

Crystal Structure of Mycobacterium tuberculosis Proteasome in Complex with Phenylimidazole-based Inhibitor B6

Released:
DOI: 10.2210/pdb6ode/pdb
PDB entry 6ode coloured by chain, front view.
PDB entry 6ode coloured by chain, side view.
PDB entry 6ode coloured by chain, top view.
Source organism: Mycobacterium tuberculosis H37Rv
Primary publication:
Selective Phenylimidazole-Based Inhibitors of the Mycobacterium tuberculosis Proteasome.
Zhan W, Hsu HC, Morgan T, Ouellette T, Burns-Huang K, Hara R, Wright AG, Imaeda T, Okamoto R, Sato K, Michino M, Ramjee M, Aso K, Meinke PT, Foley M, Nathan CF, Li H, Lin G
J Med Chem 62 9246-9253 (2019)
PMID: 31560200

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 28-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-161585 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Proteasome subunit alpha Chains: A, B, C, D, E, F, G, O, P, Q, R, S, T, U
Molecule details ›
Chains: A, B, C, D, E, F, G, O, P, Q, R, S, T, U
Length: 240 amino acids
Theoretical weight: 25.97 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli
UniProt:
  • Canonical: P9WHU1 (Residues: 10-248; Coverage: 96%)
Gene names: Rv2109c, prcA
Sequence domains: Proteasome subunit
Proteasome subunit beta Chains: H, I, J, K, L, M, N, V, W, X, Y, Z, a, b
Molecule details ›
Chains: H, I, J, K, L, M, N, V, W, X, Y, Z, a, b
Length: 234 amino acids
Theoretical weight: 24.45 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli
UniProt:
  • Canonical: P9WHT9 (Residues: 58-291; Coverage: 80%)
Gene names: Rv2110c, prcB
Sequence domains: Proteasome subunit

Ligands and Environments

1 bound ligand:
Ligand M9G 14 x M9G
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 31-ID
Spacegroup: P21
Unit cell:
a: 120.603Å b: 198.38Å c: 166.513Å
α: 90° β: 103.1° γ: 90°
R-values:
R R work R free
0.199 0.197 0.247
Expression system: Escherichia coli

Quick links

Citations

7 review citations

Proteasome Inhibitors: Harnessing Proteostasis to Combat Disease.
Sherman et al. (2020)
6 more

2 mentions without citation

Selective Phenylimidazole-Based Inhibitors of the Mycobacterium tuberculosis Proteasome.
Zhan et al. (2019)
1 more