Research workbench
Doubly pafe-capped 20S core particle in mycobacterium tuberculosis
Analyse Doubly pafe-capped 20S core particle in mycobacterium tuberculosis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6BGL
- Type
- protein
- Length
- 6,174 residues
- Chains
- 42
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Proteasome subunit alpha; Bacterial proteasome activator; Proteasome subunit beta
- EC
- 3.4.25.1
- UniProt
- A5U4D5, P9WKX2, A5U4D6
- Pockets
- 20 · best druggability 0.81
Structure
electron microscopy · 3 distinct chains · 41% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, D, E, F, G, H, I, J, K, L, M, N, O | Proteasome subunit alpha (EC 3.4.25.1) | protein | 215 | 42% helix, 26% strand | A5U4D5 |
| B, d, e, f, g, h, i, j, k, l, m, n, o, p | Bacterial proteasome activator | protein | 4 | 0% helix, 25% strand | P9WKX2 |
| P, Q, R, S, T, U, V, W, X, Y, Z, a, b, c | Proteasome subunit beta (EC 3.4.25.1) | protein | 222 | 41% helix, 29% strand | A5U4D6 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 764 | 0.81 | 0.84 | 51 | empty |
| 2 | 801 | 0.81 | 0.84 | 50 | empty |
| 3 | 822 | 0.81 | 0.84 | 51 | empty |
| 4 | 784 | 0.81 | 0.84 | 46 | empty |
| 5 | 816 | 0.81 | 0.83 | 52 | empty |
Interfaces
98 interfaces between chains.
- V–W · 585 Ų buried · 7 hydrogen bonds · protein-protein
- U–X · 575 Ų buried · 6 hydrogen bonds · protein-protein
- P–c · 569 Ų buried · 6 hydrogen bonds · protein-protein
- R–a · 568 Ų buried · 6 hydrogen bonds · protein-protein
- S–Z · 564 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 6BGL · Doubly PafE-capped 20S core particle in Mycobacterium tuberculosis · the same entry in another collection · chain K against K, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt A5U4D5
- Every structure of UniProt P9WKX2
- Every structure of UniProt A5U4D6
- Elsewhere: RCSB PDB 6BGL · PDBe 6BGL · UniProt A5U4D5 · UniProt P9WKX2 · UniProt A5U4D6
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