Research workbench
Singly pafe-capped 20S cp in mycobacterium tuberculosis
Analyse Singly pafe-capped 20S cp 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
- 6BGO
- Type
- protein
- Length
- 6,170 residues
- Chains
- 35
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Proteasome subunit alpha; Proteasome subunit beta; Bacterial proteasome activator
- EC
- 3.4.25.1
- UniProt
- A5U4D5, A5U4D6, P9WKX2
- Pockets
- 20 · best druggability 0.81
Structure
electron microscopy · 6 distinct chains · 41% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, L | Proteasome subunit alpha (EC 3.4.25.1) | protein | 218 | 41% helix, 25% strand | A5U4D5 |
| C, D, E, F, G, H, I | Proteasome subunit alpha (EC 3.4.25.1) | protein | 215 | 42% helix, 26% strand | A5U4D5 |
| J, K, M, N | Proteasome subunit alpha (EC 3.4.25.1) | protein | 219 | 41% helix, 25% strand | A5U4D5 |
| O | Proteasome subunit alpha (EC 3.4.25.1) | protein | 217 | 41% helix, 25% strand | A5U4D5 |
| 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 |
| d, e, f, g, h, i, j | Bacterial proteasome activator | protein | 4 | 0% helix, 0% strand | P9WKX2 |
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 | 812 | 0.81 | 0.84 | 50 | empty |
| 2 | 828 | 0.81 | 0.84 | 53 | empty |
| 3 | 805 | 0.81 | 0.84 | 53 | empty |
| 4 | 828 | 0.81 | 0.83 | 50 | empty |
| 5 | 741 | 0.80 | 0.84 | 45 | empty |
Interfaces
87 interfaces between chains.
- L–M · 659 Ų buried · 7 hydrogen bonds · protein-protein
- J–K · 652 Ų buried · 5 hydrogen bonds · protein-protein
- M–N · 638 Ų buried · 4 hydrogen bonds · protein-protein
- N–O · 624 Ų buried · 4 hydrogen bonds · protein-protein
- K–L · 619 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 6BGO · Singly PafE-capped 20S CP in Mycobacterium tuberculosis · the same entry in another collection · chain L against L, 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 A5U4D6
- Every structure of UniProt P9WKX2
- Elsewhere: RCSB PDB 6BGO · PDBe 6BGO · UniProt A5U4D5 · UniProt A5U4D6 · UniProt P9WKX2
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