Research workbench
Mycobacterium smegmatis ATP synthase fo domain state 1
Analyse Mycobacterium smegmatis ATP synthase fo domain state 1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7NK9
- Type
- protein
- Length
- 1,225 residues
- Chains
- 14
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ATP synthase gamma chain; ATP synthase epsilon chain; ATP synthase subunit C; ATP…
- UniProt
- A0R201, A0R1Z9, A0R205, A0R206, A0R204, A0R203
- Pockets
- 11 · best druggability 0.86
Structure
electron microscopy · 7 distinct chains · 71% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| G | ATP synthase gamma chain | protein | 30 | 40% helix, 7% strand | A0R201 |
| H | ATP synthase epsilon chain | protein | 79 | 13% helix, 46% strand | A0R1Z9 |
| L, M, N, P, R, S, T | ATP synthase subunit C | protein | 84 | 88% helix, 0% strand | A0R205 |
| O, Q | ATP synthase subunit C | protein | 85 | 88% helix, 0% strand | A0R205 |
| a | ATP synthase subunit a | protein | 238 | 72% helix, 5% strand | A0R206 |
| b | ATP synthase subunit B | protein | 61 | 84% helix, 0% strand | A0R204 |
| d | ATP synthase subunit B-delta | protein | 59 | 97% helix, 0% strand | A0R203 |
Pockets
11 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 953 | 0.86 | 0.87 | 67 | empty |
| 2 | 99 | 0.74 | 0.96 | 22 | empty |
| 3 | 274 | 0.72 | 0.85 | 23 | empty |
| 4 | 212 | 0.71 | 0.88 | 33 | empty |
| 5 | 118 | 0.58 | 0.85 | 29 | empty |
Interfaces
30 interfaces between chains.
- a–b · 1745 Ų buried · 8 hydrogen bonds · protein-protein
- L–T · 1731 Ų buried · 6 hydrogen bonds · protein-protein
- M–N · 1686 Ų buried · 9 hydrogen bonds · protein-protein
- O–P · 1683 Ų buried · 14 hydrogen bonds · protein-protein
- L–M · 1683 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 7NK9 · Mycobacterium smegmatis ATP synthase Fo domain state 1 · the same entry in another collection · chain d against d, 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 A0R201
- Every structure of UniProt A0R1Z9
- Every structure of UniProt A0R205
- Every structure of UniProt A0R206
- Every structure of UniProt A0R204
- Every structure of UniProt A0R203
- Elsewhere: RCSB PDB 7NK9 · PDBe 7NK9 · UniProt A0R201 · UniProt A0R1Z9 · UniProt A0R205 · UniProt A0R206 · UniProt A0R204 · UniProt A0R203
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