Research workbench
3.6A yeast vo STATE3 prime
Analyse 3.6A yeast vo STATE3 prime in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6M0S
- Type
- protein
- Length
- 2,909 residues
- Chains
- 15
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- V-type proton ATPase subunit a, vacuolar isoform; V-type proton ATPase subunit E…
- UniProt
- P32563, Q3E7B6, P0C5R9, P32366, P23968, P32842, P25515, P53262
- Pockets
- 20 · best druggability 0.81
Structure
electron microscopy · 8 distinct chains · 65% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | V-type proton ATPase subunit a, vacuolar isoform | protein | 744 | 60% helix, 7% strand | P32563 |
| M | V-type proton ATPase subunit E | protein | 71 | 63% helix, 4% strand | Q3E7B6 |
| O | Uncharacterized protein YPR170W-B | protein | 69 | 80% helix, 1% strand | P0C5R9 |
| B | V-type proton ATPase subunit D | protein | 345 | 58% helix, 0% strand | P32366 |
| C | V-type proton ATPase subunit C'' | protein | 198 | 79% helix, 0% strand | P23968 |
| D | V-type proton ATPase subunit C' | protein | 158 | 80% helix, 0% strand | P32842 |
| E, F, G, H, I, J, K, L | V-type proton ATPase subunit C | protein | 159 | 76% helix, 0% strand | P25515 |
| N | V0 assembly protein 1 | protein | 52 | 42% helix, 0% strand | P53262 |
Pockets
20 pockets found on a 1 Å grid, 19 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 462 | 0.81 | 0.89 | 49 | empty |
| 2 | 471 | 0.81 | 0.88 | 47 | empty |
| 3 | 855 | 0.74 | 0.78 | 67 | empty |
| 4 | 914 | 0.74 | 0.77 | 62 | empty |
| 5 | 828 | 0.74 | 0.78 | 69 | empty |
Interfaces
31 interfaces between chains.
- A–M · 2338 Ų buried · 19 hydrogen bonds · protein-protein
- J–K · 1905 Ų buried · 3 hydrogen bonds · protein-protein
- K–L · 1896 Ų buried · 6 hydrogen bonds · protein-protein
- D–E · 1888 Ų buried · 5 hydrogen bonds · protein-protein
- F–G · 1861 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 6M0S · 3.6A Yeast Vo state3 prime · the same entry in another collection · chain N against N, 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 P32563
- Every structure of UniProt Q3E7B6
- Every structure of UniProt P0C5R9
- Every structure of UniProt P32366
- Every structure of UniProt P23968
- Every structure of UniProt P32842
- Every structure of UniProt P25515
- Every structure of UniProt P53262
- Elsewhere: RCSB PDB 6M0S · PDBe 6M0S · UniProt P32563 · UniProt Q3E7B6 · UniProt P0C5R9 · UniProt P32366 · UniProt P23968 · UniProt P32842 · UniProt P25515 · UniProt P53262
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