MolNFT v1 · #158896 · protein
Saccharomyces cerevisiae V-ATPase STV1-vo
6O7U · V-type proton ATPase subunit a, golgi isoform: “Saccharomyces cerevisiae V-ATPase STV1-vo”. Electron microscopy, 20 pockets (best druggability 0.79). MolNFT v1 #158896 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6O7U
- Type
- protein
- Length
- 2,832 residues
- Chains
- 15
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- V-type proton ATPase subunit a, golgi isoform; V0 assembly protein 1; V-type proton…
- UniProt
- P37296, P53262, P23968, P32366, Q3E7B6, P0C5R9, P25515, P32842
- Pockets
- 20 · best druggability 0.79
Structure
electron microscopy · 12 distinct chains · 68% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| a | V-type proton ATPase subunit a, golgi isoform | protein | 713 | 59% helix, 6% strand | P37296 |
| b | V0 assembly protein 1 | protein | 44 | 59% helix, 0% strand | P53262 |
| c | V-type proton ATPase subunit C'' | protein | 197 | 81% helix, 0% strand | P23968 |
| d | V-type proton ATPase subunit D | protein | 343 | 56% helix, 0% strand | P32366 |
| e | V-type proton ATPase subunit E | protein | 64 | 66% helix, 3% strand | Q3E7B6 |
| f | Putative protein YPR170W-B | protein | 61 | 70% helix, 0% strand | P0C5R9 |
| g | V-type proton ATPase subunit C | protein | 153 | 80% helix, 0% strand | P25515 |
| h, i, l | V-type proton ATPase subunit C | protein | 157 | 77% helix, 0% strand | P25515 |
| j | V-type proton ATPase subunit C | protein | 156 | 75% helix, 0% strand | P25515 |
| k | V-type proton ATPase subunit C | protein | 158 | 76% helix, 0% strand | P25515 |
| m, n | V-type proton ATPase subunit C | protein | 158 | 74% helix, 0% strand | P25515 |
| o | V-type proton ATPase subunit C' | protein | 156 | 78% helix, 0% strand | P32842 |
Pockets
20 pockets found on a 1 Å grid, 15 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1182 | 0.79 | 0.80 | 84 | empty |
| 2 | 827 | 0.77 | 0.81 | 62 | empty |
| 3 | 624 | 0.77 | 0.82 | 49 | empty |
| 4 | 1077 | 0.77 | 0.79 | 92 | empty |
| 5 | 608 | 0.75 | 0.82 | 56 | empty |
Interfaces
32 interfaces between chains.
- a–e · 2203 Ų buried · 21 hydrogen bonds · protein-protein
- n–o · 1870 Ų buried · 5 hydrogen bonds · protein-protein
- k–l · 1859 Ų buried · 6 hydrogen bonds · protein-protein
- j–k · 1855 Ų buried · 4 hydrogen bonds · protein-protein
- c–o · 1854 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 6O7U · Saccharomyces cerevisiae V-ATPase Stv1-VO · the same entry in another collection · chain i against i, 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 P37296
- Every structure of UniProt P53262
- Every structure of UniProt P23968
- Every structure of UniProt P32366
- Every structure of UniProt Q3E7B6
- Every structure of UniProt P0C5R9
- Every structure of UniProt P25515
- Every structure of UniProt P32842
- Elsewhere: RCSB PDB 6O7U · PDBe 6O7U · UniProt P37296 · UniProt P53262 · UniProt P23968 · UniProt P32366 · UniProt Q3E7B6 · UniProt P0C5R9 · UniProt P25515 · UniProt P32842
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