MolNFT v1 · #134915 · protein
Atomic model for the membrane-embedded motor of a eukaryotic V-ATPase
5TJ5 · V-type proton ATPase subunit a: “Atomic model for the membrane-embedded motor of a eukaryotic V-ATPase”. Electron microscopy, 20 pockets (best druggability 0.80). MolNFT v1 #134915 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5TJ5
- Type
- protein
- Length
- 2,467 residues
- Chains
- 14
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- V-type proton ATPase subunit a; V-type proton ATPase subunit C''; V-type proton ATPase…
- UniProt
- P32563, P23968, P32842, P25515, Q3E7B6, P32366
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 10 distinct chains · 73% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | V-type proton ATPase subunit a | protein | 570 | 67% helix, 0% strand | P32563 |
| B | V-type proton ATPase subunit C'' | protein | 187 | 77% helix, 0% strand | P23968 |
| D | V-type proton ATPase subunit C' | protein | 147 | 78% helix, 0% strand | P32842 |
| E | V-type proton ATPase subunit C | protein | 138 | 83% helix, 0% strand | P25515 |
| F, H, I, J | V-type proton ATPase subunit C | protein | 150 | 80% helix, 0% strand | P25515 |
| G | V-type proton ATPase subunit C | protein | 149 | 81% helix, 0% strand | P25515 |
| L | V-type proton ATPase subunit E | protein | 57 | 51% helix, 0% strand | Q3E7B6 |
| M, N | V-type proton ATPase subunit C | protein | 148 | 81% helix, 0% strand | P25515 |
| O | V-type proton ATPase subunit F | protein | 54 | 80% helix, 0% strand | — |
| P | V-type proton ATPase subunit D | protein | 269 | 65% helix, 0% strand | P32366 |
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 | 1127 | 0.80 | 0.82 | 110 | empty |
| 2 | 1104 | 0.77 | 0.79 | 97 | empty |
| 3 | 607 | 0.75 | 0.82 | 90 | empty |
| 4 | 524 | 0.73 | 0.82 | 79 | empty |
| 5 | 666 | 0.72 | 0.79 | 77 | empty |
Interfaces
22 interfaces between chains.
- B–N · 1859 Ų buried · 5 hydrogen bonds · protein-protein
- M–N · 1450 Ų buried · 2 hydrogen bonds · protein-protein
- I–M · 1285 Ų buried · 1 hydrogen bond · protein-protein
- F–G · 1233 Ų buried · 3 hydrogen bonds · protein-protein
- G–H · 1196 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5TJ5 · Atomic model for the membrane-embedded motor of a eukaryotic V-ATPase · the same entry in another collection · chain P against P, 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 P23968
- Every structure of UniProt P32842
- Every structure of UniProt P25515
- Every structure of UniProt Q3E7B6
- Every structure of UniProt P32366
- Elsewhere: RCSB PDB 5TJ5 · PDBe 5TJ5 · UniProt P32563 · UniProt P23968 · UniProt P32842 · UniProt P25515 · UniProt Q3E7B6 · UniProt P32366
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