MolNFT v1 · #140497 · protein
Crystal structure of a mate family protein derived from camelina sativa at 2.3 ångström
5YCK · Multi drug efflux transporter: “Crystal structure of a mate family protein derived from camelina sativa at 2.3 ångström”. X-ray diffraction, 1 ligand (RB), 4 pockets (best druggability 0.84). MolNFT v1 #140497 on GenesisL1: 3D…
- PDB
- 5YCK
- Type
- protein
- Length
- 450 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Multi drug efflux transporter
- Ligands
- RB
- Pockets
- 4 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 86% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Multi drug efflux transporter | protein | 450 | 86% helix, 0% strand | — |
Ligands and binding sites
- RB · Rubidium ion · metal · 2 copies · chains A
- OLC · (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate · additive · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1032 | 0.84 | 0.84 | 81 | RB |
| 2 | 58 | 0.44 | 0.83 | 16 | empty |
| 3 | 82 | 0.38 | 0.76 | 10 | empty |
| 4 | 87 | 0.32 | 0.73 | 14 | OLC |
Compared structures
- 5YCK · Crystal structure of a MATE family protein derived from Camelina sativa at 2.3 angstrom · the same entry in another collection · chain A against A, 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
- Elsewhere: RCSB PDB 5YCK · PDBe 5YCK
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