MolNFT v1 · #129658 · protein
Crystal structure of a bacterial cationic amino acid transporter (cat) homologue
5OQT: “Crystal structure of a bacterial cationic amino acid transporter (cat) homologue”. X-ray diffraction, 3 ligands (ALA, CLR, CL), 4 pockets (best druggability 0.75). MolNFT v1 #129658 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5OQT
- Type
- protein
- Length
- 483 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Amino acid transporter; Uncharacterized protein ynem
- UniProt
- Q5L1G5, A5A616
- Ligands
- ALA, CLR, CL
- Pockets
- 4 · best druggability 0.75
Structure
x-ray diffraction · 2 distinct chains · 73% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Amino acid transporter | protein | 456 | 73% helix, 3% strand | Q5L1G5 |
| C | Uncharacterized protein ynem | protein | 27 | 81% helix, 0% strand | A5A616 |
Ligands and binding sites
- ALA · Alanine · ligand · chains A
- CLR · Cholesterol · ligand · chains A, C
- CL · Chloride ion · ion · chains A, C
- OLC · (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate · additive · 13 copies · chains A, C
- ACT · Acetate ion · additive · 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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 747 | 0.75 | 0.80 | 67 | OLC |
| 2 | 102 | 0.52 | 0.82 | 22 | empty |
| 3 | 137 | 0.43 | 0.75 | 23 | OLC |
| 4 | 50 | 0.32 | 0.77 | 10 | empty |
Interfaces
1 interface between chains.
- A–C · 930 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 5OQT · Crystal structure of a bacterial cationic amino acid transporter (CAT) homologue · the same entry in another collection · chain A against A, TM-score 1.00
- A5A616 · AlphaFold monomer V2.0 prediction for small protein mgts (A5A616) · a predicted model of the same protein · chain C against A, TM-score 0.81
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 Q5L1G5
- Every structure of UniProt A5A616
- Elsewhere: RCSB PDB 5OQT · PDBe 5OQT · UniProt Q5L1G5 · UniProt A5A616
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