MolNFT v1 · #155781 · protein
Heteromeric amino acid transporter B0,+AT-rbat complex
6LID · Neutral and basic amino acid transport protein rbat: “Heteromeric amino acid transporter B0,+AT-rbat complex”. Electron microscopy, 3 ligands (3PH, NAG, CA), 20 pockets (best druggability 0.78). MolNFT v1 #155781 on GenesisL1: 3D…
- PDB
- 6LID
- Type
- protein
- Length
- 2,162 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Neutral and basic amino acid transport protein rbat; B(0,+)-type amino acid transporter 1
- UniProt
- Q07837, P82251
- Ligands
- 3PH, NAG, CA
- Pockets
- 20 · best druggability 0.78
Structure
electron microscopy · 2 distinct chains · 46% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Neutral and basic amino acid transport protein rbat | protein | 623 | 30% helix, 19% strand | Q07837 |
| B, D | B(0,+)-type amino acid transporter 1 | protein | 458 | 67% helix, 1% strand | P82251 |
Ligands and binding sites
- 3PH · 1,2-diacyl-glycerol-3-sn-phosphate · ligand · 4 copies · chains A, B, C, D
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 20 copies · chains A, C
- CA · Calcium ion · metal · 2 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 850 | 0.78 | 0.81 | 72 | empty |
| 2 | 586 | 0.78 | 0.84 | 59 | empty |
| 3 | 535 | 0.76 | 0.84 | 46 | empty |
| 4 | 895 | 0.75 | 0.79 | 91 | empty |
| 5 | 1167 | 0.74 | 0.77 | 89 | empty |
Interfaces
4 interfaces between chains.
- C–D · 1577 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 1568 Ų buried · 9 hydrogen bonds · protein-protein
- A–C · 958 Ų buried · 11 hydrogen bonds · protein-protein
- B–D · 55 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 glycan, 4 disulfide (N-glycosylation, disulfide).
Compared structures
- 6LID · Heteromeric amino acid transporter b0,+AT-rBAT complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q07837 · AlphaFold monomer V2.0 prediction for neutral and basic amino acid transport protein rbat… · a predicted model of the same protein · chain A against A, TM-score 0.96
- P82251 · AlphaFold monomer V2.0 prediction for B(0,+)-type amino acid transporter 1 (P82251) · a predicted model of the same protein · chain D against A, TM-score 0.92
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 Q07837
- Every structure of UniProt P82251
- Elsewhere: RCSB PDB 6LID · PDBe 6LID · UniProt Q07837 · UniProt P82251
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