MolNFT v1 · #179814 · protein
Crystal structure of sodium-coupled neutral amino acid transporter SLC38A9 in the N-terminal plugged form
7KGV · Sodium-coupled neutral amino acid transporter 9: “Crystal structure of sodium-coupled neutral amino acid transporter SLC38A9 in the N-terminal plugged form”. X-ray diffraction, 20 pockets (best druggability 0.69). MolNFT v1 #179814…
- PDB
- 7KGV
- Type
- protein
- Length
- 1,628 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sodium-coupled neutral amino acid transporter 9; Monoclonal antibody Fab heavy chain…
- UniProt
- Q08BA4
- Pockets
- 20 · best druggability 0.69
Structure
x-ray diffraction · 5 distinct chains · 38% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sodium-coupled neutral amino acid transporter 9 | protein | 361 | 68% helix, 0% strand | Q08BA4 |
| B | Sodium-coupled neutral amino acid transporter 9 | protein | 404 | 63% helix, 0% strand | Q08BA4 |
| C | Monoclonal antibody Fab heavy chain | protein | 217 | 7% helix, 51% strand | — |
| D | Monoclonal antibody Fab heavy chain | protein | 216 | 7% helix, 51% strand | — |
| E, F | Monoclonal antibody Fab light chain | protein | 215 | 5% helix, 52% strand | — |
Pockets
20 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 577 | 0.69 | 0.78 | 48 | empty |
| 2 | 581 | 0.67 | 0.77 | 47 | empty |
| 3 | 336 | 0.64 | 0.80 | 29 | empty |
| 4 | 398 | 0.59 | 0.76 | 49 | empty |
| 5 | 62 | 0.58 | 0.89 | 20 | empty |
Interfaces
7 interfaces between chains.
- D–F · 1890 Ų buried · 16 hydrogen bonds · protein-protein
- C–E · 1849 Ų buried · 16 hydrogen bonds · protein-protein
- B–C · 639 Ų buried · 6 hydrogen bonds · protein-protein
- A–D · 610 Ų buried · 6 hydrogen bonds · protein-protein
- C–D · 447 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 7KGV · Crystal structure of sodium-coupled neutral amino acid transporter SLC38A9 in the… · the same entry in another collection · chain A against A, TM-score 1.00
- Q08BA4 · AlphaFold monomer V2.0 prediction for sodium-coupled neutral amino acid transporter 9… · a predicted model of the same protein · chain A against A, TM-score 0.97
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 Q08BA4
- Elsewhere: RCSB PDB 7KGV · PDBe 7KGV · UniProt Q08BA4
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