MolNFT v1 · #152740 · protein
Human LAT1-4F2HC complex incubated with JPH203
6IRS · 4F2 cell-surface antigen heavy chain: “Human LAT1-4F2HC complex incubated with JPH203”. Electron microscopy, 2 ligands (3PH, NAG), 14 pockets (best druggability 0.78). MolNFT v1 #152740 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6IRS
- Type
- protein
- Length
- 926 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 4F2 cell-surface antigen heavy chain; Large neutral amino acids transporter small subunit…
- UniProt
- J3KPF3, Q01650
- Ligands
- 3PH, NAG
- Pockets
- 14 · best druggability 0.78
Structure
electron microscopy · 2 distinct chains · 51% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 4F2 cell-surface antigen heavy chain | protein | 469 | 33% helix, 14% strand | J3KPF3 |
| B | Large neutral amino acids transporter small subunit 1 | protein | 457 | 68% helix, 0% strand | Q01650 |
Ligands and binding sites
- 3PH · 1,2-diacyl-glycerol-3-sn-phosphate · ligand · 2 copies · chains A, B
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 8 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 661 | 0.78 | 0.83 | 59 | empty |
| 2 | 317 | 0.62 | 0.78 | 21 | 3PH |
| 3 | 619 | 0.62 | 0.74 | 55 | empty |
| 4 | 174 | 0.60 | 0.83 | 40 | empty |
| 5 | 231 | 0.59 | 0.80 | 38 | empty |
Interfaces
1 interface between chains.
- A–B · 1477 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 glycan, 1 disulfide (N-glycosylation, disulfide).
Compared structures
- 6IRS · human LAT1-4F2hc complex incubated with JPH203 · the same entry in another collection · chain A against A, TM-score 1.00
- Q01650 · AlphaFold monomer V2.0 prediction for large neutral amino acids transporter small subunit… · a predicted model of the same protein · chain B against A, TM-score 0.96
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 J3KPF3
- Every structure of UniProt Q01650
- Elsewhere: RCSB PDB 6IRS · PDBe 6IRS · UniProt J3KPF3 · UniProt Q01650
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