MolNFT v1 · #118600 · protein
Human T-cell immunoglobulin and mucin domain protein 3 (htim-3)
5F71 · Hepatitis a virus cellular receptor 2: “Human T-cell immunoglobulin and mucin domain protein 3 (htim-3)”. X-ray diffraction, 1 ligand (NA), 3 pockets (best druggability 0.59). MolNFT v1 #118600 on GenesisL1: 3D structure, binding…
- PDB
- 5F71
- Type
- protein
- Length
- 218 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hepatitis a virus cellular receptor 2
- UniProt
- Q8TDQ0
- Ligands
- NA
- Pockets
- 3 · best druggability 0.59
Structure
x-ray diffraction · 1 distinct chain · 8% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Hepatitis a virus cellular receptor 2 | protein | 109 | 8% helix, 36% strand | Q8TDQ0 |
Ligands and binding sites
- NA · Sodium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 341 | 0.59 | 0.77 | 53 | empty |
| 2 | 76 | 0.37 | 0.78 | 14 | empty |
| 3 | 60 | 0.31 | 0.76 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 697 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 5F71 · Human T-cell immunoglobulin and mucin domain protein 3 (hTIM-3) · the same entry in another collection · chain A against A, TM-score 1.00
- Q8TDQ0 · AlphaFold monomer V2.0 prediction for hepatitis a virus cellular receptor 2 (Q8TDQ0) · a predicted model of the same protein · chain A against A, TM-score 0.86
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 Q8TDQ0
- Elsewhere: RCSB PDB 5F71 · PDBe 5F71 · UniProt Q8TDQ0
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