MolNFT v1 · #56145 · protein
Crystal structure of the TV3 hybrid of human TLR4 and hagfish VLRB.61
2Z62 · Toll-like receptor 4, variable lymphocyte receptor B: “Crystal structure of the TV3 hybrid of human TLR4 and hagfish VLRB.61”. X-ray diffraction, 3 ligands (NAG, FUL, BMA), 1 pocket (best druggability 0.37). MolNFT v1 #56145 on…
- PDB
- 2Z62
- Type
- protein
- Length
- 276 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Toll-like receptor 4, variable lymphocyte receptor B
- UniProt
- O00206, Q4G1L2
- Ligands
- NAG, FUL, BMA
- Pockets
- 1 · best druggability 0.37
Structure
x-ray diffraction · 1 distinct chain · 10% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Toll-like receptor 4, variable lymphocyte receptor B | protein | 276 | 10% helix, 19% strand | O00206, Q4G1L2 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains A
- FUL · beta-L-fucopyranose · sugar · 2 copies · chains A
- BMA · beta-D-mannopyranose · sugar
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 54 | 0.37 | 0.80 | 16 | empty |
Modifications
Observed in the structure: 3 disulfide, 3 glycan (disulfide, N-glycosylation).
Compared structures
- 2Z62 · Crystal structure of the TV3 hybrid of human TLR4 and hagfish VLRB.61 · the same entry in another collection · chain A against A, TM-score 1.00
- O00206 · AlphaFold monomer V2.0 prediction for toll-like receptor 4 (O00206) · a predicted model of the same protein · chain A against A, TM-score 0.89
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 O00206
- Every structure of UniProt Q4G1L2
- Elsewhere: RCSB PDB 2Z62 · PDBe 2Z62 · UniProt O00206 · UniProt Q4G1L2
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