MolNFT v1 · #117881 · protein
Triggering receptor expressed on myeloid cells 2
5ELI: “Triggering receptor expressed on myeloid cells 2”. X-ray diffraction, 1 ligand (NAG), 3 pockets (best druggability 0.37). MolNFT v1 #117881 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5ELI
- Type
- protein
- Length
- 224 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Triggering receptor expressed on myeloid cells 2
- UniProt
- Q9NZC2
- Ligands
- NAG
- Pockets
- 3 · best druggability 0.37
Structure
x-ray diffraction · 1 distinct chain · 3% helix, 55% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Triggering receptor expressed on myeloid cells 2 | protein | 112 | 3% helix, 55% strand | Q9NZC2 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 122 | 0.37 | 0.73 | 21 | NAG |
| 2 | 50 | 0.28 | 0.76 | 16 | empty |
| 3 | 50 | 0.26 | 0.74 | 10 | empty |
Interfaces
1 interface between chains.
- A–B · 433 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
- 5ELI · Triggering receptor expressed on myeloid cells 2 · the same entry in another collection · chain B against B, TM-score 1.00
- Q9NZC2 · AlphaFold monomer V2.0 prediction for triggering receptor expressed on myeloid cells 2… · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q9NZC2
- Elsewhere: RCSB PDB 5ELI · PDBe 5ELI · UniProt Q9NZC2
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