MolNFT v1 · #38442 · protein
TIE2 ligand-binding domain crystal structure
2GY5 · Angiopoietin-1 receptor: “TIE2 ligand-binding domain crystal structure”. X-ray diffraction, 3 ligands (NDG, NAG, SO4), 7 pockets (best druggability 0.71). MolNFT v1 #38442 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 2GY5
- Type
- protein
- Length
- 423 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Angiopoietin-1 receptor
- EC
- 2.7.10.1
- UniProt
- Q02763
- Ligands
- NDG, NAG, SO4
- Pockets
- 7 · best druggability 0.71
Structure
x-ray diffraction · 1 distinct chain · 4% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Angiopoietin-1 receptor (EC 2.7.10.1) | protein | 423 | 4% helix, 42% strand | Q02763 |
Ligands and binding sites
- NDG · 2-acetamido-2-deoxy-alpha-D-glucopyranose · sugar · 4 copies · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
- SO4 · Sulfate ion · ion · 4 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 494 | 0.71 | 0.81 | 45 | SO4 |
| 2 | 125 | 0.51 | 0.81 | 26 | empty |
| 3 | 67 | 0.49 | 0.84 | 16 | empty |
| 4 | 165 | 0.49 | 0.77 | 24 | empty |
| 5 | 123 | 0.48 | 0.79 | 22 | empty |
Modifications
Observed in the structure: 14 disulfide, 1 glycan (disulfide, N-glycosylation).
Compared structures
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 Q02763
- Elsewhere: RCSB PDB 2GY5 · PDBe 2GY5 · UniProt Q02763
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