MolNFT v1 · #19777 · protein
Crystal structure of the glycosylated five-domain human BETA2- glycoprotein I purified from blood plasma
1QUB · Protein (human BETA2-glycoprotein I): “Crystal structure of the glycosylated five-domain human BETA2- glycoprotein I purified from blood plasma”. X-ray diffraction, 2 ligands (NAG, MAN), 1 pocket (best druggability 0.36). MolNFT v1…
- PDB
- 1QUB
- Type
- protein
- Length
- 319 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (human BETA2-glycoprotein I)
- UniProt
- P02749
- Ligands
- NAG, MAN
- Pockets
- 1 · best druggability 0.36
Structure
x-ray diffraction · 1 distinct chain · 2% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein (human BETA2-glycoprotein I) | protein | 319 | 2% helix, 41% strand | P02749 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains A
- MAN · alpha-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 | 53 | 0.36 | 0.80 | 17 | empty |
Modifications
Observed in the structure: 10 disulfide, 4 glycan (disulfide, N-glycosylation).
Compared structures
- 1QUB · Crystal structure of the glycosylated five-domain human BETA2-glycoprotein I purified… · the same entry in another collection · chain A against A, TM-score 1.00
- P02749 · AlphaFold monomer V2.0 prediction for beta-2-glycoprotein 1 (P02749) · a predicted model of the same protein · chain A against A, TM-score 0.90
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 P02749
- Elsewhere: RCSB PDB 1QUB · PDBe 1QUB · UniProt P02749
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