MolNFT v1 · #34924 · protein
Structure of the bovine lactoferrin C-lobe complex with sucrose at 3.0 a resolution
2DVC · Lactotransferrin: “Structure of the bovine lactoferrin C-lobe complex with sucrose at 3.0 a resolution”. X-ray diffraction, 9 ligands (NAG, BMA, MAN), 5 pockets (best druggability 0.74). MolNFT v1 #34924 on GenesisL1: 3D structure…
- PDB
- 2DVC
- Type
- protein
- Length
- 341 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lactotransferrin
- UniProt
- P24627
- Ligands
- NAG, BMA, MAN, GLC, FRU, ZN, FE, CO3, SO4
- Pockets
- 5 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Lactotransferrin | protein | 341 | 30% helix, 19% strand | P24627 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains A
- BMA · beta-D-mannopyranose · sugar · 4 copies · chains A
- MAN · alpha-D-mannopyranose · sugar · 3 copies · chains A
- GLC · alpha-D-glucopyranose · sugar · chains A
- FRU · beta-D-fructofuranose · sugar · chains A
- ZN · Zinc ion · metal · 2 copies · chains A
- FE · Fe (III) ion · metal · chains A
- CO3 · Carbonate ion · ion · chains A
- SO4 · Sulfate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 248 | 0.74 | 0.89 | 40 | empty |
| 2 | 142 | 0.39 | 0.74 | 33 | NAG |
| 3 | 106 | 0.37 | 0.75 | 18 | empty |
| 4 | 53 | 0.28 | 0.74 | 12 | empty |
| 5 | 51 | 0.24 | 0.72 | 19 | empty |
Modifications
Observed in the structure: 10 disulfide, 3 glycan (disulfide, N-glycosylation).
Compared structures
- 2DVC · Structure of the bovine lactoferrin C-lobe complex with sucrose at 3.0 A resolution · the same entry in another collection · chain A against A, TM-score 1.00
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 P24627
- Elsewhere: RCSB PDB 2DVC · PDBe 2DVC · UniProt P24627
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.