MolNFT v1 · #79685 · protein
Crystal structure of C-lobe of bovine lactoferrin complexed with nabumetone at 1.7A resolution
3TAJ · Lactotransferrin: “Crystal structure of C-lobe of bovine lactoferrin complexed with nabumetone at 1.7A resolution”. X-ray diffraction, 6 ligands (NBO, NAG, ZN), 5 pockets (best druggability 0.72). MolNFT v1 #79685 on GenesisL1: 3D…
- PDB
- 3TAJ
- Type
- protein
- Length
- 341 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lactotransferrin
- EC
- 3.4.21.-
- UniProt
- P24627
- Ligands
- NBO, NAG, ZN, FE, CO3, SO4
- Pockets
- 5 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Lactotransferrin (EC 3.4.21.-) | protein | 341 | 33% helix, 18% strand | P24627 |
Ligands and binding sites
- NBO · nabumetone · ligand · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 5 copies · 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 | 188 | 0.72 | 0.89 | 37 | empty |
| 2 | 94 | 0.39 | 0.76 | 22 | empty |
| 3 | 56 | 0.29 | 0.75 | 11 | empty |
| 4 | 67 | 0.28 | 0.73 | 18 | NBO |
| 5 | 65 | 0.28 | 0.73 | 18 | NAG |
Modifications
Observed in the structure: 10 disulfide, 3 glycan (disulfide, N-glycosylation).
Compared structures
- 3TAJ · Crystal structure of C-lobe of bovine lactoferrin complexed with Nabumetone at 1.7A… · 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 3TAJ · PDBe 3TAJ · UniProt P24627
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