MolNFT v1 · #27256 · protein
Dimeric bovine tissue-extracted decorin, crystal form 2
1XEC: “Dimeric bovine tissue-extracted decorin, crystal form 2”. X-ray diffraction, 1 ligand (NAG), 3 pockets (best druggability 0.70). MolNFT v1 #27256 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1XEC
- Type
- protein
- Length
- 610 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Decorin
- UniProt
- P21793
- Ligands
- NAG
- Pockets
- 3 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 6% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Decorin | protein | 305 | 6% helix, 17% strand | P21793 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 7 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 547 | 0.70 | 0.79 | 68 | empty |
| 2 | 185 | 0.42 | 0.73 | 37 | empty |
| 3 | 166 | 0.40 | 0.73 | 32 | empty |
Interfaces
1 interface between chains.
- A–B · 1228 Ų buried · 20 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide, 5 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 P21793
- Elsewhere: RCSB PDB 1XEC · PDBe 1XEC · UniProt P21793
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