MolNFT v1 · #140713 · protein
Structural insights into periostin functions
5YJH: “Structural insights into periostin functions”. X-ray diffraction, 5 ligands (MG, CA, NA), 6 pockets (best druggability 0.55). MolNFT v1 #140713 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5YJH
- Type
- protein
- Length
- 594 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Periostin
- UniProt
- Q15063
- Ligands
- MG, CA, NA, ZN, CL
- Pockets
- 6 · best druggability 0.55
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Periostin | protein | 594 | 30% helix, 27% strand | Q15063 |
Ligands and binding sites
- MG · Magnesium ion · metal · 9 copies · chains A
- CA · Calcium ion · metal · 3 copies · chains A
- NA · Sodium ion · metal · chains A
- ZN · Zinc ion · metal · chains A
- CL · Chloride ion · ion · 18 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 281 | 0.55 | 0.76 | 38 | CL, MG |
| 2 | 268 | 0.51 | 0.74 | 29 | empty |
| 3 | 77 | 0.51 | 0.84 | 25 | empty |
| 4 | 108 | 0.47 | 0.79 | 21 | empty |
| 5 | 138 | 0.45 | 0.76 | 22 | CA |
Modifications
Observed in the structure: 5 disulfide (disulfide).
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 Q15063
- Elsewhere: RCSB PDB 5YJH · PDBe 5YJH · UniProt Q15063
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