MolNFT v1 · #140712 · protein
Structural insights into periostin functions
5YJG: “Structural insights into periostin functions”. X-ray diffraction, 6 ligands (CYS, MG, CA), 5 pockets (best druggability 0.60). MolNFT v1 #140712 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5YJG
- Type
- protein
- Length
- 594 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Periostin
- UniProt
- Q15063
- Ligands
- CYS, MG, CA, NA, ZN, CL
- Pockets
- 5 · best druggability 0.60
Structure
x-ray diffraction · 1 distinct chain · 31% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Periostin | protein | 594 | 31% helix, 28% strand | Q15063 |
Ligands and binding sites
- CYS · Cysteine · ligand · chains A
- MG · Magnesium ion · metal · 8 copies · chains A
- CA · Calcium ion · metal · 6 copies · chains A
- NA · Sodium ion · metal · chains A
- ZN · Zinc ion · metal · chains A
- CL · Chloride ion · ion · 16 copies · 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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 408 | 0.60 | 0.76 | 47 | CA |
| 2 | 291 | 0.54 | 0.75 | 41 | CL |
| 3 | 84 | 0.48 | 0.82 | 24 | empty |
| 4 | 125 | 0.48 | 0.78 | 21 | empty |
| 5 | 79 | 0.32 | 0.73 | 18 | empty |
Modifications
Observed in the structure: 5 disulfide, 1 covalent (disulfide, covalent ligand).
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 5YJG · PDBe 5YJG · UniProt Q15063
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