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Structural insights into periostin functions

Analyse Structural insights into periostin functions in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

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.

Pocket	Volume (Å³)	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

5YJG · Structural insights into periostin functions · the same entry in another collection · chain A against A, TM-score 1.00
Q15063 · AlphaFold monomer V2.0 prediction for periostin (Q15063) · a predicted model of the same protein · chain A against A, TM-score 0.89

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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