MolNFT v1 · #144679 · protein

Crystal structure of mouse PCDH15 EC11-el

6C10 · Protocadherin-15: “Crystal structure of mouse PCDH15 EC11-el”. X-ray diffraction, 1 ligand (MAN), 2 pockets (best druggability 0.52). MolNFT v1 #144679 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6C10
Type: protein
Length: 244 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protocadherin-15
UniProt: Q99PJ1
Ligands: MAN
Pockets: 2 · best druggability 0.52

Structure

x-ray diffraction · 1 distinct chain · 25% helix, 38% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Protocadherin-15	protein	244	25% helix, 38% strand	Q99PJ1

Ligands and binding sites

MAN · alpha-D-mannopyranose · sugar · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	264	0.52	0.75	32	MAN
2	94	0.33	0.74	18	empty

Modifications

Observed in the structure: 1 glycan (O-glycosylation).

Compared structures

6C10 · Crystal structure of mouse PCDH15 EC11-EL · the same entry in another collection · chain A against A, TM-score 1.00
Q99PJ1 · AlphaFold monomer V2.0 prediction for protocadherin-15 (Q99PJ1) · a predicted model of the same protein · chain A against A, TM-score 0.86

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 Q99PJ1
Elsewhere: RCSB PDB 6C10 · PDBe 6C10 · UniProt Q99PJ1

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