MolNFT v1 · #144581 · protein

Crystal structure of pig protocadherin-15 EC10-MAD12

6BXZ · Protocadherin related 15: “Crystal structure of pig protocadherin-15 EC10-MAD12”. X-ray diffraction, 1 ligand (CA), 4 pockets (best druggability 0.80). MolNFT v1 #144581 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6BXZ
Type: protein
Length: 651 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protocadherin related 15
UniProt: F1SD06
Ligands: CA
Pockets: 4 · best druggability 0.80

Structure

x-ray diffraction · 2 distinct chains · 18% helix, 42% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
C	Protocadherin related 15	protein	334	18% helix, 42% strand	F1SD06
A	Protocadherin related 15	protein	317	19% helix, 42% strand	F1SD06

Ligands and binding sites

CA · Calcium ion · metal · 6 copies · chains C, A

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

Pockets

4 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	1059	0.80	0.81	83	empty
2	149	0.54	0.81	22	empty
3	193	0.48	0.76	20	empty
4	72	0.31	0.74	15	empty

Interfaces

1 interface between chains.

C–A · 1287 Å² buried · 22 hydrogen bonds · protein-protein

Compared structures

6BXZ · Crystal Structure of Pig Protocadherin-15 EC10-MAD12 · the same entry in another collection · chain A against A, TM-score 1.00

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 F1SD06
Elsewhere: RCSB PDB 6BXZ · PDBe 6BXZ · UniProt F1SD06

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