MolNFT v1 · #87680 · protein

Mouse ZNRF3 ectodomain crystal form IV

4C8F · E3 ubiquitin-protein ligase ZNRF3: “Mouse ZNRF3 ectodomain crystal form IV”. X-ray diffraction, 12 pockets (best druggability 0.84). MolNFT v1 #87680 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4C8F
Type: protein
Length: 549 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: E3 ubiquitin-protein ligase ZNRF3
EC: 6.3.2.-
UniProt: Q5SSZ7
Pockets: 12 · best druggability 0.84

Structure

x-ray diffraction · 3 distinct chains · 21% helix, 37% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, D	E3 ubiquitin-protein ligase ZNRF3 (EC 6.3.2.-)	protein	137	21% helix, 36% strand	Q5SSZ7
B	E3 ubiquitin-protein ligase ZNRF3 (EC 6.3.2.-)	protein	136	22% helix, 35% strand	Q5SSZ7
C	E3 ubiquitin-protein ligase ZNRF3 (EC 6.3.2.-)	protein	139	19% helix, 40% strand	Q5SSZ7

Pockets

12 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	287	0.84	0.95	40	empty
2	100	0.56	0.85	16	empty
3	153	0.54	0.80	29	empty
4	110	0.46	0.79	25	empty
5	94	0.42	0.78	26	empty

Interfaces

6 interfaces between chains.

A–D · 1153 Å² buried · 13 hydrogen bonds · protein-protein
B–C · 1106 Å² buried · 13 hydrogen bonds · protein-protein
A–C · 459 Å² buried · 13 hydrogen bonds · protein-protein
B–D · 451 Å² buried · 10 hydrogen bonds · protein-protein
C–D · 317 Å² buried · 6 hydrogen bonds · protein-protein

Compared structures

4C8F · mouse ZNRF3 ectodomain crystal form IV · the same entry in another collection · chain A against A, TM-score 1.00
Q5SSZ7 · AlphaFold monomer V2.0 prediction for E3 ubiquitin-protein ligase ZNRF3 (Q5SSZ7) · a predicted model of the same protein · chain B against A, TM-score 0.97

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 Q5SSZ7
Elsewhere: RCSB PDB 4C8F · PDBe 4C8F · UniProt Q5SSZ7

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.