MolNFT v1 · #120051 · protein

Cytochrome P450 vdh (CYP107BR1) F106V mutant

5GNL · Vitamin D(3) 25-hydroxylase: “Cytochrome P450 vdh (CYP107BR1) F106V mutant”. X-ray diffraction, 1 ligand (HEM), 2 pockets (best druggability 0.78). MolNFT v1 #120051 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5GNL
Type: protein
Length: 395 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Vitamin D(3) 25-hydroxylase
EC: 1.14.15.15
UniProt: C4B644
Ligands: HEM
Pockets: 2 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 50% helix, 9% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Vitamin D(3) 25-hydroxylase (EC 1.14.15.15)	protein	395	50% helix, 9% strand	C4B644

Ligands and binding sites

HEM · Protoporphyrin IX containing Fe · ligand · chains A
PG0 · 2-(2-methoxyethoxy)ethanol · additive · 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	793	0.78	0.81	75	HEM, PG0
2	110	0.46	0.79	16	empty

Compared structures

5GNL · Cytochrome P450 Vdh (CYP107BR1) F106V mutant · the same entry in another collection · chain A against A, TM-score 1.00
C4B644 · AlphaFold monomer V2.0 prediction for vitamin D(3) 25-hydroxylase (C4B644) · a predicted model of the same protein · chain A against A, TM-score 0.93

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 C4B644
Elsewhere: RCSB PDB 5GNL · PDBe 5GNL · UniProt C4B644

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