MolNFT v1 · #75568 · protein

PHF2 jumonji-nog-NI(II)

3PUA · Phd finger protein 2: “PHF2 jumonji-nog-NI(II)”. X-ray diffraction, 3 ligands (OGA, NI, CL), 4 pockets (best druggability 0.77). MolNFT v1 #75568 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3PUA
Type: protein
Length: 365 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Phd finger protein 2
UniProt: O75151
Ligands: OGA, NI, CL
Pockets: 4 · best druggability 0.77

Structure

x-ray diffraction · 1 distinct chain · 41% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Phd finger protein 2	protein	365	41% helix, 22% strand	O75151

Ligands and binding sites

OGA · N-oxalylglycine · ligand · chains A
NI · Nickel (II) ion · metal · chains A
CL · Chloride ion · ion · chains A
EDO · 1,2-ethanediol · additive · 11 copies · chains 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	593	0.77	0.83	59	NI, EDO, OGA
2	96	0.51	0.83	22	CL
3	85	0.41	0.78	18	empty
4	88	0.35	0.75	20	EDO

Compared structures

3PUA · PHF2 Jumonji-NOG-Ni(II) · the same entry in another collection · chain A against A, TM-score 1.00
O75151 · AlphaFold monomer V2.0 prediction for lysine-specific demethylase PHF2 (O75151) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 O75151
Elsewhere: RCSB PDB 3PUA · PDBe 3PUA · UniProt O75151

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