MolNFT v1 · #136360 · protein

Structure of yeast USB1

5UQJ · U6 snrna phosphodiesterase: “Structure of yeast USB1”. X-ray diffraction, 1 ligand (SO4), 2 pockets (best druggability 0.55). MolNFT v1 #136360 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5UQJ
Type: protein
Length: 209 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: U6 snrna phosphodiesterase
EC: 3.1.4.-
UniProt: Q12208
Ligands: SO4
Pockets: 2 · best druggability 0.55

Structure

x-ray diffraction · 1 distinct chain · 38% helix, 29% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	U6 snrna phosphodiesterase (EC 3.1.4.-)	protein	209	38% helix, 29% strand	Q12208

Ligands and binding sites

SO4 · Sulfate ion · ion · 5 copies · chains A
GOL · Glycerol · additive · chains A
ACT · Acetate ion · 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	267	0.55	0.77	31	SO4
2	56	0.45	0.83	16	SO4

Compared structures

5UQJ · Structure of yeast Usb1 · the same entry in another collection · chain A against A, TM-score 1.00
Q12208 · AlphaFold monomer V2.0 prediction for U6 snrna phosphodiesterase (Q12208) · a predicted model of the same protein · 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 Q12208
Elsewhere: RCSB PDB 5UQJ · PDBe 5UQJ · UniProt Q12208

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