MolNFT v1 · #157930 · protein

Nocturnin with bound NADPH substrate

6NF0: “Nocturnin with bound NADPH substrate”. X-ray diffraction, 2 ligands (NDP, CA), 2 pockets (best druggability 0.60). MolNFT v1 #157930 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6NF0
Type: protein
Length: 298 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nocturnin
EC: 3.1.13.4
UniProt: Q9UK39
Ligands: NDP, CA
Pockets: 2 · best druggability 0.60

Structure

x-ray diffraction · 1 distinct chain · 26% helix, 36% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Nocturnin (EC 3.1.13.4)	protein	298	26% helix, 36% strand	Q9UK39

Ligands and binding sites

NDP · Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate · ligand · chains A
CA · Calcium ion · metal · 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	318	0.60	0.78	32	CA, NDP
2	50	0.30	0.77	19	empty

Compared structures

6NF0 · Nocturnin with bound NADPH substrate · the same entry in another collection · chain A against A, TM-score 1.00
Q9UK39 · AlphaFold monomer V2.0 prediction for nocturnin (Q9UK39) · 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 Q9UK39
Elsewhere: RCSB PDB 6NF0 · PDBe 6NF0 · UniProt Q9UK39

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