MolNFT v1 · #152465 · protein

Crystal structure of an uncharacterized protein

6III · UPF0061 protein ydiu: “Crystal structure of an uncharacterized protein”. X-ray diffraction, 3 ligands (2PN, AMP, MG), 4 pockets (best druggability 0.65). MolNFT v1 #152465 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 6III
Type: protein
Length: 460 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: UPF0061 protein ydiu
UniProt: A0A024L327
Ligands: 2PN, AMP, MG
Pockets: 4 · best druggability 0.65

Structure

x-ray diffraction · 1 distinct chain · 45% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	UPF0061 protein ydiu	protein	460	45% helix, 16% strand	A0A024L327

Ligands and binding sites

2PN · Imidodiphosphoric acid · ligand · chains A
AMP · Adenosine monophosphate · ligand · chains A
MG · Magnesium ion · metal · 2 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	443	0.65	0.78	46	2PN, AMP, MG
2	134	0.57	0.83	24	empty
3	164	0.46	0.76	24	empty
4	132	0.39	0.74	28	empty

Compared structures

6III · Crystal structure of an uncharacterized protein · the same entry in another collection · 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 A0A024L327
Elsewhere: RCSB PDB 6III · PDBe 6III · UniProt A0A024L327

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