MolNFT v1 · #133896 · protein

Pandda analysis group deposition -- crystal structure of SARS-cov-2 NSP14 in complex with Z126932614

5SKX · Proofreading exoribonuclease NSP14: “Pandda analysis group deposition -- crystal structure of SARS-cov-2 NSP14 in complex with Z126932614”. X-ray diffraction, 3 ligands (T6J, ZN, PO4), 4 pockets (best druggability 0.71). MolNFT v1…

PDB: 5SKX
Type: protein
Length: 459 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Proofreading exoribonuclease NSP14
EC: 3.1.13.-
UniProt: P0DTD1
Ligands: T6J, ZN, PO4
Pockets: 4 · best druggability 0.71

Structure

x-ray diffraction · 1 distinct chain · 29% helix, 21% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
D	Proofreading exoribonuclease NSP14 (EC 3.1.13.-)	protein	459	29% helix, 21% strand	P0DTD1

Ligands and binding sites

T6J · 2-[(methylsulfonyl)methyl]-1H-benzimidazole · ligand · chains D
ZN · Zinc ion · metal · 3 copies · chains D
PO4 · Phosphate ion · ion · 2 copies · chains D

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

4 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	429	0.71	0.81	33	empty
2	206	0.49	0.76	30	empty
3	66	0.32	0.75	13	empty
4	73	0.29	0.73	17	empty

Compared structures

5SKX · PanDDA analysis group deposition -- Crystal Structure of SARS-CoV-2 NSP14 in complex with… · the same entry in another collection · chain D against D, 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 P0DTD1
Elsewhere: RCSB PDB 5SKX · PDBe 5SKX · UniProt P0DTD1

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