MolNFT v1 · #133921 · protein

Pandda analysis group deposition -- crystal structure of SARS-cov-2 NSP14 in complex with Z28290384

5SLM · Proofreading exoribonuclease NSP14: “Pandda analysis group deposition -- crystal structure of SARS-cov-2 NSP14 in complex with Z28290384”. X-ray diffraction, 3 ligands (WN1, ZN, PO4), 7 pockets (best druggability 0.69). MolNFT v1…

PDB: 5SLM
Type: protein
Length: 461 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: WN1, ZN, PO4
Pockets: 7 · best druggability 0.69

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	461	29% helix, 21% strand	P0DTD1

Ligands and binding sites

WN1 · N-(2-fluorophenyl)-3-methoxybenzamide · 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

7 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	415	0.69	0.80	39	empty
2	200	0.48	0.75	30	empty
3	64	0.43	0.82	15	WN1
4	72	0.38	0.78	22	PO4
5	67	0.33	0.76	13	empty

Compared structures

5SLM · 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 5SLM · PDBe 5SLM · UniProt P0DTD1

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