MolNFT v1 · #172762 · protein + RNA

The SARS-cov-2 nucleocapsid phosphoprotein N-terminal domain in complex with 7MER dsrna

7ACS · Nucleoprotein: “The SARS-cov-2 nucleocapsid phosphoprotein N-terminal domain in complex with 7MER dsrna”. Solution nmr, 1 pocket (best druggability 0.62). MolNFT v1 #172762 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 7ACS
Type: protein + RNA
Length: 154 residues
Chains: 3
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nucleoprotein; RNA (5'-R(P*CP*AP*CP*UP*GP*AP*C)-3'); RNA (5'-R(P*GP*UP*CP*AP*GP*UP*G)-3')
UniProt: P0DTC9
Pockets: 1 · best druggability 0.62

Structure

solution nmr · 3 distinct chains · 4% helix, 19% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Nucleoprotein	protein	140	4% helix, 19% strand	P0DTC9
B	RNA (5'-R(PCPAPCPUPGPAP*C)-3')	rna	7	—	—
C	RNA (5'-R(PGPUPCPAPGPUP*G)-3')	rna	7	—	—

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	344	0.62	0.79	32	empty

Interfaces

3 interfaces between chains.

A–C · 495 Å² buried · 11 hydrogen bonds · protein-nucleic
B–C · 332 Å² buried · 19 hydrogen bonds · nucleic-nucleic
A–B · 240 Å² buried · 3 hydrogen bonds · protein-nucleic

Compared structures

7ACS · The SARS-CoV-2 nucleocapsid phosphoprotein N-terminal domain in complex with 7mer dsRNA · 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 P0DTC9
Elsewhere: RCSB PDB 7ACS · PDBe 7ACS · UniProt P0DTC9

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