MolNFT v1 · #88364 · protein + RNA

Structural insights into toscana virus RNA encapsidation

4CSF · Nucleoprotein: “Structural insights into toscana virus RNA encapsidation”. X-ray diffraction, 20 pockets (best druggability 0.84). MolNFT v1 #88364 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4CSF
Type: protein + RNA
Length: 6,085 residues
Chains: 36
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nucleoprotein; RNA (5'-R(*UP*GP*UP*GP*UP*UP*UP*CP*UP)-3')
UniProt: P21701
Pockets: 20 · best druggability 0.84

Structure

x-ray diffraction · 9 distinct chains · 69% helix, 2% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, D, F, G, H, I, J, N, P, Q, S, V	Nucleoprotein	protein	249	71% helix, 2% strand	P21701
C	Nucleoprotein	protein	250	70% helix, 2% strand	P21701
E	Nucleoprotein	protein	249	69% helix, 2% strand	P21701
K	Nucleoprotein	protein	251	65% helix, 2% strand	P21701
L, T, W	Nucleoprotein	protein	250	71% helix, 1% strand	P21701
M, O, R	Nucleoprotein	protein	248	67% helix, 2% strand	P21701
U	Nucleoprotein	protein	247	69% helix, 2% strand	P21701
X	Nucleoprotein	protein	249	67% helix, 1% strand	P21701
a, c, e, g, i, k, m, o, q, s, u, w	RNA (5'-R(UPGPUPGPUPUPUPCP*UP)-3')	rna	9	—	—

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1095	0.84	0.85	113	empty
2	1089	0.84	0.85	111	empty
3	1091	0.83	0.85	112	empty
4	1055	0.81	0.82	93	empty
5	1050	0.80	0.81	89	empty

Interfaces

82 interfaces between chains.

H–I · 2064 Å² buried · 22 hydrogen bonds · protein-protein
V–W · 2061 Å² buried · 25 hydrogen bonds · protein-protein
J–K · 2036 Å² buried · 21 hydrogen bonds · protein-protein
B–C · 2034 Å² buried · 22 hydrogen bonds · protein-protein
T–U · 2026 Å² buried · 24 hydrogen bonds · protein-protein

Compared structures

4CSF · Structural insights into Toscana virus RNA encapsidation · the same entry in another collection · chain k against k, 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 P21701
Elsewhere: RCSB PDB 4CSF · PDBe 4CSF · UniProt P21701

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