MolNFT v1 · #157207 · protein

Red clover necrotic mosaic virus

6MRM · Capsid protein: “Red clover necrotic mosaic virus”. Electron microscopy, 1 ligand (CA), 5 pockets (best druggability 0.75). MolNFT v1 #157207 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6MRM
Type: protein
Length: 897 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Capsid protein
UniProt: P22955
Ligands: CA
Pockets: 5 · best druggability 0.75

Structure

electron microscopy · 2 distinct chains · 3% helix, 32% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Capsid protein	protein	291	3% helix, 36% strand	P22955
C	Capsid protein	protein	315	3% helix, 29% strand	P22955

Ligands and binding sites

CA · Calcium ion · metal · 3 copies · chains A, B, C

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

Pockets

5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	609	0.75	0.81	52	empty
2	572	0.72	0.81	77	empty
3	335	0.64	0.80	46	empty
4	112	0.56	0.84	30	empty
5	98	0.44	0.79	21	empty

Interfaces

3 interfaces between chains.

B–C · 656 Å² buried · 8 hydrogen bonds · protein-protein
A–B · 645 Å² buried · 8 hydrogen bonds · protein-protein
A–C · 612 Å² buried · 10 hydrogen bonds · protein-protein

Compared structures

6MRM · Red Clover Necrotic Mosaic Virus · 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 P22955
Elsewhere: RCSB PDB 6MRM · PDBe 6MRM · UniProt P22955

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