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Cucumber leaf spot virus

Analyse Cucumber leaf spot virus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6MRL
Type: protein
Length: 916 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: P41
UniProt: A8CZ19
Ligands: CA
Pockets: 6 · best druggability 0.72

Structure

electron microscopy · 2 distinct chains · 2% helix, 37% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	P41	protein	295	1% helix, 36% strand	A8CZ19
D	P41	protein	326	3% helix, 37% strand	A8CZ19

Ligands and binding sites

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

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	675	0.72	0.79	71	empty
2	710	0.72	0.79	73	empty
3	336	0.70	0.83	45	empty
4	270	0.64	0.82	44	empty
5	101	0.52	0.83	19	empty

Interfaces

3 interfaces between chains.

B–D · 674 Å² buried · 13 hydrogen bonds · protein-protein
A–B · 673 Å² buried · 5 hydrogen bonds · protein-protein
A–D · 670 Å² buried · 8 hydrogen bonds · protein-protein

Compared structures

6MRL · Cucumber Leaf Spot 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 A8CZ19
Elsewhere: RCSB PDB 6MRL · PDBe 6MRL · UniProt A8CZ19

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