Research workbench

Crystal structure of unknown function protein VPA0580

Analyse Crystal structure of unknown function protein VPA0580 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2QHQ
Type: protein
Length: 242 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Unknown function protein VPA0580
UniProt: Q87IM6
Pockets: 2 · best druggability 0.64

Structure

x-ray diffraction · 2 distinct chains · 52% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Unknown function protein VPA0580	protein	120	53% helix, 13% strand	Q87IM6
B	Unknown function protein VPA0580	protein	122	52% helix, 14% strand	Q87IM6

Ligands and binding sites

ACT · Acetate ion · additive · chains B

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

Pockets

2 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	87	0.64	0.90	27	empty
2	140	0.47	0.77	30	empty

Interfaces

1 interface between chains.

A–B · 642 Å² buried · 3 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 19 modified (methylation, engineered).

Compared structures

2QHQ · Crystal structure of unknown function protein VPA0580 · 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 Q87IM6
Elsewhere: RCSB PDB 2QHQ · PDBe 2QHQ · UniProt Q87IM6

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