Research workbench

Crystal structure of ara H 8.0201

Analyse Crystal structure of ara H 8.0201 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6V8H
Type: protein
Length: 1,214 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ara H 8 allergen isoform
UniProt: B0YIU5
Ligands: SO4
Pockets: 13 · best druggability 0.89

Structure

x-ray diffraction · 2 distinct chains · 30% helix, 47% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C, J, L, M, N, O	Ara H 8 allergen isoform	protein	152	30% helix, 47% strand	B0YIU5
G	Ara H 8 allergen isoform	protein	150	30% helix, 47% strand	B0YIU5

Ligands and binding sites

SO4 · Sulfate ion · ion · 2 copies · chains C, J

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

Pockets

13 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1114	0.89	0.90	136	empty
2	1165	0.88	0.89	132	empty
3	661	0.84	0.89	83	empty
4	530	0.84	0.90	76	empty
5	450	0.84	0.91	58	empty

Interfaces

17 interfaces between chains.

C–G · 898 Å² buried · 7 hydrogen bonds · protein-protein
J–L · 865 Å² buried · 10 hydrogen bonds · protein-protein
M–O · 823 Å² buried · 2 hydrogen bonds · protein-protein
A–N · 787 Å² buried · 4 hydrogen bonds · protein-protein
A–L · 308 Å² buried · 5 hydrogen bonds · protein-protein

Compared structures

6V8H · Crystal structure of Ara h 8.0201 · 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 B0YIU5
Elsewhere: RCSB PDB 6V8H · PDBe 6V8H · UniProt B0YIU5

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