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Human formylglycine generating enzyme, sulfonic ACID/DESULFURATED form

Analyse Human formylglycine generating enzyme, sulfonic ACID/DESULFURATED form in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1Y1J
Type: protein
Length: 275 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: C-alpha-formyglycine-generating enzyme
Ligands: NAG, CA
Pockets: 2 · best druggability 0.54

Structure

x-ray diffraction · 1 distinct chain · 16% helix, 23% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
X	C-alpha-formyglycine-generating enzyme	protein	275	16% helix, 23% strand	—

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains X
CA · Calcium ion · metal · 2 copies · chains X
CXS · 3-cyclohexyl-1-propylsulfonic acid · additive · chains X

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	187	0.54	0.79	23	empty
2	107	0.48	0.80	20	empty

Modifications

Observed in the structure: 2 disulfide, 1 glycan, 1 modified (disulfide, N-glycosylation, oxidation).

Compared structures

1Y1J · human formylglycine generating enzyme, sulfonic acid/desulfurated form · the same entry in another collection · chain X against X, 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
Elsewhere: RCSB PDB 1Y1J · PDBe 1Y1J

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