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Human formylglycine generating enzyme, C336S mutant, iodide co- crystallization

Analyse Human formylglycine generating enzyme, C336S mutant, iodide co- crystallization in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2HIB
Type: protein
Length: 274 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Sulfatase-modifying factor 1
UniProt: Q8NBK3
Ligands: NAG, CA, IOD
Pockets: 2 · best druggability 0.54

Structure

x-ray diffraction · 1 distinct chain · 16% helix, 21% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
X	Sulfatase-modifying factor 1	protein	274	16% helix, 21% strand	Q8NBK3

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
IOD · Iodide ion · ion · 11 copies · 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	190	0.54	0.78	23	IOD
2	112	0.50	0.81	19	empty

Modifications

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

Compared structures

2HIB · human formylglycine generating enzyme, C336S mutant, iodide co-crystallization · the same entry in another collection · chain X against X, TM-score 1.00
Q8NBK3 · AlphaFold monomer V2.0 prediction for formylglycine-generating enzyme (Q8NBK3) · a predicted model of the same protein · chain X 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 Q8NBK3
Elsewhere: RCSB PDB 2HIB · PDBe 2HIB · UniProt Q8NBK3

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