SMTL ID : 1y4j.1

Crystal structure of the paralogue of the human formylglycine generating enzyme

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.86 Å

Oligo State

homo-dimer

Ligands

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 3 residues within 4Å: Chain A: P.164, N.165, E.181 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 5 residues within 4Å: Chain B: P.164, N.165, E.181, D.182, G.183 No protein-ligand interaction detected (PLIP)

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 4 residues within 4Å: Chain A: N.168, L.169, D.182, F.184 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:L.169, A:D.182, A:F.184, H2O.1, H2O.1 CA.4: 5 residues within 4Å: Chain A: D.203, L.204, G.206, V.208, E.210 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.203, A:L.204, A:G.206, A:V.208, A:E.210 CA.5: 4 residues within 4Å: Chain B: N.168, L.169, D.182, F.184 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:L.169, B:D.182, B:F.184, H2O.12, H2O.12 CA.6: 5 residues within 4Å: Chain B: D.203, L.204, G.206, V.208, E.210 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.203, B:L.204, B:G.206, B:V.208, B:E.210

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.7: 4 residues within 4Å: Chain A: V.89 Chain B: F.68, W.92, S.257 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.68, B:W.92, A:V.89 Water bridges: B:N.251

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dickmanns, A. et al., Crystal Structure of Human pFGE, the Paralog of the C{alpha}-formylglycine-generating Enzyme. J.Biol.Chem. (2005)

Release Date

2005-02-08

Peptides

Sulfatase modifying factor 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Sulfatase modifying factor 2