SMTL ID : 4fdj.1

The molecular basis of mucopolysaccharidosis IV A, complex with GalNAc

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.81 Å

Oligo State

homo-dimer

Ligands

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

NAG.1: 2 residues within 4Å: Chain A: E.176, N.178 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.176 Water bridges: A:N.178 NAG.2: 3 residues within 4Å: Chain A: N.397, S.399 Ligands: NAG.6 No protein-ligand interaction detected (PLIP) NAG.5: 3 residues within 4Å: Chain B: P.169, E.176, N.178 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:P.169 Hydrogen bonds: B:E.176 Water bridges: B:E.176, B:N.178 NAG.6: 4 residues within 4Å: Chain B: N.397, S.399, H.404 Ligands: NAG.2 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:N.397, A:N.397

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: D.13, D.14, A.53, D.262, N.263 Ligands: NGA.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.13, A:D.14, A:D.262, A:D.262 CA.7: 6 residues within 4Å: Chain B: D.13, D.14, A.53, D.262, N.263 Ligands: NGA.8 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.13, B:D.14, B:D.262, B:D.262

2 x NGA: 2-acetamido-2-deoxy-beta-D-galactopyranose(Non-covalent)

NGA.4: 9 residues within 4Å: Chain A: A.53, Y.82, K.114, H.116, C.139, H.210, K.284, Q.285 Ligands: CA.3 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:K.114 Hydrogen bonds: A:H.116, A:K.284, A:Q.285 Water bridges: A:H.140 Salt bridges: A:H.210, A:K.284 NGA.8: 9 residues within 4Å: Chain B: A.53, Y.82, K.114, H.116, C.139, H.210, K.284, Q.285 Ligands: CA.7 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:K.114 Hydrogen bonds: B:H.116, B:K.284, B:Q.285 Water bridges: B:H.140 Salt bridges: B:H.210, B:K.284

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rivera-Colon, Y. et al., The Structure of Human GALNS Reveals the Molecular Basis for Mucopolysaccharidosis IV A. J.Mol.Biol. (2012)

Release Date

2012-09-05

Peptides

N-acetylgalactosamine-6-sulfatase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

N-acetylgalactosamine-6-sulfatase

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