SMTL ID : 3w82.2 (1 other biounit)

Human alpha-L-iduronidase in complex with iduronic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.76 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN.1: 17 residues within 4Å: Chain A: C.27, P.28, P.29, L.30, H.32, W.280, S.281, F.326, Y.329, H.330, P.331, H.332, Q.344, N.346, V.468, F.469 Ligands: IDR.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.332, A:H.330, A:Q.344 Water bridges: A:H.330

1 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.2: 2 residues within 4Å: Chain A: D.163, N.164 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:D.163 Hydrogen bonds: A:N.164

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.3: 3 residues within 4Å: Chain A: I.244, E.248, N.389 No protein-ligand interaction detected (PLIP)

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

NAG.4: 4 residues within 4Å: Chain A: R.74, N.84, T.86, H.87 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.74, A:T.86

1 x IDR: alpha-L-idopyranuronic acid(Non-covalent)

IDR.5: 13 residues within 4Å: Chain A: C.27, H.65, N.155, E.156, K.238, E.273, V.278, G.279, W.280, D.323, F.326, R.337 Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN.1 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:H.65, A:N.155, A:E.156, A:E.156, A:K.238, A:G.279, A:W.280, A:D.323, A:D.323, A:R.337 Salt bridges: A:K.238, A:K.238, A:R.337

1 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.6: 3 residues within 4Å: Chain A: R.213, G.218, T.219 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.213, A:R.213, A:T.219 Salt bridges: A:R.213, A:R.213

1 x PO3: PHOSPHITE ION(Non-covalent)

PO3.7: 5 residues within 4Å: Chain A: W.15, N.305, Q.374, W.376, A.377 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.376, A:A.377, A:A.377

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.8: 3 residues within 4Å: Chain A: R.22, R.57, K.60 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.22, A:R.57, A:K.60

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.9: 6 residues within 4Å: Chain A: P.276, L.277, W.286, R.287, Y.292, R.337 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Maita, N. et al., Human alpha-L-iduronidase uses its own N-glycan as a substrate-binding and catalytic module. Proc.Natl.Acad.Sci.USA (2013)

Release Date

2013-08-21

Peptides

Alpha-L-iduronidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Alpha-L-iduronidase

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