SMTL ID : 4mj4.1

Human iduronidase apo structure P21 form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.17 Å

Oligo State

monomer

Ligands

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

NAG-NAG-BMA-MAN-MAN.1: 6 residues within 4Å: Chain A: Y.355, H.356, Q.370, N.372, V.494, F.495 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.356, A:Q.370

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 9 residues within 4Å: Chain A: G.78, V.80, R.83, N.124, Q.125, W.568, S.569, D.570, N.603 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:V.80, A:R.83, A:N.124, A:W.568, A:N.603 Water bridges: A:V.80 GOL.3: 7 residues within 4Å: Chain A: K.324, N.415, H.416, T.417, D.444, D.445, R.447 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.324, A:K.324, A:H.416, A:D.444, A:R.447 GOL.4: 6 residues within 4Å: Chain A: L.40, W.41, N.331, L.401, W.402, A.403 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.403 Water bridges: A:N.331

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

NAG.5: 3 residues within 4Å: Chain A: N.110, T.112, H.113 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.113 NAG.6: 3 residues within 4Å: Chain A: I.270, E.274, N.415 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.270, A:E.274 Hydrogen bonds: A:E.274, A:E.274, A:E.274, A:N.415

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

CL.7: 6 residues within 4Å: Chain A: D.301, P.302, L.303, W.312, R.313, R.363 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bie, H. et al., Insights into mucopolysaccharidosis I from the structure and action of alpha-L-iduronidase. Nat.Chem.Biol. (2013)

Release Date

2013-09-18

Peptides

Alpha-L-iduronidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-L-iduronidase

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