SMTL ID : 1vd5.1

Crystal Structure of Unsaturated Glucuronyl Hydrolase, Responsible for the Degradation of Glycosaminoglycan, from Bacillus sp. GL1 at 1.8 A Resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

4 x GLY: GLYCINE(Non-covalent)

GLY.1: 8 residues within 4Å: Chain A: W.42, D.149, Q.211, W.219, R.221, W.225, Y.338 Ligands: DTT.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.149, A:Q.211 Water bridges: A:D.149 Salt bridges: A:R.221 GLY.2: 4 residues within 4Å: Chain A: G.320, Y.321, R.334, R.335 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Ligand interactions Hydrogen bonds: A:G.320, G.2, G.2 Water bridges: A:R.334 Salt bridges: A:R.334 GLY.3: 5 residues within 4Å: Chain A: A.14, T.58, D.60, Q.62, Y.63 7 PLIP interactions: 5 interactions with chain A, 2 Ligand-Ligand interactions Hydrogen bonds: A:D.60, A:Q.62, A:Y.63, A:Y.63, G.3, G.3 Water bridges: A:G.11 GLY.4: 2 residues within 4Å: Chain A: L.290, I.307 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.303

2 x DTT: 2,3-DIHYDROXY-1,4-DITHIOBUTANE(Non-covalent)

DTT.5: 6 residues within 4Å: Chain A: W.134, H.210, Q.211, Y.338 Ligands: GLY.1, DTT.6 No protein-ligand interaction detected (PLIP) DTT.6: 4 residues within 4Å: Chain A: W.134, N.142, H.210 Ligands: DTT.5 No protein-ligand interaction detected (PLIP)

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

MPD.7: 3 residues within 4Å: Chain A: Y.55, G.59, V.103 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.55, A:V.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Itoh, T. et al., Crystal Structure of Unsaturated Glucuronyl Hydrolase, Responsible for the Degradation of Glycosaminoglycan, from Bacillus sp. GL1 at 1.8 A Resolution. J.Biol.Chem. (2004)

Release Date

2004-07-13

Peptides

unsaturated glucuronyl hydrolase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

unsaturated glucuronyl hydrolase

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