SMTL ID : 1kcd.1

Endopolygalacturonase I from Stereum purpureum complexed with two galacturonate at 1.15 A resolution.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.15 Å

Oligo State

monomer

Ligands

1 x GTK: beta-D-galactofuranuronic acid(Non-covalent)

GTK.1: 10 residues within 4Å: Chain A: Q.120, N.151, D.153, D.173, D.174, G.200, S.201, K.228, Y.262 Ligands: GTR.2 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:Q.120, A:N.151, A:D.153, A:S.201, A:Y.262 Water bridges: A:T.90, A:T.90, A:T.90, A:N.91, A:N.151, A:K.228, A:K.228, A:Q.230 Salt bridges: A:K.228

1 x GTR: beta-D-galactopyranuronic acid(Non-covalent)

GTR.2: 9 residues within 4Å: Chain A: N.91, H.150, N.151, D.173, H.195, R.226, K.228, Y.262 Ligands: GTK.1 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:N.91, A:N.91, A:H.150, A:N.151, A:Y.262 Water bridges: A:D.173, A:D.173, A:Y.223, A:Y.223, A:K.228, A:K.228, A:Y.262 Salt bridges: A:H.150, A:H.195, A:H.195, A:R.226, A:K.228

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

NAG.3: 2 residues within 4Å: Chain A: N.91, N.92 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:N.91 Hydrogen bonds: A:N.92 Water bridges: A:N.91 NAG.4: 4 residues within 4Å: Chain A: H.130, N.160, N.161, N.182 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.160, A:N.182

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

CL.5: 4 residues within 4Å: Chain A: A.29, G.30, T.54, T.55 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shimizu, T. et al., Active-site architecture of endopolygalacturonase I from Stereum purpureum revealed by crystal structures in native and ligand-bound forms at atomic resolution. Biochemistry (2002)

Release Date

2002-06-05

Peptides

ENDOPOLYGALACTURONASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ENDOPOLYGALACTURONASE

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