SMTL ID : 1czf.3 (2 other biounits)

ENDO-POLYGALACTURONASE II FROM ASPERGILLUS NIGER

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.68 Å

Oligo State

homo-dimer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: N.211, K.239, N.240 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.211, A:N.240 Water bridges: A:N.211, A:N.211 NAG.5: 3 residues within 4Å: Chain B: N.211, K.239, N.240 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:N.240 Water bridges: B:N.191, B:N.191, B:N.191, B:N.211, B:N.211, B:N.211, B:N.211

6 x ZN: ZINC ION(Non-covalent)

ZN.2: 2 residues within 4Å: Chain A: D.308, D.336 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.308, A:D.308, A:D.336, H2O.3 ZN.3: 3 residues within 4Å: Chain A: Q.200, H.223, E.252 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:H.223, H2O.4, H2O.5, H2O.5, H2O.7, H2O.7 ZN.4: 3 residues within 4Å: Chain A: H.96 Chain B: D.28, K.44 5 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: A:H.96, B:D.28, H2O.6, H2O.7, H2O.11 ZN.6: 1 residues within 4Å: Chain B: D.110 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.110, B:D.110, H2O.22 ZN.7: 3 residues within 4Å: Chain B: Q.200, H.223, E.252 6 PLIP interactions: 1 interactions with chain B, 5 Ligand-Water interactions Metal complexes: B:H.223, H2O.20, H2O.21, H2O.21, H2O.21, H2O.26 ZN.8: 4 residues within 4Å: Chain A: D.28, K.44 Chain B: E.95, H.96 5 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: B:H.96, A:D.28, H2O.23, H2O.24, H2O.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

van Santen, Y. et al., 1.68-A crystal structure of endopolygalacturonase II from Aspergillus niger and identification of active site residues by site-directed mutagenesis. J.Biol.Chem. (1999)

Release Date

1999-10-28

Peptides

POLYGALACTURONASE II: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

POLYGALACTURONASE II

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