1CZF Hydrolase date Sep 02, 1999
title Endo-Polygalacturonase II From Aspergillus Niger
authors Y.Van Santen, K.H.Kalk, B.W.Dijkstra
compound source
Molecule: Polygalacturonase II
Chain: A, B
Synonym: Pg-II, Pectinase, Endopolygalacturonase II
Ec: 3.2.1.15
Organism_scientific: Aspergillus Niger
Organism_taxid: 5061
Variant: Nw156
Secretion: Extracellular
symmetry Space Group: P 21 21 2
R_factor 0.166 R_Free 0.191
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.497 201.241 49.065 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.68 Å
ligand NAG, ZN enzyme Hydrolase E.C.3.2.1.15 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary reference1.68-A crystal structure of endopolygalacturonase II from Aspergillus niger and identification of active site residues by site-directed mutagenesis., van Santen Y, Benen JA, Schroter KH, Kalk KH, Armand S, Visser J, Dijkstra BW, J Biol Chem 1999 Oct 22;274(43):30474-80. PMID:10521427
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (121 Kb) [Save to disk]
  • Biological Unit Coordinates (1czf.pdb1.gz) 60 Kb
  • Biological Unit Coordinates (1czf.pdb2.gz) 59 Kb
  • Biological Unit Coordinates (1czf.pdb3.gz) 116 Kb
  • LPC: Ligand-Protein Contacts for 1CZF
  • CSU: Contacts of Structural Units for 1CZF
  • Likely Quarternary Molecular Structure file(s) for 1CZF
  • Structure Factors (726 Kb)
  • Retrieve 1CZF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1CZF from S2C, [Save to disk]
  • Re-refined 1czf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1CZF in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1CZF
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1CZF, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1czfa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1czfb_, region B [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1czf_B] [1czf_A] [1czf]
  • SWISS-PROT database: [P26214]
  • Domain organization of [PGLR2_ASPNG] by SWISSPFAM
  • Domain found in 1CZF: [PbH1 ] by SMART
  • Other resources with information on 1CZF
  • Community annotation for 1CZF at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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