1GPF Hydrolase date Nov 03, 2001
title Chitinase B From Serratia Marcescens In Complex With Inhibit Psammaplin
authors D.Komander, D.M.Van Aalten
compound source
Molecule: Chitinase B
Chain: A, B
Ec: 3.2.1.14
Engineered: Yes
 Organism_scientific: Serratia Marcescens
Organism_taxid: 615
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.200 R_Free 0.245
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.754 103.588 186.065 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand SO4 enzyme Hydrolase E.C.3.2.1.14 BRENDA
related structures by homologous chain: 1E15, 1W1V
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referencePsammaplin A, a chitinase inhibitor isolated from the Fijian marine sponge Aplysinella rhax., Tabudravu JN, Eijsink VG, Gooday GW, Jaspars M, Komander D, Legg M, Synstad B, van Aalten DM, Bioorg Med Chem 2002 Apr;10(4):1123-8. PMID:11836123
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (171 Kb) [Save to disk]
  • Biological Unit Coordinates (1gpf.pdb1.gz) 167 Kb
  • LPC: Ligand-Protein Contacts for 1GPF
  • CSU: Contacts of Structural Units for 1GPF
  • Likely Quarternary Molecular Structure file(s) for 1GPF
  • Structure Factors (635 Kb)
  • Retrieve 1GPF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1GPF from S2C, [Save to disk]
  • Re-refined 1gpf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1GPF 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 1GPF
  • 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 1GPF, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1gpfa3, region A:292-379 [Jmol] [rasmolscript] [script source]
        - Domain d1gpfa2, region A:3-291,A:380-446 [Jmol] [rasmolscript] [script source]
        - Domain d1gpfa1, region A:447-499 [Jmol] [rasmolscript] [script source]
        - Domain d1gpfb3, region B:292-379 [Jmol] [rasmolscript] [script source]
        - Domain d1gpfb2, region B:3-291,B:380-446 [Jmol] [rasmolscript] [script source]
        - Domain d1gpfb1, region B:447-499 [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: [1gpf_B] [1gpf_A] [1gpf]
  • SWISS-PROT database: [Q54276]
  • Domain organization of [Q54276_SERMA] by SWISSPFAM
  • Domains found in 1GPF: [ChtBD3] [Glyco_18 ] by SMART
    • Other resources with information on 1GPF
  • Community annotation for 1GPF 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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