2DFP Hydrolase date Dec 07, 1998
title X-Ray Structure Of Aged Di-Isopropyl-Phosphoro-Fluoridate (D To Acetylcholinesterase
authors G.Kryger, C.B.Millard, I.Silman, J.L.Sussman
compound source
Molecule: Protein (Acetylcholinesterase)
Chain: A
Ec: 3.1.1.7
Other_details: The Protein, Acetylcholinesterase, Was Treat The Organophosphate, Dfp, Prior To Crystallization.
Organism_scientific: Torpedo Californica
Organism_common: Pacific Electric Ray
Organism_taxid: 7787
Variant: G2 Form
Organ: Electric Organ
Tissue: Electroplaque
symmetry Space Group: P 31 2 1
R_factor 0.186 R_Free 0.228
crystal
cell
length a length b length c angle alpha angle beta angle gamma
112.636 112.636 136.881 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.30 Å
ligand MES, MIS, NAG enzyme Hydrolase E.C.3.1.1.7 BRENDA
related structures by homologous chain: 1DX6, 1JJB
Gene
Ontology
ChainFunctionProcessComponent
A
  • acetylcholine catabolic proc...

  • Primary referenceCrystal structures of aged phosphonylated acetylcholinesterase: nerve agent reaction products at the atomic level., Millard CB, Kryger G, Ordentlich A, Greenblatt HM, Harel M, Raves ML, Segall Y, Barak D, Shafferman A, Silman I, Sussman JL, Biochemistry 1999 Jun 1;38(22):7032-9. PMID:10353814
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (103 Kb) [Save to disk]
  • Biological Unit Coordinates (2dfp.pdb1.gz) 191 Kb
  • LPC: Ligand-Protein Contacts for 2DFP
  • CSU: Contacts of Structural Units for 2DFP
  • Likely Quarternary Molecular Structure file(s) for 2DFP
  • Structure Factors (330 Kb)
  • Retrieve 2DFP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2DFP from S2C, [Save to disk]
  • Re-refined 2dfp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2DFP 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 2DFP
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2DFP, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d2dfpa_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 2dfp from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [2dfp] [2dfp_A]
  • SWISS-PROT database: [P04058]
  • Domain organization of [ACES_TORCA] by SWISSPFAM
  • Other resources with information on 2DFP
  • Community annotation for 2DFP at PDBWiki (http://pdbwiki.org)
  • LED, table of lipase structures from Lipase Engineering Database.
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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