2YMX Immune System date Oct 10, 2012
title Crystal Structure Of Inhibitory Anti-Ache Fab408
authors Y.Bourne, L.Renault, S.Essono, G.Mondielli, P.Lamourette, D.Bocqu J.Grassi, P.Marchot
compound source
Molecule: Fab Antibody Heavy Chain
Chain: H
Fragment: Variable Domain
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090

Molecule: Fab Antibody Light Chain
Chain: L
Fragment: Variable Domain

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
symmetry Space Group: C 2 2 21
R_factor 0.208 R_Free 0.254
crystal
cell
length a length b length c angle alpha angle beta angle gamma
69.950 129.111 99.264 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand GOL enzyme
Primary referenceMolecular Characterization of Monoclonal Antibodies that Inhibit Acetylcholinesterase by Targeting the Peripheral Site and Backdoor Region., Bourne Y, Renault L, Essono S, Mondielli G, Lamourette P, Boquet D, Grassi J, Marchot P, PLoS One. 2013 Oct 11;8(10):e77226. doi: 10.1371/journal.pone.0077226. PMID:24146971
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk]
  • Biological Unit Coordinates (2ymx.pdb1.gz) 73 Kb
  • LPC: Ligand-Protein Contacts for 2YMX
  • CSU: Contacts of Structural Units for 2YMX
  • Structure Factors (618 Kb)
  • Retrieve 2YMX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2YMX from S2C, [Save to disk]
  • Re-refined 2ymx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2YMX 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 2YMX
  • 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 2YMX, from MSDmotif at EBI
  • Fold representative 2ymx from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ymx] [2ymx_H] [2ymx_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 2YMX: [IG_like] [IGv ] by SMART
  • Other resources with information on 2YMX
  • Community annotation for 2YMX at PDBWiki (http://pdbwiki.org)

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