5MYX Immune System date Jan 30, 2017
title Structure Of Pyroglutamate-Abeta-Specific Fab C#24 In Comple Human Abeta-Pe3-18
authors C.Parthier, A.Piechotta, M.T.Stubbs
compound source
Molecule: Fab C#24 Light Chain
Chain: A, C
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_taxid: 10090
Expression_system: Mus Musculus
Expression_system_taxid: 10090

Molecule: Fab C#24 Heavy Chain
Chain: B, D
Engineered: Yes
Other_details: Pyroglutamate Residue 1 (Pca) Results From P Translational Modification Of Original Residue Glutamine 1.

Organism_scientific: Mus Musculus
Organism_taxid: 10090
Expression_system: Mus Musculus
Expression_system_taxid: 10090

Molecule: Pyroglutamate-Abeta Pe3-18
Chain: E, F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
symmetry Space Group: C 1 2 1
R_factor 0.181 R_Free 0.213
crystal
cell
length a length b length c angle alpha angle beta angle gamma
115.611 95.935 90.371 90.00 101.17 90.00
method X-Ray Diffractionresolution 1.49 Å
ligand PCA enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, E


Primary referenceStructural and functional analyses of pyroglutamate-amyloid-beta-specific antibodies as a basis for Alzheimer immunotherapy., Piechotta A, Parthier C, Kleinschmidt M, Gnoth K, Pillot T, Lues I, Demuth HU, Schilling S, Rahfeld JU, Stubbs MT, J Biol Chem. 2017 Jul 28;292(30):12713-12724. doi: 10.1074/jbc.M117.777839. Epub , 2017 Jun 16. PMID:28623233
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (174 Kb) [Save to disk]
  • Biological Unit Coordinates (5myx.pdb1.gz) 87 Kb
  • Biological Unit Coordinates (5myx.pdb2.gz) 85 Kb
  • LPC: Ligand-Protein Contacts for 5MYX
  • CSU: Contacts of Structural Units for 5MYX
  • Structure Factors (1062 Kb)
  • Retrieve 5MYX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5MYX from S2C, [Save to disk]
  • Re-refined 5myx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5MYX 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 5MYX
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5myx_B] [5myx_C] [5myx_E] [5myx_F] [5myx_A] [5myx_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5MYX
  • Community annotation for 5MYX at PDBWiki (http://pdbwiki.org)

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