3U0T Immune System date Sep 29, 2011
title Fab-Antibody Complex
authors S.L.Laporte, J.P.Pons
compound source
Molecule: Ponezumab Lc Fab
Chain: C, A
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek 293 Cells

Molecule: Ponezumab Hc Fab
Chain: D, B
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek 293 Cells

Molecule: Amyloid Beta A4 Protein
Chain: E, F
Fragment: Unp Residues 701-711
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor 0.219 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
83.370 64.250 95.890 90.00 112.42 90.00
method X-Ray Diffractionresolution 2.50 Å
Gene
Ontology
ChainFunctionProcessComponent
F, E


Primary referenceStructural Basis of C-terminal beta-Amyloid Peptide Binding by the Antibody Ponezumab for the Treatment of Alzheimer's Disease., La Porte SL, Bollini SS, Lanz TA, Abdiche YN, Rusnak AS, Ho WH, Kobayashi D, Harrabi O, Pappas D, Mina EW, Milici AJ, Kawabe TT, Bales K, Lin JC, Pons J, J Mol Biol. 2011 Dec 13. PMID:22197375
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (288 Kb) [Save to disk]
  • Biological Unit Coordinates (3u0t.pdb1.gz) 143 Kb
  • Biological Unit Coordinates (3u0t.pdb2.gz) 142 Kb
  • CSU: Contacts of Structural Units for 3U0T
  • Structure Factors (1785 Kb)
  • Retrieve 3U0T in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3U0T from S2C, [Save to disk]
  • Re-refined 3u0t structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3U0T 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 3U0T
  • 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 3U0T, from MSDmotif at EBI
  • Fold representative 3u0t from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3u0t_F] [3u0t_A] [3u0t_D] [3u0t_C] [3u0t] [3u0t_E] [3u0t_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3U0T with the sequences similar proteins can be viewed for 3U0T's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3U0T
  • Community annotation for 3U0T at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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