2OR9 Immune System date Feb 02, 2007
title The Structure Of The Anti-C-Myc Antibody 9e10 Fab Fragmentepitope Peptide Complex Reveals A Novel Binding Mode Dominated By The Heavy Chain Hypervariable Loops
authors N.Krauss, P.Scheerer, W.Hoehne
compound source
Molecule: Monoclonal Anti-C-Myc Antibody 9e10
Chain: L, M
Fragment: Light Chain Of Antigen Binding Fragment, Fab
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Strain: Balbc

Molecule: Monoclonal Anti-C-Myc Antibody 9e10
Chain: H, I
Fragment: Heavy Chain Of Antigen Binding Fragment, Fab

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Strain: Balbc

Molecule: Synthetic Epitope Peptide Of 9e10
Chain: P
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Peptide Derived From The Human C- Myc Proto-Oncoprotein
symmetry Space Group: P 21 21 21
R_factor 0.252 R_Free 0.310
length a length b length c angle alpha angle beta angle gamma
76.068 111.880 134.119 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
Primary referenceThe structure of the anti-c-myc antibody 9E10 Fab fragment/epitope peptide complex reveals a novel binding mode dominated by the heavy chain hypervariable loops., Krauss N, Wessner H, Welfle K, Welfle H, Scholz C, Seifert M, Zubow K, Ay J, Hahn M, Scheerer P, Skerra A, Hohne W, Proteins. 2008 Nov 15;73(3):552-65. PMID:18473392
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (151 Kb) [Save to disk]
  • Biological Unit Coordinates (2or9.pdb1.gz) 75 Kb
  • Biological Unit Coordinates (2or9.pdb2.gz) 76 Kb
  • CSU: Contacts of Structural Units for 2OR9
  • Likely Quarternary Molecular Structure file(s) for 2OR9
  • Structure Factors (524 Kb)
  • Retrieve 2OR9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2OR9 from S2C, [Save to disk]
  • Re-refined 2or9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2OR9 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 2OR9
  • 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 2OR9, from MSDmotif at EBI
  • Fold representative 2or9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2or9_H] [2or9_M] [2or9] [2or9_L] [2or9_P] [2or9_I]
  • SWISS-PROT database: [P01654]
  • Domain organization of [KV3A1_MOUSE] by SWISSPFAM
  • Domains found in 2OR9: [IG_like] [IGv ] by SMART
  • Other resources with information on 2OR9
  • Community annotation for 2OR9 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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