1YC7 Immune System date Dec 22, 2004
title Caban33 Vhh Fragment Against Vsg
authors K.Conrath, C.Vincke, B.Stijlemans, J.Schymkowitz, L.Wyns, S.Muyldermans, R.Loris
compound source
Molecule: Anti-Vsg Immunoglobulin Heavy Chain Variable Domain Caban33;
Chain: A, B
Fragment: Caban33
Engineered: Yes
Organism_scientific: Camelus Dromedarius
Organism_common: Arabian Camel
Organism_taxid: 9838
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.192 R_Free 0.212
crystal
cell
length a length b length c angle alpha angle beta angle gamma
31.993 91.600 82.409 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand SO4 enzyme
related structures by homologous chain: 1KXQ, 1KXV, 1XFP
Primary referenceAntigen Binding and Solubility Effects upon the Veneering of a Camel VHH in Framework-2 to Mimic a VH., Conrath K, Vincke C, Stijlemans B, Schymkowitz J, Decanniere K, Wyns L, Muyldermans S, Loris R, J Mol Biol 2005 Jul 1;350(1):112-125. PMID:15913651
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (45 Kb) [Save to disk]
  • Biological Unit Coordinates (1yc7.pdb1.gz) 21 Kb
  • Biological Unit Coordinates (1yc7.pdb2.gz) 21 Kb
  • LPC: Ligand-Protein Contacts for 1YC7
  • CSU: Contacts of Structural Units for 1YC7
  • Likely Quarternary Molecular Structure file(s) for 1YC7
  • Structure Factors (546 Kb)
  • Retrieve 1YC7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YC7 from S2C, [Save to disk]
  • Re-refined 1yc7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1YC7 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 1YC7
  • 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
  • 3D motif for 1YC7, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1yc7_A] [1yc7_B] [1yc7]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 1YC7: [IGv ] by SMART
  • Other resources with information on 1YC7
  • Community annotation for 1YC7 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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