1QD0 Immune System date Jul 08, 1999
title Camelid Heavy Chain Variable Domains Provide Efficient Combi To Haptens
authors S.Spinelli, L.G.J.Frenken, P.Hermans, T.Verrips, K.Brown, M.Tegon C.Cambillau
compound source
Molecule: Vhh-R2 Anti-Rr6 Antibody
Chain: A
Fragment: Variable Domain Of A Heavy Chain Antibody
 Organism_scientific: Lama Glama
Organism_common: Llama
Organism_taxid: 9844
Tissue: Blood
Cell: Peripheral Blood Lymphocyte
symmetry Space Group: P 32 2 1
R_factor 0.210 R_Free 0.280
crystal
cell
length a length b length c angle alpha angle beta angle gamma
46.700 46.700 121.100 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.50 Å
ligand CU, RR6 enzyme
related structures by homologous chain: 1JTO, 1MEL
Primary referenceCamelid heavy-chain variable domains provide efficient combining sites to haptens., Spinelli S, Frenken LG, Hermans P, Verrips T, Brown K, Tegoni M, Cambillau C, Biochemistry 2000 Feb 15;39(6):1217-22. PMID:10684599
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (29 Kb) [Save to disk]
  • Biological Unit Coordinates (1qd0.pdb1.gz) 24 Kb
  • Biological Unit Coordinates (1qd0.pdb2.gz) 46 Kb
  • LPC: Ligand-Protein Contacts for 1QD0
  • CSU: Contacts of Structural Units for 1QD0
  • Likely Quarternary Molecular Structure file(s) for 1QD0
  • Structure Factors (82 Kb)
  • Retrieve 1QD0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1QD0 from S2C, [Save to disk]
  • Re-refined 1qd0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1QD0 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 1QD0
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1QD0, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1qd0a_, region A [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1qd0] [1qd0_A]
  • SWISS-PROT database: [A2KD59]
  • Domain organization of [A2KD59_LAMGL] by SWISSPFAM
  • Domain found in 1QD0: [IGv ] by SMART
    • Other resources with information on 1QD0
  • Community annotation for 1QD0 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science