1YQV Immune System date Feb 02, 2005
title The Crystal Structure Of The Antibody Fab Hyhel5 Complex Wit At 1.7a Resolution
authors G.H.Cohen, E.W.Silverton, E.A.Padlan, F.Dyda, J.A.Wibbenmeyer, R. D.R.Davies
compound source
Molecule: Hyhel-5 Antibody Light Chain
Chain: L
Fragment: Igg1 Fab Fragment (Hyhel-5)
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Strain: Balb-C

Molecule: Hyhel-5 Antibody Heavy Chain
Chain: H
Fragment: Igg1 Fab Fragment (Hyhel-5)

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Strain: Balb-C

Molecule: Hen Egg White Lysozyme
Chain: Y
Synonym: 1,4-Beta-N-Acetylmuramidase C, Allergen Gal D 4, G
Ec: 3.2.1.17

Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031
Tissue: Egg White
symmetry Space Group: P 1 21 1
R_factor 0.195 R_Free 0.234
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.459 74.258 78.256 90.00 101.65 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand
enzyme Hydrolase E.C.3.2.1.17 BRENDA
note 1YQV (Molecule of the Month:pdb21)supersedes 3HFL, 2HFL
related structures by homologous chain: 1MFA, 1NLB, 1Q72
Gene
Ontology
ChainFunctionProcessComponent
Y


Primary referenceWater molecules in the antibody-antigen interface of the structure of the Fab HyHEL-5-lysozyme complex at 1.7 A resolution: comparison with results from isothermal titration calorimetry., Cohen GH, Silverton EW, Padlan EA, Dyda F, Wibbenmeyer JA, Willson RC, Davies DR, Acta Crystallogr D Biol Crystallogr. 2005 May;61(Pt 5):628-33. Epub 2005, Apr 20. PMID:15858274
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (101 Kb) [Save to disk]
  • Biological Unit Coordinates (1yqv.pdb1.gz) 97 Kb
  • CSU: Contacts of Structural Units for 1YQV
  • Likely Quarternary Molecular Structure file(s) for 1YQV
  • Structure Factors (459 Kb)
  • Retrieve 1YQV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YQV from S2C, [Save to disk]
  • Re-refined 1yqv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1YQV 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 1YQV
  • 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 1YQV, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1yqv_H] [1yqv_Y] [1yqv_L] [1yqv]
  • SWISS-PROT database: [P00698]
  • Domain organization of [LYSC_CHICK] by SWISSPFAM
  • Domains found in 1YQV: [IG_like] [IGv] [LYZ1 ] by SMART
  • Other resources with information on 1YQV
  • Community annotation for 1YQV 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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