1OP9 Hydrolase date Mar 05, 2003
title Complex Of Human Lysozyme With Camelid Vhh Hl6 Antibody Frag
authors M.Dumoulin, A.M.Last, A.Desmyter, K.Decanniere, D.Canet, G.Larsso A.Spencer, D.B.Archer, J.Sasse, S.Muyldermans, L.Wyns, C.Redfiel A.Matagne, C.V.Robinson, C.M.Dobson
compound source
Molecule: Hl6 Camel Vhh Fragment
Chain: A
Engineered: Yes
Organism_scientific: Camelus Dromedarius
Organism_common: Arabian Camel
Organism_taxid: 9838
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Lysozyme C
Chain: B
Synonym: 1,4-Beta-N-Acetylmuramidase C
Ec: 3.2.1.17
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Lyz Or Lzm
Expression_system: Aspergillus Niger
Expression_system_taxid: 5061
symmetry Space Group: P 1 21 1
R_factor 0.196 R_Free 0.238
crystal
cell
length a length b length c angle alpha angle beta angle gamma
39.611 48.226 66.605 90.00 98.98 90.00
method X-Ray Diffractionresolution 1.86 Å
ligand
enzyme Hydrolase E.C.3.2.1.17 BRENDA
related structures by homologous chain: 1FGV, 1I20, 1QSW, 1RI8
Gene
Ontology
ChainFunctionProcessComponent
B


Primary referenceA camelid antibody fragment inhibits the formation of amyloid fibrils by human lysozyme., Dumoulin M, Last AM, Desmyter A, Decanniere K, Canet D, Larsson G, Spencer A, Archer DB, Sasse J, Muyldermans S, Wyns L, Redfield C, Matagne A, Robinson CV, Dobson CM, Nature 2003 Aug 14;424(6950):783-8. PMID:12917687
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (47 Kb) [Save to disk]
  • Biological Unit Coordinates (1op9.pdb1.gz) 43 Kb
  • CSU: Contacts of Structural Units for 1OP9
  • Likely Quarternary Molecular Structure file(s) for 1OP9
  • Structure Factors (289 Kb)
  • Retrieve 1OP9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1OP9 from S2C, [Save to disk]
  • Re-refined 1op9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1OP9 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 1OP9
  • 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 1OP9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1op9a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1op9b_, region B [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: [1op9] [1op9_A] [1op9_B]
  • SWISS-PROT database: [P61626]
  • Domain organization of [LYSC_HUMAN] by SWISSPFAM
  • Domains found in 1OP9: [IGv] [LYZ1 ] by SMART
  • Other resources with information on 1OP9
  • Community annotation for 1OP9 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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