1KIR Complex (Immunoglobulin Hydrolase) date Oct 23, 1996
title Fv Mutant Y(A 50)S (Vl Domain) Of Mouse Monoclonal Antibody D1.3 Complexed With Hen Egg White Lysozyme
authors B.A.Fields, R.J.Poljak, R.A.Mariuzza
compound source
Molecule: Monoclonal Antibody D1.3
Chain: A
Engineered: Yes
Mutation: Yes
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Organ: Egg
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Monoclonal Antibody D1.3
Chain: B
Engineered: Yes
Mutation: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Organ: Egg
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Lysozyme
Chain: C
Ec: 3.2.1.17
Engineered: Yes

Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031
Organ: Egg
Cell: Egg
Cellular_location: Egg White
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.167 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
129.220 60.450 56.770 90.00 119.02 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand
enzyme Hydrolase E.C.3.2.1.17 BRENDA
related structures by homologous chain: 1A7N, 1A7O, 1DI4, 1UCO
Gene
Ontology
ChainFunctionProcessComponent
B


C


Primary referenceHydrogen bonding and solvent structure in an antigen-antibody interface. Crystal structures and thermodynamic characterization of three Fv mutants complexed with lysozyme., Fields BA, Goldbaum FA, Dall'Acqua W, Malchiodi EL, Cauerhff A, Schwarz FP, Ysern X, Poljak RJ, Mariuzza RA, Biochemistry 1996 Dec 3;35(48):15494-503. PMID:8952503
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (63 Kb) [Save to disk]
  • Biological Unit Coordinates (1kir.pdb1.gz) 59 Kb
  • CSU: Contacts of Structural Units for 1KIR
  • Likely Quarternary Molecular Structure file(s) for 1KIR
  • Structure Factors (157 Kb)
  • Retrieve 1KIR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1KIR from S2C, [Save to disk]
  • Re-refined 1kir structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1KIR 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 1KIR
  • 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 1KIR, from MSDmotif at EBI
  • Genome occurence of 1KIR's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1kira_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1kirb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1kirc_, region C [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: [1kir] [1kir_B] [1kir_C] [1kir_A]
  • SWISS-PROT database: [P00698]
  • Domain organization of [LYSC_CHICK] by SWISSPFAM
  • Domains found in 1KIR: [IGv] [LYZ1 ] by SMART
  • Other resources with information on 1KIR
  • Community annotation for 1KIR at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1KIR from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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