1SQ2 Hydrolase Immune System date Mar 17, 2004
title Crystal Structure Analysis Of The Nurse Shark New Antigen Re (Nar) Variable Domain In Complex With Lysozyme
authors R.L.Stanfield, H.Dooley, M.F.Flajnik, I.A.Wilson
compound source
Molecule: Lysozyme C
Chain: L
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
Other_details: Hen Egg White

Molecule: Novel Antigen Receptor
Chain: N
Engineered: Yes

Organism_scientific: Ginglymostoma Cirratum
Organism_common: Nurse Shark
Organism_taxid: 7801
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Xl1-Blue
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pims100
symmetry Space Group: P 21 21 2
R_factor 0.196 R_Free 0.225
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.020 109.840 29.280 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.45 Å
ligand CL, EDO enzyme Hydrolase E.C.3.2.1.17 BRENDA
related structures by homologous chain: 1T6V
Gene
Ontology
ChainFunctionProcessComponent
L


Primary referenceCrystal structure of a shark single-domain antibody V region in complex with lysozyme., Stanfield RL, Dooley H, Flajnik MF, Wilson IA, Science 2004 Sep 17;305(5691):1770-3. Epub 2004 Aug 19. PMID:15319492
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (46 Kb) [Save to disk]
  • Biological Unit Coordinates (1sq2.pdb1.gz) 41 Kb
  • LPC: Ligand-Protein Contacts for 1SQ2
  • CSU: Contacts of Structural Units for 1SQ2
  • Likely Quarternary Molecular Structure file(s) for 1SQ2
  • Structure Factors (549 Kb)
  • Retrieve 1SQ2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1SQ2 from S2C, [Save to disk]
  • Re-refined 1sq2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1SQ2 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 1SQ2
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1SQ2 1SQ2L 1SQ2N from the CEP Server.
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1SQ2, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1sq2l_, region L [Jmol] [rasmolscript] [script source]
        - Domain d1sq2n_, region N [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: [1sq2_L] [1sq2] [1sq2_N]
  • SWISS-PROT database: [P00698] [Q8AXI4]
  • Domain organization of [LYSC_CHICK] [Q8AXI4_GINCI] by SWISSPFAM
  • Domains found in 1SQ2: [IG] [LYZ1 ] by SMART
  • Other resources with information on 1SQ2
  • Community annotation for 1SQ2 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