4DW2 The crystal structure of uPA in complex with the Fab fragment of mAb-112 date 2012-02-24
authors Jiang, L., Botkjaer, K.A., Andersen, L.M., Yuan, C., Andreasen, P.A., Huang, M.
compound source
symmetry
R_factor
R_Free 0.30048
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.97
ligand SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
U


Primary referenceRezymogenation of active urokinase induced by an inhibitory antibody., Jiang L, Botkjaer KA, Andersen LM, Yuan C, Andreasen PA, Huang M, Biochem J. 2013 Jan 1;449(1):161-6. doi: 10.1042/BJ20121132. PMID:23016918
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (108 Kb) [Save to disk]
  • Biological Unit Coordinates (4dw2.pdb1.gz) 102 Kb
  • LPC: Ligand-Protein Contacts for 4DW2
  • CSU: Contacts of Structural Units for 4DW2
  • Structure Factors (156 Kb)
  • Retrieve 4DW2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4DW2 from S2C, [Save to disk]
  • Re-refined 4dw2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4DW2 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 4DW2
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 4DW2, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4dw2] [4dw2_L] [4dw2_H] [4dw2_U]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4DW2: [IG_like] [IGv] [Tryp_SPc ] by SMART
    • Other resources with information on 4DW2
  • Community annotation for 4DW2 at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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