4UDW Thrombin in complex with 1-(2R)-2-amino-3-phenyl-propanoyl-N-(2, 5dichlorophenyl)methylpyrrolidine-2-carboxamide date
authors Ruehmann, E., Heine, A., Klebe, G.
compound source
symmetry
R_factor
R_Free 0.1413
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.16
ligand GOL, N6L, NA, NAG, PO4, TYS enzyme
Gene
Ontology
ChainFunctionProcessComponent
H


L


Primary referenceFragment Binding Can Be Either More Enthalpy-Driven or Entropy-Driven: Crystal Structures and Residual Hydration Patterns Suggest Why., Ruhmann E, Betz M, Heine A, Klebe G, J Med Chem. 2015 Aug 24. PMID:26270568
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (165 Kb) [Save to disk]
  • Biological Unit Coordinates (4udw.pdb1.gz) 159 Kb
  • LPC: Ligand-Protein Contacts for 4UDW
  • CSU: Contacts of Structural Units for 4UDW
  • Structure Factors (1234 Kb)
  • Retrieve 4UDW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4UDW from S2C, [Save to disk]
  • Re-refined 4udw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4UDW 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 4UDW
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4udw_I] [4udw_H] [4udw] [4udw_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4UDW: [Tryp_SPc ] by SMART
    • Other resources with information on 4UDW
  • Community annotation for 4UDW at PDBWiki (http://pdbwiki.org)

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