4UFG Thrombin in complex with (2R)-2-(benzylsulfonylamino)-N-((1S)-2-((4- carbamimidoylphenyl)methylamino)-1-methyl-2-oxo-ethyl)-N-methyl-3- phenyl-propanamide ethane date
authors Ruehmann, E., Heine, A., Klebe, G.
compound source
symmetry
R_factor
R_Free 0.1865
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.65
ligand D6J, NA, NAG, PO4, TYS enzyme
Gene
Ontology
ChainFunctionProcessComponent
H


L


Primary referenceBoosting Affinity by Correct Ligand Preorganization for the S2 Pocket of Thrombin: A Study by Isothermal Titration Calorimetry, Molecular Dynamics, and High-Resolution Crystal Structures., Ruhmann EH, Rupp M, Betz M, Heine A, Klebe G, ChemMedChem. 2016 Jan 13. doi: 10.1002/cmdc.201500531. PMID:26762840
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (110 Kb) [Save to disk]
  • Biological Unit Coordinates (4ufg.pdb1.gz) 102 Kb
  • LPC: Ligand-Protein Contacts for 4UFG
  • CSU: Contacts of Structural Units for 4UFG
  • Structure Factors (452 Kb)
  • Retrieve 4UFG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4UFG from S2C, [Save to disk]
  • Re-refined 4ufg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4UFG 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 4UFG
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4ufg] [4ufg_H] [4ufg_I] [4ufg_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4UFG: [Tryp_SPc ] by SMART
    • Other resources with information on 4UFG
  • Community annotation for 4UFG at PDBWiki (http://pdbwiki.org)

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