4Y3K Structure of Vaspin mutant E379S date
authors Pippel, J., Strater, N., Ulbricht, D., Schultz, S., Meier, R., Heiker, J.T.
compound source
symmetry
R_factor
R_Free 0.2193
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.20
ligand EDO, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceA unique serpin P1' glutamate and a conserved beta-sheet C arginine are key residues for activity, protease recognition and stability of serpinA12 (vaspin)., Ulbricht D, Pippel J, Schultz S, Meier R, Strater N, Heiker JT, Biochem J. 2015 Jul 21. pii: BJ20150643. PMID:26199422
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (262 Kb) [Save to disk]
  • Biological Unit Coordinates (4y3k.pdb1.gz) 130 Kb
  • Biological Unit Coordinates (4y3k.pdb2.gz) 129 Kb
  • LPC: Ligand-Protein Contacts for 4Y3K
  • CSU: Contacts of Structural Units for 4Y3K
  • Structure Factors (3275 Kb)
  • Retrieve 4Y3K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4Y3K from S2C, [Save to disk]
  • Re-refined 4y3k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4Y3K 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 4Y3K
  • 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: [4y3k_A] [4y3k_B] [4y3k]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4Y3K: [SERPIN ] by SMART
    • Other resources with information on 4Y3K
  • Community annotation for 4Y3K at PDBWiki (http://pdbwiki.org)

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