4YCM Crystal structure of the calcium pump with bound marine macrolide BLS date
authors Morita, M., Ogawa, H., Ohno, O., Yamori, T., Suenaga, K., Toyoshima, C.
compound source
symmetry
R_factor
R_Free 0.2598
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.20
ligand 7BS, AME, NA, PTY, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceBiselyngbyasides, cytotoxic marine macrolides, are novel and potent inhibitors of the Ca(2+) pumps with a unique mode of binding., Morita M, Ogawa H, Ohno O, Yamori T, Suenaga K, Toyoshima C, FEBS Lett. 2015 Jun 4;589(13):1406-11. doi: 10.1016/j.febslet.2015.04.056. Epub, 2015 May 6. PMID:25957767
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (336 Kb) [Save to disk]
  • Biological Unit Coordinates (4ycm.pdb1.gz) 329 Kb
  • LPC: Ligand-Protein Contacts for 4YCM
  • CSU: Contacts of Structural Units for 4YCM
  • Structure Factors (277 Kb)
  • Retrieve 4YCM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4YCM from S2C, [Save to disk]
  • Re-refined 4ycm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4YCM 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 4YCM
  • 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: [4ycm] [4ycm_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4YCM: [Cation_ATPase_N ] by SMART
    • Other resources with information on 4YCM
  • Community annotation for 4YCM at PDBWiki (http://pdbwiki.org)

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