4YGQ Crystal structure of HAD phosphatase from Thermococcus onnurineus date
authors Ngo, T.D., Le, B.V., Subramani, V.K., Nguyen, C.M.T., Lee, H.S., Cho, Y., Kim, K.K., Hwang, H.Y.
compound source
symmetry
R_factor
R_Free 0.2025
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.00
ligand TBU enzyme
Gene TON
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis for the substrate selectivity of a HAD phosphatase from Thermococcus onnurineus NA1., Ngo TD, Van Le B, Subramani VK, Thi Nguyen CM, Lee HS, Cho Y, Kim KK, Hwang HY, Biochem Biophys Res Commun. 2015 Apr 6. pii: S0006-291X(15)00647-6. doi:, 10.1016/j.bbrc.2015.03.179. PMID:25858319
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (44 Kb) [Save to disk]
  • Biological Unit Coordinates (4ygq.pdb1.gz) 40 Kb
  • LPC: Ligand-Protein Contacts for 4YGQ
  • CSU: Contacts of Structural Units for 4YGQ
  • Structure Factors (306 Kb)
  • Retrieve 4YGQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4YGQ from S2C, [Save to disk]
  • Re-refined 4ygq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4YGQ 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 4YGQ
  • 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
  • 3D motif for 4YGQ, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4ygq] [4ygq_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4YGQ
  • Community annotation for 4YGQ at PDBWiki (http://pdbwiki.org)

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