4NYP The 2.0 Angstrom Crystal Structure of Pyrococcus Horikoshii Cuta1 Complexed With NA+ date 2013-12-11
authors Bagautdinov, B., Tahirov, T.H., RSGI, RIKEN.Structural.Genomics/Proteomics.Initiative.
compound source
symmetry
R_factor
R_Free 0.229
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.00
ligand CSD, NA, SO4 enzyme
note 4NYP supersedes 4LU8, 1V9B
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (120 Kb) [Save to disk]
  • Biological Unit Coordinates (4nyp.pdb1.gz) 59 Kb
  • Biological Unit Coordinates (4nyp.pdb2.gz) 58 Kb
  • LPC: Ligand-Protein Contacts for 4NYP
  • CSU: Contacts of Structural Units for 4NYP
  • Structure Factors (590 Kb)
  • Retrieve 4NYP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4NYP from S2C, [Save to disk]
  • Re-refined 4nyp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4NYP 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 4NYP
  • 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 4NYP, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4nyp_D] [4nyp_B] [4nyp_E] [4nyp_A] [4nyp_C] [4nyp_F] [4nyp]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4NYP
  • Community annotation for 4NYP at PDBWiki (http://pdbwiki.org)

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