5AK8 Structure of C351A mutant of Porphyromonas gingivalis peptidylarginine deiminase date
authors Kopec, J., Montgomery, A., Shrestha, L., Kiyani, W., Nowak, R., Burgess-Brown, N., Venables, P.J., Yue, W.W.
compound source
symmetry
R_factor
R_Free 0.16444
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.48
ligand ALA, ARG, EDO, NA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structure of Porphyromonas gingivalis peptidylarginine deiminase: implications for autoimmunity in rheumatoid arthritis., Montgomery AB, Kopec J, Shrestha L, Thezenas ML, Burgess-Brown NA, Fischer R, Yue WW, Venables PJ, Ann Rheum Dis. 2015 Jul 24. pii: annrheumdis-2015-207656. doi:, 10.1136/annrheumdis-2015-207656. PMID:26209657
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (165 Kb) [Save to disk]
  • Biological Unit Coordinates (5ak8.pdb1.gz) 159 Kb
  • LPC: Ligand-Protein Contacts for 5AK8
  • CSU: Contacts of Structural Units for 5AK8
  • Structure Factors (3879 Kb)
  • Retrieve 5AK8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5AK8 from S2C, [Save to disk]
  • Re-refined 5ak8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5AK8 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 5AK8
  • 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: [5ak8] [5ak8_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5AK8
  • Community annotation for 5AK8 at PDBWiki (http://pdbwiki.org)

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