4PBT Crystal structure of the M. jannaschii G2 tRNA synthetase variant bound to 4-trans-cyclooctene-amidopheylalanine (Tco-amF) date
authors Cooley, R.B., Karplus, P.A., Mehl, R.A.
compound source
symmetry
R_factor
R_Free 0.2542
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.90
ligand 2LQ, GOL, P4G enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceGleaning Unexpected Fruits from Hard-Won Synthetases: Probing Principles of Permissivity in Non-canonical Amino Acid-tRNA Synthetases., Cooley RB, Karplus PA, Mehl RA, Chembiochem. 2014 Jul 11. doi: 10.1002/cbic.201402180. PMID:25044993
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (119 Kb) [Save to disk]
  • Biological Unit Coordinates (4pbt.pdb1.gz) 227 Kb
  • LPC: Ligand-Protein Contacts for 4PBT
  • CSU: Contacts of Structural Units for 4PBT
  • Structure Factors (458 Kb)
  • Retrieve 4PBT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4PBT from S2C, [Save to disk]
  • Re-refined 4pbt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4PBT 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 4PBT
  • 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 4PBT, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4pbt] [4pbt_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4PBT
  • Community annotation for 4PBT at PDBWiki (http://pdbwiki.org)

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