5N9X Ligase date Feb 27, 2017
title Structure Of Adenylation Domain Thr1 Involved In The Biosynt 4-Chlorothreonine In Streptomyces Sp.Oh-5093, Ligand Bound
authors C.Savino, B.Vallone, A.Scaglione, G.Parisi, L.C.Montemiglio, M.R. I.Grgurina
compound source
Molecule: Adenylation Domain
Chain: A, B
Engineered: Yes
 Organism_scientific: Streptomyces Sp.
Organism_taxid: 1931
Gene: Thr1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
symmetry Space Group: C 1 2 1
R_factor 0.199 R_Free 0.276
crystal
cell
length a length b length c angle alpha angle beta angle gamma
179.022 52.524 110.119 90.00 105.95 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand 8QN, ATP, MG, THR enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructure of the adenylation domain Thr1 involved in the biosynthesis of 4-chlorothreonine in Streptomyces sp. OH-5093-protein flexibility and molecular bases of substrate specificity., Scaglione A, Fullone MR, Montemiglio LC, Parisi G, Zamparelli C, Vallone B, Savino C, Grgurina I, FEBS J. 2017 Sep;284(18):2981-2999. doi: 10.1111/febs.14163. Epub 2017 Aug 7. PMID:28704585
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (167 Kb) [Save to disk]
  • Biological Unit Coordinates (5n9x.pdb1.gz) 83 Kb
  • Biological Unit Coordinates (5n9x.pdb2.gz) 82 Kb
  • LPC: Ligand-Protein Contacts for 5N9X
  • CSU: Contacts of Structural Units for 5N9X
  • Structure Factors (433 Kb)
  • Retrieve 5N9X in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5N9X from S2C, [Save to disk]
  • Re-refined 5n9x structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5N9X 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 5N9X
  • 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: [5n9x_B] [5n9x_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5N9X
  • Community annotation for 5N9X at PDBWiki (http://pdbwiki.org)

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