5Y72 Transferase date Aug 16, 2017
title Dmspp Bound Ambp3
authors C.P.Wong, T.Awakawa, Y.Nakashima
compound source
Molecule: Ambp3
Chain: A, B
Engineered: Yes
 Organism_scientific: Fischerella Ambigua Utex 1903
Organism_taxid: 230521
Gene: Ambp3
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768
symmetry Space Group: P 1
R_factor 0.181 R_Free 0.203
crystal
cell
length a length b length c angle alpha angle beta angle gamma
46.394 55.080 77.668 105.41 106.02 98.79
method X-Ray Diffractionresolution 1.65 Å
ligand DST enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceTwo Distinct Substrate Binding Modes for the Normal and Reverse Prenylation of Hapalindoles by the Prenyltransferase AmbP3., Wong CP, Awakawa T, Nakashima Y, Mori T, Zhu Q, Liu X, Abe I, Angew Chem Int Ed Engl. 2018 Jan 8;57(2):560-563. doi: 10.1002/anie.201710682., Epub 2017 Dec 15. PMID:29178634
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (105 Kb) [Save to disk]
  • Biological Unit Coordinates (5y72.pdb1.gz) 51 Kb
  • Biological Unit Coordinates (5y72.pdb2.gz) 51 Kb
  • LPC: Ligand-Protein Contacts for 5Y72
  • CSU: Contacts of Structural Units for 5Y72
  • Structure Factors (2079 Kb)
  • Retrieve 5Y72 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5Y72 from S2C, [Save to disk]
    • View 5Y72 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 5Y72
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5y72_B] [5y72_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5Y72
  • Community annotation for 5Y72 at PDBWiki (http://pdbwiki.org)

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