4M83 Transferase Antibiotic date Aug 12, 2013
title Ensemble Refinement Of Protein Crystal Structure (2iyf) Of M Glycosyltransferases Oled Complexed With Udp And Erythromyc
authors F.Wang, K.E.Helmich, W.Xu, S.Singh, J.L.Olmos Jr., E.Martinez Iii C.A.Bingman, J.S.Thorson, G.N.Phillips Jr., Enzyme Discovery F Natural Product Biosynthesis (Natpro)
compound source
Molecule: Oleandomycin Glycosyltransferase
Chain: A, B
Engineered: Yes
Organism_scientific: Streptomyces Antibioticus
Organism_taxid: 1890
Gene: Oled
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.160 R_Free 0.201
length a length b length c angle alpha angle beta angle gamma
72.718 65.778 91.940 90.00 100.42 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand ERY, MG, UDP enzyme
A, B

Primary referenceThe crystal structure of two macrolide glycosyltransferases provides a blueprint for host cell antibiotic immunity., Bolam DN, Roberts S, Proctor MR, Turkenburg JP, Dodson EJ, Martinez-Fleites C, Yang M, Davis BG, Davies GJ, Gilbert HJ, Proc Natl Acad Sci U S A. 2007 Mar 27;104(13):5336-41. Epub 2007 Mar 21. PMID:17376874
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (4801 Kb) [Save to disk]
  • Biological Unit Coordinates (4m83.pdb1.gz) 125 Kb
  • Biological Unit Coordinates (4m83.pdb2.gz) 124 Kb
  • LPC: Ligand-Protein Contacts for 4M83
  • CSU: Contacts of Structural Units for 4M83
  • Structure Factors (1004 Kb)
  • Retrieve 4M83 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4M83 from S2C, [Save to disk]
  • View 4M83 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 4M83
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4M83, from MSDmotif at EBI
  • Fold representative 4m83 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4m83] [4m83_B] [4m83_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4M83
  • Community annotation for 4M83 at PDBWiki (http://pdbwiki.org)

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