4Y7U Transferase date Feb 16, 2015
title Structural Analysis Of Muru
authors M.G.Renner-Schneck, T.Stehle
compound source
Molecule: Nucleotidyl Transferase
Chain: A
Synonym: Muru
Engineered: Yes
Organism_scientific: Pseudomonas Putida (Strain Bird-1)
Organism_taxid: 931281
Strain: Bird-1
Gene: Ppubird1_0444
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet29b
symmetry Space Group: P 61 2 2
R_factor 0.228 R_Free 0.264
crystal
cell
length a length b length c angle alpha angle beta angle gamma
72.750 72.750 163.130 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.70 Å
ligand 2KH, 491, GOL, MG, SO4 enzyme
Gene PPUBIRD1
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structure of the N-acetylmuramic acid alpha-1-phosphate (MurNAc-alpha1P) uridylytransferase MurU, a minimal sugar-nucleotidyltransferase and potential drug target enzyme in Gram-negative pathogens., Renner-Schneck M, Hinderberger I, Gisin J, Exner T, Mayer C, Stehle T, J Biol Chem. 2015 Mar 12. pii: jbc.M114.620989. PMID:25767118
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (79 Kb) [Save to disk]
  • Biological Unit Coordinates (4y7u.pdb1.gz) 74 Kb
  • LPC: Ligand-Protein Contacts for 4Y7U
  • CSU: Contacts of Structural Units for 4Y7U
  • Structure Factors (243 Kb)
  • Retrieve 4Y7U in mmCIF format [Save to disk]
  • Re-refined 4y7u structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4Y7U 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 4Y7U
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4Y7U, from MSDmotif at EBI
  • Fold representative 4y7u from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4y7u] [4y7u_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4Y7U
  • Community annotation for 4Y7U at PDBWiki (http://pdbwiki.org)

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