3NKY Transferase date Jun 21, 2010
title Structure Of A Mutant P44s Of Foot-And-Mouth Disease Virus R Dependent Rna Polymerase
authors R.Agudo, C.Ferrer-Orta, A.Arias, R.Perez-Luque, N.Verdaguer, E.Do
compound source
Molecule: 3d Polymerase
Chain: A
Engineered: Yes
Mutation: Yes
 Organism_scientific: Foot-And-Mouth Disease Virus - Type C
Organism_taxid: 12116
Strain: C-S8c1
Gene: 3d
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-28a (Novagen)
symmetry Space Group: P 41 21 2
R_factor 0.240 R_Free 0.265
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.530 93.530 121.010 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.28 Å
ligand MG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceA multi-step process of viral adaptation to a mutagenic nucleoside analogue by modulation of transition types leads to extinction-escape., Agudo R, Ferrer-Orta C, Arias A, de la Higuera I, Perales C, Perez-Luque R, Verdaguer N, Domingo E, PLoS Pathog. 2010 Aug 26;6(8). pii: e1001072. PMID:20865120
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (162 Kb) [Save to disk]
  • Biological Unit Coordinates (3nky.pdb1.gz) 158 Kb
  • LPC: Ligand-Protein Contacts for 3NKY
  • CSU: Contacts of Structural Units for 3NKY
  • Structure Factors (368 Kb)
  • Retrieve 3NKY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3NKY from S2C, [Save to disk]
  • Re-refined 3nky structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3NKY 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 3NKY
  • 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 3NKY, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3nky_A] [3nky]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3NKY
  • Community annotation for 3NKY at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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