2P1D Viral Protein,Transferase date Mar 05, 2007
title Crystal Structure Of Dengue Methyltransferase In Complex Wit S-Adenosyl-L-Homocysteine
authors M.P.Egloff, D.Benarooch, Marseilles Structural Genomics Progra (Msgp)
compound source
Molecule: Type II Methyltransferase
Chain: A
Fragment: Residues 1-296
Ec: 2.7.7.48
Engineered: Yes
Organism_scientific: Dengue Virus 2
Organism_taxid: 11060
Strain: Type 2 New Guinea
Gene: Nsp5
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pqe30
symmetry Space Group: P 31 2 1
R_factor 0.211 R_Free 0.246
crystal
cell
length a length b length c angle alpha angle beta angle gamma
112.198 112.198 56.462 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.90 Å
ligand 5GP, SAH, SO4 enzyme Transferase E.C.2.7.7.48 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAn RNA cap (nucleoside-2'-O-)-methyltransferase in the flavivirus RNA polymerase NS5: crystal structure and functional characterization., Egloff MP, Benarroch D, Selisko B, Romette JL, Canard B, EMBO J 2002 Jun 3;21(11):2757-68. PMID:12032088
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (49 Kb) [Save to disk]
  • Biological Unit Coordinates (2p1d.pdb1.gz) 44 Kb
  • Biological Unit Coordinates (2p1d.pdb2.gz) 86 Kb
  • LPC: Ligand-Protein Contacts for 2P1D
  • CSU: Contacts of Structural Units for 2P1D
  • Likely Quarternary Molecular Structure file(s) for 2P1D
  • Structure Factors (58 Kb)
  • Retrieve 2P1D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2P1D from S2C, [Save to disk]
  • Re-refined 2p1d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2P1D 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 2P1D
  • 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 2P1D, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2p1d] [2p1d_A]
  • SWISS-PROT database: [P12823]
  • Domain organization of [POLG_DEN2P] by SWISSPFAM
  • Other resources with information on 2P1D
  • Community annotation for 2P1D 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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