2EMR Transferase date Mar 28, 2007
title Mutant L65m Structure Of Ph0725 From Pyrococcus Horikoshii O
authors K.Shimizu, Riken Structural Genomicsproteomics Initiative (R
compound source
Molecule: Probable Diphthine Synthase
Chain: A, B
Synonym: Diphthamide Biosynthesis Methyltransferase
Ec: 2.1.1.98
Engineered: Yes
Mutation: Yes
Organism_scientific: Pyrococcus Horikoshii
Organism_taxid: 70601
Strain: Ot3
Gene: Dphb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-Codonplus(De3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11a
symmetry Space Group: P 41 21 2
R_factor 0.196 R_Free 0.226
crystal
cell
length a length b length c angle alpha angle beta angle gamma
105.597 105.597 139.682 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand NA, SAH enzyme Transferase E.C.2.1.1.98 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (94 Kb) [Save to disk]
  • Biological Unit Coordinates (2emr.pdb1.gz) 90 Kb
  • LPC: Ligand-Protein Contacts for 2EMR
  • CSU: Contacts of Structural Units for 2EMR
  • Likely Quarternary Molecular Structure file(s) for 2EMR
  • Structure Factors (261 Kb)
  • Retrieve 2EMR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2EMR from S2C, [Save to disk]
  • Re-refined 2emr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2EMR 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 2EMR
  • 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 2EMR, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2emr_A] [2emr_B] [2emr]
  • SWISS-PROT database: [O58456]
  • Domain organization of [DPHB_PYRHO] by SWISSPFAM
  • Other resources with information on 2EMR
  • Community annotation for 2EMR 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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