2NPN Transferase date Oct 27, 2006
title Crystal Structure Of Putative Cobalamin Synthesis Related Pr (Cobf) From Corynebacterium Diphtheriae
authors B.Nocek, M.Zhou, S.Clancy, A.Joachimiak, Midwest Center For Stru Genomics (Mcsg)
compound source
Molecule: Putative Cobalamin Synthesis Related Protein
Chain: A
Engineered: Yes
 Organism_scientific: Corynebacterium Diphtheriae
Organism_taxid: 1717
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmcsg7
symmetry Space Group: C 2 2 21
R_factor 0.172 R_Free 0.198
crystal
cell
length a length b length c angle alpha angle beta angle gamma
77.104 80.845 76.976 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand GOL, MG, MSE, SAM enzyme
note 2NPN is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (53 Kb) [Save to disk]
  • Biological Unit Coordinates (2npn.pdb1.gz) 45 Kb
  • Biological Unit Coordinates (2npn.pdb2.gz) 88 Kb
  • Biological Unit Coordinates (2npn.pdb3.gz) 89 Kb
  • LPC: Ligand-Protein Contacts for 2NPN
  • CSU: Contacts of Structural Units for 2NPN
  • Likely Quarternary Molecular Structure file(s) for 2NPN
  • Structure Factors (236 Kb)
  • Retrieve 2NPN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2NPN from S2C, [Save to disk]
  • Re-refined 2npn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2NPN 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 2NPN
  • 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 2NPN, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2npn] [2npn_A]
  • SWISS-PROT database: [Q6NIF5]
  • Domain organization of [Q6NIF5_CORDI] by SWISSPFAM
    • Other resources with information on 2NPN
  • Community annotation for 2NPN 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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