3N3B Oxidoreductase date May 19, 2010
title Ribonucleotide Reductase Dimanganese(II)-Nrdf From Escherich Complex With Reduced Nrdi With A Trapped Peroxide
authors A.K.Boal, J.A.Cotruvo Jr., J.Stubbe, A.C.Rosenzweig
compound source
Molecule: Ribonucleoside-Diphosphate Reductase 2 Subunit Be
Chain: B, A
Synonym: Ribonucleotide Reductase 2, R2f Protein
Ec: 1.17.4.1
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 83333
Strain: K12
Gene: B2676, Jw2651, Nrdf, Ygad
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Protein Nrdi
Chain: C, D
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 83333
Strain: K12
Gene: Nrdi, Ygao, B2674, Jw2649
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.234 R_Free 0.275
crystal
cell
length a length b length c angle alpha angle beta angle gamma
75.723 91.348 144.114 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.36 Å
ligand FMN, MN, PEO enzyme Oxidoreductase E.C.1.17.4.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


D, C


Primary referenceStructural Basis for Activation of Class Ib Ribonucleotide Reductase., Boal AK, Cotruvo JA Jr, Stubbe J, Rosenzweig AC, Science. 2010 Aug 5. PMID:20688982
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (274 Kb) [Save to disk]
  • Biological Unit Coordinates (3n3b.pdb1.gz) 267 Kb
  • LPC: Ligand-Protein Contacts for 3N3B
  • CSU: Contacts of Structural Units for 3N3B
  • Structure Factors (618 Kb)
  • Retrieve 3N3B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3N3B from S2C, [Save to disk]
  • Re-refined 3n3b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3N3B 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 3N3B
  • 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 3N3B, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3n3b_C] [3n3b_A] [3n3b] [3n3b_D] [3n3b_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3N3B
  • Community annotation for 3N3B 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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