3E6C Transcription Regulation Dna date Aug 15, 2008
title Cprk Ocpa Dna Complex
authors C.Levy
compound source
Molecule: Cyclic Nucleotide-Binding Protein
Chain: C
Synonym: Cprk
Engineered: Yes
Mutation: Yes
Organism_scientific: Desulfitobacterium Hafniense
Organism_taxid: 272564
Strain: Dcb-2
Gene: Dhaf_0678
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptrc99

Molecule: Dna (5'- D(Pdgpdcpdapdtpdtpdapdapdcpdapdtpdgpdcpdc)-3')
Chain: B
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdgpdgpdcpdapdtpdgpdtpdtpdapdapdtpdgpdc)-3')
Chain: A
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 62 2 2
R_factor 0.217 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
100.600 100.600 149.660 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.80 Å
ligand 3C4 enzyme
Gene DHAF
Gene
Ontology
ChainFunctionProcessComponent
C


Primary referenceMolecular basis of halorespiration control by CprK, a CRP-FNR type transcriptional regulator., Levy C, Pike K, Heyes DJ, Joyce MG, Gabor K, Smidt H, van der Oost J, Leys D, Mol Microbiol. 2008 Aug 20. PMID:18717788
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (57 Kb) [Save to disk]
  • Biological Unit Coordinates (3e6c.pdb1.gz) 101 Kb
  • LPC: Ligand-Protein Contacts for 3E6C
  • CSU: Contacts of Structural Units for 3E6C
  • Likely Quarternary Molecular Structure file(s) for 3E6C
  • Structure Factors (258 Kb)
  • Retrieve 3E6C in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3E6C from S2C, [Save to disk]
  • Re-refined 3e6c structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3E6C 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 3E6C
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3E6C, from MSDmotif at EBI
  • Fold representative 3e6c from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3e6c_B] [3e6c_A] [3e6c_C] [3e6c]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3E6C: [HTH_CRP] [cNMP ] by SMART
  • Other resources with information on 3E6C
  • Community annotation for 3E6C 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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