3GFY Hydrolase, Signaling Protein date Feb 27, 2009
title Klebsiella Pneumoniae Blrp1 With Fmn And Cyclic Digmp, No Me
authors T.Barends, E.Hartmann, J.Griese, T.Beitlich, N.Kirienko, D.Ryjenk J.Reinstein, R.Shoeman, M.Gomelsky, I.Schlichting
compound source
Molecule: Klebsiella Pneumoniae Blrp1
Chain: A, B
Engineered: Yes
 Organism_scientific: Klebsiella Pneumoniae Subsp. Pneumonia 78578;
Organism_taxid: 272620
Gene: Blrp1, Kpn78578_15680, Kpn_01598
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta 2 (De-3)
Expression_system_vector_type: Pet28-Derived
symmetry Space Group: P 21 21 21
R_factor 0.258 R_Free 0.286
crystal
cell
length a length b length c angle alpha angle beta angle gamma
68.430 96.530 127.070 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand C2E, FMN enzyme
Gene KPN78578 ; KPN
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • blue light photoreceptor act...


    • Primary referenceStructure and mechanism of a bacterial light-regulated cyclic nucleotide phosphodiesterase., Barends TR, Hartmann E, Griese JJ, Beitlich T, Kirienko NV, Ryjenkov DA, Reinstein J, Shoeman RL, Gomelsky M, Schlichting I, Nature. 2009 Jun 18;459(7249):1015-8. PMID:19536266
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (125 Kb) [Save to disk]
  • Biological Unit Coordinates (3gfy.pdb1.gz) 119 Kb
  • LPC: Ligand-Protein Contacts for 3GFY
  • CSU: Contacts of Structural Units for 3GFY
  • Likely Quarternary Molecular Structure file(s) for 3GFY
  • Structure Factors (208 Kb)
  • Retrieve 3GFY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3GFY from S2C, [Save to disk]
  • Re-refined 3gfy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3GFY 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 3GFY
  • 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 3GFY, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3gfy_A] [3gfy_B] [3gfy]
  • SWISS-PROT database: [A6T8V8]
  • Domain organization of [A6T8V8_KLEP7] by SWISSPFAM
  • Domains found in 3GFY: [BLUF] [EAL ] by SMART
    • Other resources with information on 3GFY
  • Community annotation for 3GFY 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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