3GFZ Hydrolase, Signaling Protein date Feb 27, 2009
title Klebsiella Pneumoniae Blrp1 Ph 6 Manganesecy-Digmp Complex
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)
symmetry Space Group: P 21 21 21
R_factor 0.229 R_Free 0.272
crystal
cell
length a length b length c angle alpha angle beta angle gamma
68.450 97.090 127.170 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.05 Å
ligand C2E, FMN, MN 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] (138 Kb) [Save to disk]
  • Biological Unit Coordinates (3gfz.pdb1.gz) 130 Kb
  • LPC: Ligand-Protein Contacts for 3GFZ
  • CSU: Contacts of Structural Units for 3GFZ
  • Likely Quarternary Molecular Structure file(s) for 3GFZ
  • Structure Factors (401 Kb)
  • Retrieve 3GFZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3GFZ from S2C, [Save to disk]
  • Re-refined 3gfz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3GFZ 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 3GFZ
  • 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 3GFZ, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3gfz_B] [3gfz] [3gfz_A]
  • SWISS-PROT database: [A6T8V8]
  • Domain organization of [A6T8V8_KLEP7] by SWISSPFAM
  • Domains found in 3GFZ: [BLUF] [EAL ] by SMART
    • Other resources with information on 3GFZ
  • Community annotation for 3GFZ 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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