5H5O Biosynthetic Protein date Nov 08, 2016
title A Cyclic-Gmp-Dependent Signalling Pathway Regulates Bacteria Phytopathogenesis
authors K.H.Chin, S.H.Chou
compound source
Molecule: Diguanylate Cyclase
Chain: A, B
Fragment: Unp Residues 23-151
Synonym: Xc0249
Engineered: Yes
 Organism_scientific: Xanthomonas Campestris Pv. Campestris B100);
Organism_taxid: 509169
Strain: B100
Expression_system: Escherichia Coli-Pichia Pastoris Shuttle Ppparg4;
Expression_system_taxid: 1182032
symmetry Space Group: P 31
R_factor 0.223 R_Free 0.259
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.648 48.648 118.090 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.12 Å
ligand MSE, PCG enzyme
note 5H5O supersedes 4KG1
Primary referenceA cyclic GMP-dependent signalling pathway regulates bacterial phytopathogenesis., An SQ, Chin KH, Febrer M, McCarthy Y, Yang JG, Liu CL, Swarbreck D, Rogers J, Maxwell Dow J, Chou SH, Ryan RP, EMBO J. 2013 Sep 11;32(18):2430-8. doi: 10.1038/emboj.2013.165. Epub 2013 Jul 23. PMID:23881098
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (49 Kb) [Save to disk]
  • Biological Unit Coordinates (5h5o.pdb1.gz) 43 Kb
  • LPC: Ligand-Protein Contacts for 5H5O
  • CSU: Contacts of Structural Units for 5H5O
  • Structure Factors (329 Kb)
  • Retrieve 5H5O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5H5O from S2C, [Save to disk]
  • Re-refined 5h5o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5H5O 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 5H5O
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5h5o] [5h5o_B] [5h5o_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5H5O
  • Community annotation for 5H5O at PDBWiki (http://pdbwiki.org)

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