5OV6 Transferase date Aug 28, 2017
title Bacillus Megaterium Porphobilinogen Deaminase D82n Mutant
authors J.Guo, P.Erskine, A.R.Coker, S.P.Wood, J.B.Cooper
compound source
Molecule: Porphobilinogen Deaminase
Chain: A
Synonym: Pbg,Hydroxymethylbilane Synthase,Hmbs,Pre-Uroporph Synthase;
Ec: 2.5.1.61
Engineered: Yes
 Organism_scientific: Bacillus Megaterium
Organism_taxid: 1404
Gene: Hemc
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.210 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.990 62.690 91.260 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.87 Å
ligand AWQ enzyme Transferase E.C.2.5.1.61 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural studies of domain movement in active-site mutants of porphobilinogen deaminase from Bacillus megaterium., Guo J, Erskine P, Coker AR, Wood SP, Cooper JB, Acta Crystallogr F Struct Biol Commun. 2017 Nov 1;73(Pt 11):612-620. doi:, 10.1107/S2053230X17015436. Epub 2017 Oct 30. PMID:29095155
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (53 Kb) [Save to disk]
  • Biological Unit Coordinates (5ov6.pdb1.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 5OV6
  • CSU: Contacts of Structural Units for 5OV6
  • Structure Factors (490 Kb)
  • Retrieve 5OV6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5OV6 from S2C, [Save to disk]
    • View 5OV6 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 5OV6
  • 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: [5ov6_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5OV6
  • Community annotation for 5OV6 at PDBWiki (http://pdbwiki.org)

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