6VDR Oxidoreductase date Dec 27, 2019
title Crystal Structure Of Dehaloperoxidase B In Complex With Cofa Iron(III) Deuteroporphyrin Ix And Substrate 4-Bromophenol
authors R.A.Ghiladi, V.S.De Serrano, A.Mcguire, T.Malewschik
compound source
Molecule: Dehaloperoxidase B
Chain: A, B
Engineered: Yes
 Organism_scientific: Amphitrite Ornata
Organism_taxid: 129555
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_variant: Gold(De3)Plyss
symmetry Space Group: P 21 21 21
R_factor 0.204 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
59.401 67.641 67.646 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.87 Å
ligand BML, EDO, FDE, SO4 enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (62 Kb) [Save to disk]
  • Biological Unit Coordinates (6vdr.pdb1.gz) 29 Kb
  • Biological Unit Coordinates (6vdr.pdb2.gz) 29 Kb
  • LPC: Ligand-Protein Contacts for 6VDR
  • CSU: Contacts of Structural Units for 6VDR
  • Structure Factors (311 Kb)
  • Retrieve 6VDR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6VDR from S2C, [Save to disk]
    • View 6VDR 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 6VDR
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6vdr_A] [6vdr_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6VDR
  • Community annotation for 6VDR at PDBWiki (http://pdbwiki.org)

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