3AGU Metal Binding Protein date Apr 06, 2010
title Hemerythrin-Like Domain Of Dcrh (Semimet-R)
authors A.Onoda, Y.Okamoto, H.Sugimoto, E.Mizohata, T.Inoue, Y.Shiro, T.Ha
compound source
Molecule: Hemerythrin-Like Domain Protein Dcrh
Chain: A, B
Engineered: Yes
 Organism_scientific: Desulfovibrio Vulgaris
Organism_taxid: 881
Strain: Hildenborough
Gene: Dcrh
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-16b
symmetry Space Group: P 1
R_factor 0.247 R_Free 0.292
crystal
cell
length a length b length c angle alpha angle beta angle gamma
33.425 44.903 48.076 95.21 103.98 89.95
method X-Ray Diffractionresolution 1.81 Å
ligand CFO enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (86 Kb) [Save to disk]
  • Biological Unit Coordinates (3agu.pdb1.gz) 41 Kb
  • Biological Unit Coordinates (3agu.pdb2.gz) 40 Kb
  • LPC: Ligand-Protein Contacts for 3AGU
  • CSU: Contacts of Structural Units for 3AGU
  • Structure Factors (364 Kb)
  • Retrieve 3AGU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3AGU from S2C, [Save to disk]
  • Re-refined 3agu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3AGU 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 3AGU
  • 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 3AGU, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3agu_A] [3agu] [3agu_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3AGU
  • Community annotation for 3AGU 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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