2YGJ Metal Transport date Apr 18, 2011
title Methanobactin Mb4
authors A.Ghazouani, A.Basle, S.J.Firbank, J.Gray, C.Dennison
compound source
Molecule: Methanobactin Mb4
Chain: A
 Organism_scientific: Methylocystis Sp.
Organism_taxid: 51782
Strain: M
symmetry Space Group: P 21 21 21
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
9.060 13.320 42.650 90.00 90.00 90.00
method X-Ray Diffractionresolution 0.80 Å
ligand CU, HM8, HM9, NA enzyme
Primary referenceVariations in methanobactin structure influences copper utilization by methane-oxidizing bacteria., El Ghazouani A, Basle A, Gray J, Graham DW, Firbank SJ, Dennison C, Proc Natl Acad Sci U S A. 2012 May 29;109(22):8400-4. Epub 2012 May 10. PMID:22582172
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (7 Kb) [Save to disk]
  • Biological Unit Coordinates (2ygj.pdb1.gz) 4 Kb
  • LPC: Ligand-Protein Contacts for 2YGJ
  • CSU: Contacts of Structural Units for 2YGJ
  • Structure Factors (44 Kb)
  • Retrieve 2YGJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2YGJ from S2C, [Save to disk]
  • Re-refined 2ygj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2YGJ 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 2YGJ
  • 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 2YGJ, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ygj_A] [2ygj]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 2YGJ
  • Community annotation for 2YGJ at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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