3BYR Transport Protein date Jan 16, 2008
title Mode Of Action Of A Putative Zinc Transporter Czrb (Zn Form)
authors V.Cherezov, V.Srinivasan, D.M.E.Szebenyi, M.Caffrey
compound source
Molecule: Czrb Protein
Chain: A
Fragment: Sequence Database Residues 198-291
Engineered: Yes
 Organism_scientific: Thermus Thermophilus
Organism_taxid: 274
Gene: Czrb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pivex2.4d
symmetry Space Group: C 2 2 21
R_factor 0.207 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.750 74.560 43.940 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand ZN enzyme
Primary referenceInsights into the mode of action of a putative zinc transporter CzrB in Thermus thermophilus., Cherezov V, Hofer N, Szebenyi DM, Kolaj O, Wall JG, Gillilan R, Srinivasan V, Jaroniec CP, Caffrey M, Structure. 2008 Sep 10;16(9):1378-88. PMID:18786400
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (23 Kb) [Save to disk]
  • Biological Unit Coordinates (3byr.pdb1.gz) 33 Kb
  • LPC: Ligand-Protein Contacts for 3BYR
  • CSU: Contacts of Structural Units for 3BYR
  • Likely Quarternary Molecular Structure file(s) for 3BYR
  • Structure Factors (120 Kb)
  • Retrieve 3BYR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BYR from S2C, [Save to disk]
  • Re-refined 3byr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3BYR 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 3BYR
  • 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 3BYR, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3byr] [3byr_A]
  • SWISS-PROT database: [Q8VLX7]
  • Belongs to the cation diffusion facilitator (cdf) family according to TCDB.
  • Domain organization of [Q8VLX7_THETH] by SWISSPFAM
    • Other resources with information on 3BYR
  • Community annotation for 3BYR 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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