1YMG Membrane Protein date Jan 20, 2005
title The Channel Architecture Of Aquaporin O At 2.2 Angstrom Reso
authors W.E.C.Harries, D.Akhavan, L.J.W.Miercke, S.Khademi, R.M.Stroud
compound source
Molecule: Lens Fiber Major Intrinsic Protein
Chain: A
Synonym: Mip26, Mp26, Aqp0
 Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Organ: Eye
Tissue: Lens
Cell: Fiber
Cellular_location: Plasma Membrane
Other_details: Ocular Lens Fiber Cell Plasma Membrane
symmetry Space Group: P 4 21 2
R_factor 0.240 R_Free 0.303
crystal
cell
length a length b length c angle alpha angle beta angle gamma
110.531 110.531 53.390 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.24 Å
ligand BNG enzyme
note 1YMG (Molecule of the Month:pdb173)supersedes 1TM8
related structures by homologous chain: 1SOR
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe channel architecture of aquaporin 0 at a 2.2-A resolution., Harries WE, Akhavan D, Miercke LJ, Khademi S, Stroud RM, Proc Natl Acad Sci U S A 2004 Sep 28;101(39):14045-50. Epub 2004 Sep 17. PMID:15377788
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (44 Kb) [Save to disk]
  • Biological Unit Coordinates (1ymg.pdb1.gz) 155 Kb
  • LPC: Ligand-Protein Contacts for 1YMG
  • CSU: Contacts of Structural Units for 1YMG
  • Likely Quarternary Molecular Structure file(s) for 1YMG
  • Structure Factors (219 Kb)
  • Retrieve 1YMG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YMG from S2C, [Save to disk]
  • Re-refined 1ymg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1YMG 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 1YMG
  • 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 1YMG, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ymg] [1ymg_A]
  • SWISS-PROT database: [P06624]
  • Belongs to the major intrinsic protein (mip) family according to TCDB.
  • Domain organization of [MIP_BOVIN] by SWISSPFAM
    • Other resources with information on 1YMG
  • Community annotation for 1YMG 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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