2GYD Metal Binding Protein date May 09, 2006
title Complex Of Equine Apoferritin With The H-Diaziflurane Photol Reagent
authors P.J.Loll, M.J.Rossi, R.Eckenhoff
compound source
Molecule: Ferritin L Subunit
Chain: A
 Organism_scientific: Equus Caballus
Organism_common: Horse
Organism_taxid: 9796
Other_details: Horse Spleen Ferritin
symmetry Space Group: F 4 3 2
R_factor 0.207 R_Free 0.217
crystal
cell
length a length b length c angle alpha angle beta angle gamma
181.890 181.890 181.890 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.72 Å
ligand CD, DFE enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referencePhotoactive analogues of the haloether anesthetics provide high-resolution features from low-affinity interactions., Xi J, Liu R, Rossi MJ, Yang J, Loll PJ, Dailey WP, Eckenhoff RG, ACS Chem Biol. 2006 Jul 21;1(6):377-84. PMID:17163775
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (38 Kb) [Save to disk]
  • Biological Unit Coordinates (2gyd.pdb1.gz) 723 Kb
  • LPC: Ligand-Protein Contacts for 2GYD
  • CSU: Contacts of Structural Units for 2GYD
  • Likely Quarternary Molecular Structure file(s) for 2GYD
  • Structure Factors (236 Kb)
  • Retrieve 2GYD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2GYD from S2C, [Save to disk]
  • Re-refined 2gyd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2GYD 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 2GYD
  • 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 2GYD, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2gyd] [2gyd_A]
  • SWISS-PROT database: [P02791]
  • Domain organization of [FRIL_HORSE] by SWISSPFAM
    • Other resources with information on 2GYD
  • Community annotation for 2GYD 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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