2YDF Transport Protein date Mar 18, 2011
title Human Serum Albumin Complexed With Iophenoxic Acid
authors A.J.Ryan, S.Curry
compound source
Molecule: Serum Albumin
Chain: A, B
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Blood Serum
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
symmetry Space Group: P 1
R_factor 0.2066 R_Free 0.2393
length a length b length c angle alpha angle beta angle gamma
55.072 55.440 119.845 81.00 90.83 64.52
method X-Ray Diffractionresolution 2.75 Å
ligand IO3 enzyme
A, B
  • antioxidant activity

  • Primary referenceCrystallographic analysis reveals the structural basis of the high-affinity binding of Iophenoxic acid to Human Serum Albumin., Ryan AJ, Chung CW, Curry S, BMC Struct Biol. 2011 Apr 18;11(1):18. PMID:21501503
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (335 Kb) [Save to disk]
  • Biological Unit Coordinates (2ydf.pdb1.gz) 161 Kb
  • Biological Unit Coordinates (2ydf.pdb2.gz) 164 Kb
  • LPC: Ligand-Protein Contacts for 2YDF
  • CSU: Contacts of Structural Units for 2YDF
  • Structure Factors (277 Kb)
  • Retrieve 2YDF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2YDF from S2C, [Save to disk]
  • Re-refined 2ydf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2YDF 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 2YDF
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2YDF, from MSDmotif at EBI
  • Fold representative 2ydf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ydf] [2ydf_A] [2ydf_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2YDF: [ALBUMIN ] by SMART
  • Other resources with information on 2YDF
  • Community annotation for 2YDF 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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