2A3Y Metal Binding Protein date Jun 27, 2005
title Pentameric Crystal Structure Of Human Serum Amyloid P-Compon To Bis-1,2-{[(Z)-2carboxy-2-Methyl-1,3-Dioxane]-5-Yloxycarb Ethane.
authors J.G.Ho, P.I.Kitov, E.Paszkiewicz, J.Sadowska, D.R.Bundle, K.K.Ng
compound source
Molecule: Serum Amyloid P-Component
Chain: A, B, C, D, E
Synonym: Sap, 9.5s Alpha-1-Glycoprotein
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor 0.216 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
94.715 69.956 101.367 90.00 97.09 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand CA, CPJ enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, E, B
  • negative regulation of monoc...

  • Primary referenceLigand-assisted Aggregation of Proteins: DIMERIZATION OF SERUM AMYLOID P COMPONENT BY BIVALENT LIGANDS., Ho JG, Kitov PI, Paszkiewicz E, Sadowska J, Bundle DR, Ng KK, J Biol Chem 2005 Sep 9;280(36):31999-2008. Epub 2005 Jul 20. PMID:16036920
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (179 Kb) [Save to disk]
  • Biological Unit Coordinates (2a3y.pdb1.gz) 172 Kb
  • LPC: Ligand-Protein Contacts for 2A3Y
  • CSU: Contacts of Structural Units for 2A3Y
  • Likely Quarternary Molecular Structure file(s) for 2A3Y
  • Structure Factors (664 Kb)
  • Retrieve 2A3Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2A3Y from S2C, [Save to disk]
  • Re-refined 2a3y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2A3Y 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 2A3Y
  • 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 2A3Y, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2a3y_E] [2a3y_A] [2a3y_C] [2a3y_B] [2a3y] [2a3y_D]
  • SWISS-PROT database: [P02743]
  • Belongs to the pentraxin (pentraxin) family according to TCDB.
  • Domain organization of [SAMP_HUMAN] by SWISSPFAM
  • Domain found in 2A3Y: [PTX ] by SMART
  • Other resources with information on 2A3Y
  • Community annotation for 2A3Y 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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