2FMA Metal Binding Protein date Jan 08, 2006
title Structure Of The Alzheimer'S Amyloid Precursor Protein (App) Binding Domain In 'Small Unit Cell' Form, Atomic Resolution
authors G.K.W.Kong
compound source
Molecule: Amyloid Beta A4 Protein Precursor
Chain: A
Fragment: Copper Binding Domain(Residues 133-189)
Synonym: Amyloid Precursor Protein, Amyloid Beta A4 Protein App-Alpha, Soluble App-Beta;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_strain: Gs115
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppic-9
symmetry Space Group: P 21 21 21
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
31.289 32.488 50.088 90.00 90.00 90.00
method X-Ray Diffractionresolution 0.85 Å
ligand GOL enzyme
note 2FMA is a representative structure
Primary referenceStructure of Alzheimer's disease amyloid precursor protein copper-binding domain at atomic resolution., Kong GK, Adams JJ, Cappai R, Parker MW, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2007 Oct 1;63(Pt, 10):819-24. Epub 2007 Sep 19. PMID:17909280
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (29 Kb) [Save to disk]
  • Biological Unit Coordinates (2fma.pdb1.gz) 25 Kb
  • LPC: Ligand-Protein Contacts for 2FMA
  • CSU: Contacts of Structural Units for 2FMA
  • Likely Quarternary Molecular Structure file(s) for 2FMA
  • Structure Factors (291 Kb)
  • Retrieve 2FMA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2FMA from S2C, [Save to disk]
  • Re-refined 2fma structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2FMA 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 2FMA
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2FMA, from MSDmotif at EBI
  • Fold representative 2fma from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2fma_A] [2fma]
  • SWISS-PROT database: [P05067]
  • Belongs to the amyloid β-protein peptide (aβpp) family according to TCDB.
  • Domain organization of [A4_HUMAN] by SWISSPFAM
  • Other resources with information on 2FMA
  • Community annotation for 2FMA 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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