2AGA Transcription date Jul 26, 2005
title De-Ubiquitinating Function Of Ataxin-3: Insights From The Solution Structure Of The Josephin Domain
authors Y.Mao, F.Senic-Matuglia, P.Di Fiore, S.Polo, M.E.Hodsdon, P.De Camilli
compound source
Molecule: Machado-Joseph Disease Protein 1
Chain: A
Fragment: Josephin Domain
Synonym: Ataxin-3, Spinocerebellar Ataxia Type 3 Protein
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Atxn3, Atx3, Mjd, Mjd1, Sca3
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex6p-1
methodSolution NMR
Primary referenceDeubiquitinating function of ataxin-3: insights from the solution structure of the Josephin domain., Mao Y, Senic-Matuglia F, Di Fiore PP, Polo S, Hodsdon ME, De Camilli P, Proc Natl Acad Sci U S A. 2005 Sep 6;102(36):12700-5. Epub 2005 Aug 23. PMID:16118278
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1016 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 2AGA
  • Original NMR restraints for 2AGA from PDB
  • Experimental data, such as chemical shifts, at BioMagResBank (BMRB)
  • NMR Restraints Grid from BioMagResBank (BMRB)
  • Retrieve 2AGA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2AGA from S2C, [Save to disk]
  • View 2AGA 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 2AGA
  • 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 2AGA, from MSDmotif at EBI
  • Fold representative 2aga from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2aga] [2aga_A]
  • SWISS-PROT database: [P54252]
  • Domain organization of [ATX3_HUMAN] by SWISSPFAM
  • Domain found in 2AGA: [Josephin ] by SMART
  • Alignments of the sequence of 2AGA with the sequences similar proteins can be viewed for 2AGA's classification [ATX3_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [ATX3_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2AGA
  • Community annotation for 2AGA 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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