1NM7 Protein Transport date Jan 09, 2003
title Solution Structure Of The Scpex13p Sh3 Domain
authors J.R.Pires, X.Hong, C.Brockmann, R.Volkmer-Engert, J.Schneider-Me H.Oschkinat, R.Erdmann
compound source
Molecule: Peroxisomal Membrane Protein Pas20
Chain: A
Fragment: Sh3 Domain
Synonym: Pex13p Sh3 Domain
Engineered: Yes
 Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21-De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-4t2
methodSolution NMR
related structures by homologous chain: 1N5Z
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe ScPex13p SH3 domain exposes two distinct binding sites for Pex5p and Pex14p., Pires JR, Hong X, Brockmann C, Volkmer-Engert R, Schneider-Mergener J, Oschkinat H, Erdmann R, J Mol Biol 2003 Mar 7;326(5):1427-35. PMID:12595255
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (169 Kb) [Save to disk]
  • Biological Unit Coordinates (1nm7.pdb1.gz) 17 Kb
  • CSU: Contacts of Structural Units for 1NM7
  • Original NMR restraints for 1NM7 from PDB
  • Retrieve 1NM7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NM7 from S2C, [Save to disk]
    • View 1NM7 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 1NM7
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1NM7, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1nm7a_, region A [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1nm7_A] [1nm7]
  • SWISS-PROT database: [P80667]
  • Belongs to the peroxisomal protein importer (ppi) family according to TCDB.
  • Domain organization of [PEX13_YEAST] by SWISSPFAM
  • Domain found in 1NM7: [SH3 ] by SMART
    • Other resources with information on 1NM7
  • Community annotation for 1NM7 at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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