1RK9 Metal Binding Protein date Nov 21, 2003
title Solution Structure Of Human Alpha-Parvalbumin (Minimized Average Structure)
authors I.Baig, I.Bertini, C.Del Bianco, Y.K.Gupta, Y.M.Lee, C.Luchinat, A.Quattrone, Structural Proteomics In Europe (Spine)
compound source
Molecule: Parvalbumin Alpha
Chain: A
Synonym: Alpha-Parvalbumin; Parvalbumin
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
methodSolution NMR
ligand CA enzyme
related structures by homologous chain: 1DFJ, 1RJV
Gene
Ontology
ChainFunctionProcessComponent
A
  • calcium ion binding
  • metal ion binding

  • cytoplasm
  • axon
    • Primary referenceParamagnetism-based refinement strategy for the solution structure of human alpha-parvalbumin., Baig I, Bertini I, Del Bianco C, Gupta YK, Lee YM, Luchinat C, Quattrone A, Biochemistry 2004 May 11;43(18):5562-73. PMID:15122922
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (31 Kb) [Save to disk]
  • LPC: Ligand-Protein Contacts for 1RK9
  • CSU: Contacts of Structural Units for 1RK9
  • Experimental data, such as chemical shifts, at BioMagResBank (BMRB)
  • NMR Restraints Grid from BioMagResBank (BMRB)
  • Retrieve 1RK9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1RK9 from S2C, [Save to disk]
    • View 1RK9 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.
  • On AstexViewer, from MSD-EBI (viewer documentation).
  • On RasMol (Install RasMol freeware) Here's help on how to use RasMol.
    • Visual 3D analysis of 1RK9
  • 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 1RK9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1rk9a_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1rk9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1rk9_A]
  • SWISS-PROT database: [P20472]
  • Domain organization of [PRVA_HUMAN] by SWISSPFAM
  • Domain found in 1RK9: [EFh ] by SMART
  • Alignments of the sequence of 1RK9 with the sequences similar proteins can be viewed for 1RK9's classification [PRVA_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 [PRVA_HUMAN] at ProtoMap. Click on the Cluster number.
    • Other resources with information on 1RK9
  • Community annotation for 1RK9 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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