2KLD Membrane Protein date Jul 01, 2009
title Solution Structure Of The Calcium Binding Domain Of The C- Terminal Cytosolic Domain Of Polycystin-2
authors H.R.Kalbitzer
compound source
Molecule: Polycystin-2
Chain: A
Fragment: Residues 680-796
Synonym: Polycystic Kidney Disease 2 Protein, Autosomal Dominant Polycystic Kidney Disease Type II Protein, Polycystwin, R48321;
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pkd2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Vector
Expression_system_vector: Pet41a
methodSolution NMR
Primary referenceNMR-assignments of a cytosolic domain of the C-terminus of polycystin-2., Schumann FH, Hoffmeister H, Schmidt M, Bader R, Besl E, Witzgall R, Kalbitzer HR, Biomol NMR Assign. 2009 Jun;3(1):141-4. Epub 2009 Apr 10. PMID:19636966
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (195 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 2KLD
  • Original NMR restraints for 2KLD from PDB
  • Retrieve 2KLD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2KLD from S2C, [Save to disk]
    • View 2KLD 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 2KLD
  • 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 2KLD, from MSDmotif at EBI
  • Fold representative 2kld from FSSP and Dali (Families of Structurally Similar Proteins)
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2kld_A]
  • SWISS-PROT database: [Q13563]
  • Belongs to the polycystin cation channel (pcc) family according to TCDB.
  • Domain organization of [PKD2_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 2KLD with the sequences similar proteins can be viewed for 2KLD's classification [PKD2_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 [PKD2_HUMAN] at ProtoMap. Click on the Cluster number.
    • Other resources with information on 2KLD
  • Community annotation for 2KLD 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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