3HRO Transport Protein date Jun 09, 2009
title Crystal Structure Of A C-Terminal Coiled Coil Domain Of Transient Receptor Potential (Trp) Channel Subfamily P Member 2 (Trpp2, Polycystic Kidney Disease 2)
authors Y.Yu, M.H.Ulbrich, M.H.Li, Z.Buraei, X.Z.Chen, A.C.M.Ong, L.Tong, E.Y.Isacoff, J.Yang
compound source
Molecule: Transient Receptor Potential (Trp) Channel Subfamily P Member 2 (Trpp2), Also Called Polycystin-2 Or Polycystic Kidney Diseas 2(Pkd2);
Chain: A
Fragment: C-Terminal Of Coiled Coil Domain, Unp Residues 833-872;
Synonym: Polycystin-2, 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_strain: Rosetta 2(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-28a(+)
symmetry Space Group: P 63
R_factor 0.194 R_Free 0.227
crystal
cell
length a length b length c angle alpha angle beta angle gamma
32.388 32.388 70.300 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.90 Å
note 3HRO is a representative structure
Primary referenceStructural and molecular basis of the assembly of the TRPP2/PKD1 complex., Yu Y, Ulbrich MH, Li MH, Buraei Z, Chen XZ, Ong AC, Tong L, Isacoff EY, Yang J, Proc Natl Acad Sci U S A. 2009 Jul 14;106(28):11558-63. Epub 2009 Jun 25. PMID:19556541
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (11 Kb) [Save to disk]
  • Biological Unit Coordinates (3hro.pdb1.gz) 14 Kb
  • CSU: Contacts of Structural Units for 3HRO
  • Likely Quarternary Molecular Structure file(s) for 3HRO
  • Structure Factors (26 Kb)
  • Retrieve 3HRO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3HRO from S2C, [Save to disk]
  • Re-refined 3hro structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3HRO 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 3HRO
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3HRO, from MSDmotif at EBI
  • Fold representative 3hro from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3hro] [3hro_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 3HRO with the sequences similar proteins can be viewed for 3HRO'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 3HRO
  • Community annotation for 3HRO 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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