3K1R Structural Protein date Sep 28, 2009
title Structure Of Harmonin Npdz1 In Complex With The Sam-Pbm Of Sans
authors L.Pan, J.Yan, M.Zhang
compound source
Molecule: Harmonin
Chain: A
Fragment: Npdz1 Domain, Residues 1-192
Synonym: Harmonin Scaffold Protein, Usher Syndrome Type-1c Protein, Autoimmune Enteropathy-Related Antigen Aie-75, Antigen Ny-Co-38ny-Co-37, Pdz-73 Protein, Renal Carcinoma Antigen Ny-Ren-3;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ush1c
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet32a

Molecule: Usher Syndrome Type-1g Protein
Chain: B
Fragment: Sam-Pbm Domain, Residues 388-461
Synonym: Sans Scaffold Protein, Scaffold Protein Containing Ankyrin Repeats And Sam Domain;
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ush1g
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet32a
symmetry Space Group: P 1 21 1
R_factor 0.210 R_Free 0.256
crystal
cell
length a length b length c angle alpha angle beta angle gamma
59.603 57.775 59.505 90.00 104.63 90.00
method X-Ray Diffractionresolution 2.30 Å
note 3K1R is a representative structure
Primary referenceThe structure of the harmonin/sans complex reveals an unexpected interaction mode of the two Usher syndrome proteins., Yan J, Pan L, Chen X, Wu L, Zhang M, Proc Natl Acad Sci U S A. 2010 Feb 8. PMID:20142502
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk]
  • Biological Unit Coordinates (3k1r.pdb1.gz) 48 Kb
  • CSU: Contacts of Structural Units for 3K1R
  • Structure Factors (876 Kb)
  • Retrieve 3K1R in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3K1R from S2C, [Save to disk]
  • Re-refined 3k1r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3K1R 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 3K1R
  • 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 3K1R, from MSDmotif at EBI
  • Fold representative 3k1r from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3k1r_A] [3k1r_B] [3k1r]
  • SWISS-PROT database: [Q9Y6N9] [Q495M9]
  • Domain organization of [USH1C_HUMAN] [USH1G_HUMAN] by SWISSPFAM
  • Domains found in 3K1R: [PDZ] [SAM ] by SMART
  • Other resources with information on 3K1R
  • Community annotation for 3K1R 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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