1YK1 Hormone Growth Factor Receptor date Jan 16, 2005
title Structure Of Natriuretic Peptide Receptor-C Complexed With B Natriuretic Peptide
authors X.He, K.C.Garcia
compound source
Molecule: Atrial Natriuretic Peptide Clearance Receptor
Chain: A, B
Synonym: Anp-C, Anprc, Npr-C, Atrial Natriuretic Peptide C- Receptor;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Npr3, Anprc
Expression_system: Drosophila Melanogaster
Expression_system_common: Fruit Fly
Expression_system_taxid: 7227
Expression_system_strain: S2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Prmha3

Molecule: Natriuretic Peptides B
Chain: E
Engineered: Yes

Synthetic: Yes
Other_details: This Sequence Occurs Naturally In Humans.
symmetry Space Group: P 21 21 21
R_factor 0.253 R_Free 0.289
length a length b length c angle alpha angle beta angle gamma
56.174 136.380 138.693 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand CL, NAG enzyme
A, B


Primary referenceStructural determinants of natriuretic peptide receptor specificity and degeneracy., He XL, Dukkipati A, Garcia KC, J Mol Biol. 2006 Aug 25;361(4):698-714. Epub 2006 Jul 10. PMID:16870210
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (143 Kb) [Save to disk]
  • Biological Unit Coordinates (1yk1.pdb1.gz) 137 Kb
  • LPC: Ligand-Protein Contacts for 1YK1
  • CSU: Contacts of Structural Units for 1YK1
  • Likely Quarternary Molecular Structure file(s) for 1YK1
  • Structure Factors (190 Kb)
  • Retrieve 1YK1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YK1 from S2C, [Save to disk]
  • Re-refined 1yk1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1YK1 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 1YK1
  • 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 1YK1, from MSDmotif at EBI
  • Fold representative 1yk1 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1yk1] [1yk1_A] [1yk1_B] [1yk1_E]
  • SWISS-PROT database: [P16860] [P17342]
  • Domain organization of [ANFB_HUMAN] [ANPRC_HUMAN] by SWISSPFAM
  • Domain found in 1YK1: [NAT_PEP ] by SMART
  • Other resources with information on 1YK1
  • Community annotation for 1YK1 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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