Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 102463.21 
• Atom Count: 6571 
• Residue Count: 904 
• Unique protein chains: 2

1JDP

Crystal Structure of Hormone/Receptor Complex

• DOI: 10.2210/pdb1JDP/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Drosophila


• Deposited: 2001-06-14 Released: 2001-09-05 
• Deposition Author(s): He, X.-L., Chow, D.-C., Martick, M.M., Garcia, K.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.248 
• R-Value Work: 0.227 

Literature

Allosteric activation of a spring-loaded natriuretic peptide receptor dimer by hormone.

He, X.l., Chow, D.c., Martick, M.M., Garcia, K.C.

(2001) Science 293: 1657-1662

• PubMed: 11533490 
• DOI: 10.1126/science.1062246
• Primary Citation of Related Structures:  
  1JDN


• PubMed Abstract: 
  

Natriuretic peptides (NPs) are vasoactive cyclic-peptide hormones important in blood pressure regulation through interaction with natriuretic cell-surface receptors. We report the hormone-binding thermodynamics and crystal structures at 2.9 and 2.0 angstroms, respectively, of the extracellular domain of the unliganded human NP receptor (NPR-C) and its complex with CNP, a 22-amino acid NP. A single CNP molecule is bound in the interface of an NPR-C dimer, resulting in asymmetric interactions between the hormone and the symmetrically related receptors. Hormone binding induces a 20 angstrom closure between the membrane-proximal domains of the dimer. In each monomer, the opening of an interdomain cleft, which is tethered together by a linker peptide acting as a molecular spring, is likely a conserved allosteric trigger for intracellular signaling by the natriuretic receptor family.

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Organizational Affiliation: 

Departments of Microbiology and Immunology and Structural Biology, Stanford University School of Medicine, Fairchild D319, 299 Campus Drive, Stanford, CA 93405-5124, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
ATRIAL NATRIURETIC PEPTIDE CLEARANCE RECEPTOR	A, B	441	Homo sapiens	Mutation(s): 0  Gene Names: NPR3 (ANPRC, C5orf23, NPRC)
Find proteins for P17342 (Homo sapiens) Go to Gene View: NPR3 Go to UniProtKB:  P17342

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
C-TYPE NATRIURETIC PEPTIDE	H	22	Homo sapiens	Mutation(s): 0  Gene Names: NPPC (CNP2)
Find proteins for P23582 (Homo sapiens) Go to Gene View: NPPC Go to UniProtKB:  P23582

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
CL	A, B	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
NDG	A	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE C8 H15 N O6 OVRNDRQMDRJTHS-PVFLNQBWSA-N
NAG	B	N-ACETYL-D-GLUCOSAMINE C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.248 
• R-Value Work: 0.227 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 56.800	α = 90.00
b = 136.455	β = 90.00
c = 137.591	γ = 90.00

Software Package:

Software Name	Purpose
MOSFLM	data reduction
CNS	refinement
CCP4	data scaling
SCALA	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2001-06-14 
• Released Date: 2001-09-05 
• Deposition Author(s): He, X.-L., Chow, D.-C., Martick, M.M., Garcia, K.C.

Revision History 

• Version 1.0: 2001-09-05
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Non-polymer description, Version format compliance