1YK1
structure of natriuretic peptide receptor-C complexed with brain natriuretic peptide
- PDB DOI: https://doi.org/10.2210/pdb1YK1/pdb
- Classification: HORMONE/GROWTH FACTOR RECEPTOR
- Organism(s): Homo sapiens
- Expression System: Drosophila melanogaster
- Mutation(s): No 
- Deposited: 2005-01-16 Released: 2006-04-18 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.90 Å
- R-Value Free: 0.289 
- R-Value Work: 0.253 
- R-Value Observed: 0.254 
This is version 2.1 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Atrial natriuretic peptide clearance receptor | 479 | Homo sapiens | Mutation(s): 0  Gene Names: NPR3, ANPRC | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P17342 (Homo sapiens) Explore P17342  Go to UniProtKB:  P17342 | |||||
PHAROS:  P17342 GTEx:  ENSG00000113389  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P17342 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by: Sequence | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Natriuretic peptides B | C [auth E] | 21 | N/A | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P16860 (Homo sapiens) Explore P16860  Go to UniProtKB:  P16860 | |||||
PHAROS:  P16860 GTEx:  ENSG00000120937  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P16860 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | E [auth A], F [auth A], H [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
CL Query on CL | G [auth A], I [auth B] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.90 Å
- R-Value Free: 0.289 
- R-Value Work: 0.253 
- R-Value Observed: 0.254 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 56.174 | α = 90 |
b = 136.38 | β = 90 |
c = 138.693 | γ = 90 |
Software Name | Purpose |
---|---|
HKL-2000 | data collection |
SCALEPACK | data scaling |
CNS | refinement |
HKL-2000 | data reduction |
CNS | phasing |
Entry History 
Deposition Data
- Released Date: 2006-04-18  Deposition Author(s): He, X., Garcia, K.C.
Revision History (Full details and data files)
- Version 1.0: 2006-04-18
Type: Initial release - Version 1.1: 2008-04-30
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Non-polymer description, Version format compliance - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2023-08-23
Changes: Data collection, Database references, Refinement description, Structure summary