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- PDB-7brl: Atrial Natriuretic Peptide Receptor complexed with Deletion mutan... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7brl | |||||||||
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Title | Atrial Natriuretic Peptide Receptor complexed with Deletion mutant of rat Atrial Natriuretic Peptide[4-17,23] | |||||||||
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Function / homology | ![]() negative regulation of collecting lymphatic vessel constriction / ANPR-A receptor complex / Physiological factors / positive regulation of delayed rectifier potassium channel activity / positive regulation of histamine secretion by mast cell / natriuretic peptide receptor activity / positive regulation of cGMP-mediated signaling / mast cell granule / synaptic signaling via neuropeptide / receptor guanylyl cyclase signaling pathway ...negative regulation of collecting lymphatic vessel constriction / ANPR-A receptor complex / Physiological factors / positive regulation of delayed rectifier potassium channel activity / positive regulation of histamine secretion by mast cell / natriuretic peptide receptor activity / positive regulation of cGMP-mediated signaling / mast cell granule / synaptic signaling via neuropeptide / receptor guanylyl cyclase signaling pathway / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Ogawa, H. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structural insight into hormone-recognition and transmembrane signaling by the atrial natriuretic peptide receptor Authors: Ogawa, H. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 368 KB | Display | ![]() |
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PDB format | ![]() | 306.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 7brgC ![]() 7brhC ![]() 7briC ![]() 7brjC ![]() 7brkC ![]() 1dp4S S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 48434.828 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() ![]() #2: Protein/peptide | | Mass: 1600.848 Da / Num. of mol.: 1 / Mutation: deletions of residues 1-3, 18-22 and 24-28 / Source method: obtained synthetically / Source: (synth.) ![]() ![]() ![]() #3: Polysaccharide | ![]() Source method: isolated from a genetically manipulated source #4: Polysaccharide | ![]() Source method: isolated from a genetically manipulated source #5: Chemical | ![]() Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.99 Å3/Da / Density % sol: 69.14 % |
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Crystal grow![]() | Temperature: 300 K / Method: vapor diffusion, hanging drop / Details: Sodium malonate, MES / PH range: 6.3 - 6.6 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RAYONIX MX225HE / Detector: CCD / Date: Aug 28, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 3.2→50 Å / Num. obs: 24713 / % possible obs: 97.4 % / Redundancy: 23.1 % / CC1/2: 0.99 / Rmerge(I) obs: 0.048 / Net I/σ(I): 27.6 |
Reflection shell | Resolution: 3.2→3.29 Å / Rmerge(I) obs: 0.373 / Mean I/σ(I) obs: 3.5 / Num. unique obs: 2096 / CC1/2: 0.42 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 1DP4 Resolution: 3.2→33.517 Å / SU ML: 0.54 / Cross valid method: FREE R-VALUE / σ(F): 1.41 / Phase error: 32.8
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.2→33.517 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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