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Yorodumi- PDB-1nzs: NMR structures of phosphorylated carboxy terminus of bovine rhodo... -
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-Basic information
Entry | Database: PDB / ID: 1nzs | ||||||
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Title | NMR structures of phosphorylated carboxy terminus of bovine rhodopsin in arrestin-bound state | ||||||
Components | 19-mer peptide fragment of RHODOPSIN | ||||||
Keywords | SIGNALING PROTEIN / rhodopsin / GPCR / arrestin / phosphorylation / helix-loop / ball-and-chain / bound conformation / signal termination | ||||||
Function / homology | Function and homology information Opsins / VxPx cargo-targeting to cilium / opsin binding / rod bipolar cell differentiation / sperm head plasma membrane / absorption of visible light / The canonical retinoid cycle in rods (twilight vision) / G protein-coupled opsin signaling pathway / photoreceptor inner segment membrane / podosome assembly ...Opsins / VxPx cargo-targeting to cilium / opsin binding / rod bipolar cell differentiation / sperm head plasma membrane / absorption of visible light / The canonical retinoid cycle in rods (twilight vision) / G protein-coupled opsin signaling pathway / photoreceptor inner segment membrane / podosome assembly / 11-cis retinal binding / G protein-coupled photoreceptor activity / rod photoreceptor outer segment / cellular response to light stimulus / G protein-coupled receptor complex / Inactivation, recovery and regulation of the phototransduction cascade / thermotaxis / response to light intensity / Activation of the phototransduction cascade / phototransduction, visible light / outer membrane / detection of temperature stimulus involved in thermoception / photoreceptor cell maintenance / arrestin family protein binding / photoreceptor outer segment membrane / G alpha (i) signalling events / phototransduction / photoreceptor outer segment / G-protein alpha-subunit binding / response to light stimulus / sperm midpiece / visual perception / guanyl-nucleotide exchange factor activity / photoreceptor disc membrane / microtubule cytoskeleton organization / cell-cell junction / gene expression / G protein-coupled receptor signaling pathway / Golgi membrane / zinc ion binding / identical protein binding / membrane / plasma membrane Similarity search - Function | ||||||
Method | SOLUTION NMR / distance geometry, constrained molecular dynamics, simulated annealing | ||||||
Model type details | minimized average | ||||||
Authors | Kisselev, O.G. / McDowell, J.H. / Hargrave, P.A. | ||||||
Citation | Journal: Febs Lett. / Year: 2004 Title: The arrestin-bound conformation and dynamics of the phosphorylated carboxy-terminal region of rhodopsin. Authors: Kisselev, O.G. / McDowell, J.H. / Hargrave, P.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1nzs.cif.gz | 51 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1nzs.ent.gz | 37.7 KB | Display | PDB format |
PDBx/mmJSON format | 1nzs.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1nzs_validation.pdf.gz | 363 KB | Display | wwPDB validaton report |
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Full document | 1nzs_full_validation.pdf.gz | 439 KB | Display | |
Data in XML | 1nzs_validation.xml.gz | 8.6 KB | Display | |
Data in CIF | 1nzs_validation.cif.gz | 12 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/nz/1nzs ftp://data.pdbj.org/pub/pdb/validation_reports/nz/1nzs | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 2497.842 Da / Num. of mol.: 1 / Fragment: C-terminal domain, residues 330-348 / Mutation: all serines and threonines phosphorylated / Source method: obtained synthetically Details: This sequence occurs naturally in Bos taurus. In a synthetic peptide, all serines and threonines are phosphorylated. References: UniProt: P02699 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 0.16 mM of purified arrestin, 1.77 mM of 7PP, 7-phospho-Rh(330-348) or unphosphorylated Rh(330-348) in sodium phosphate buffer, 0.1 M, pH 6.5 and 10% D2O in a total volume of 0.6 ml Solvent system: 90% H2O/10% D2O |
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Sample conditions | Ionic strength: 0.1M phosphate / pH: 6.5 / Pressure: ambient / Temperature: 277 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer | Type: Varian UNITYPLUS / Manufacturer: Varian / Model: UNITYPLUS / Field strength: 600 MHz |
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-Processing
NMR software |
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Refinement | Method: distance geometry, constrained molecular dynamics, simulated annealing Software ordinal: 1 Details: Experimental data are for the 7-phospho-Rh(330-348) bound to arrestin. Calculations and structures submitted are without phosphate groups. | ||||||||||||||||||||
NMR representative | Selection criteria: minimized average structure | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 16 |