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Yorodumi- PDB-2l60: A novel design concept: New Y-receptor agonists with increased me... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2l60 | ||||||
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Title | A novel design concept: New Y-receptor agonists with increased membrane recruitment, Y2 affinity and selectivity | ||||||
Components | Peptide YY | ||||||
Keywords | HORMONE / GPCR ligand | ||||||
Function / homology | Function and homology information neuropeptide Y receptor binding / intestinal epithelial cell differentiation / neuropeptide hormone activity / feeding behavior / neuropeptide signaling pathway / Peptide ligand-binding receptors / G protein-coupled receptor binding / hormone activity / G alpha (i) signalling events / extracellular space / extracellular region Similarity search - Function | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Model details | lowest energy, model 1 | ||||||
Authors | Pedersen, N.L. / Jurt, S. / Zerbe, O. / Jensen, K.J. | ||||||
Citation | Journal: To be Published Title: A novel design concept: New Y-receptor agonists with increased membrane recruitment, Y2 affinity and selectivity Authors: Pedersen, N.L. / Jurt, S. / Zerbe, O. / Jensen, K.J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2l60.cif.gz | 286.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2l60.ent.gz | 242.3 KB | Display | PDB format |
PDBx/mmJSON format | 2l60.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/l6/2l60 ftp://data.pdbj.org/pub/pdb/validation_reports/l6/2l60 | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 5121.941 Da / Num. of mol.: 1 / Fragment: UNP residues 41-64 / Source method: obtained synthetically / References: UniProt: P10082 |
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Sequence details | THE DEPOSITED SEQUENCE IS A DESIGNED VARIANT OF THE PEPTIDE PYY. THE C-TERMINAL RESIDUES CORRESPOND ...THE DEPOSITED SEQUENCE IS A DESIGNED VARIANT OF THE PEPTIDE PYY. THE C-TERMINAL RESIDUES CORRESPOND |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR Details: Structure of a (3-36)PYY mutant for improved membrane-binding affinity and improved Y2 receptor binding in presence of a membrane model (DPC) | ||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 1 mM entity, 1 mM RNH, 90% H2O/10% D2O / Solvent system: 90% H2O/10% D2O | |||||||||
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Sample |
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Sample conditions | Ionic strength: 0 / pH: 5.5 / Pressure: AMBIENT / Temperature: 310 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 | ||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations Conformers calculated total number: 100 / Conformers submitted total number: 20 |