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Yorodumi- PDB-2mhh: Solution structure of a EF-hand domain from sea urchin polycystin-2 -
+Open data
-Basic information
Entry | Database: PDB / ID: 2mhh | ||||||
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Title | Solution structure of a EF-hand domain from sea urchin polycystin-2 | ||||||
Components | Polycystic kidney disease protein 2 | ||||||
Keywords | METAL BINDING PROTEIN / EF-hand / Channel | ||||||
Function / homology | Function and homology information detection of mechanical stimulus / calcium channel activity / membrane => GO:0016020 / calcium ion binding / membrane / plasma membrane Similarity search - Function | ||||||
Biological species | Strongylocentrotus purpuratus (purple sea urchin) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | lowest energy, model1 | ||||||
Authors | Kuo, I.Y. / Keeler, C. / Corbin, R. / Celic, A. / Petri, E.T. / Hodsdon, M.E. / Ehrlich, B.E. | ||||||
Citation | Journal: Faseb J. / Year: 2014 Title: The number and location of EF hand motifs dictates the calcium dependence of polycystin-2 function. Authors: Kuo, I.Y. / Keeler, C. / Corbin, R. / Celic, A. / Petri, E.T. / Hodsdon, M.E. / Ehrlich, B.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2mhh.cif.gz | 563.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2mhh.ent.gz | 477.9 KB | Display | PDB format |
PDBx/mmJSON format | 2mhh.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mh/2mhh ftp://data.pdbj.org/pub/pdb/validation_reports/mh/2mhh | 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 | Mass: 10744.753 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Strongylocentrotus purpuratus (purple sea urchin) Gene: PKD2 / Plasmid: pET21 / Production host: Escherichia coli (E. coli) / References: UniProt: Q7Z2B5 |
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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: 0.7 mM [U-100% 13C; U-100% 15N] protein, 25 mM TRIS, 150 mM sodium chloride, 20 mM calcium chloride, 5 mM TCEP, .05 % sodium azide, 95% H2O/5% D2O Solvent system: 95% H2O/5% D2O | ||||||||||||||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 0.195 / pH: 7.38 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 600 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 80 / Conformers submitted total number: 20 |