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Yorodumi- PDB-2kmi: MESD(12-155), The Core Structural Domain of MESD that Is Essentia... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2kmi | ||||||
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Title | MESD(12-155), The Core Structural Domain of MESD that Is Essential for Proper Folding of LRP5/6 | ||||||
Components | Mesoderm development candidate 2 | ||||||
Keywords | CHAPERONE / MESD/Boca / LRP5/6 | ||||||
Function / homology | Function and homology information positive regulation of skeletal muscle acetylcholine-gated channel clustering / protein localization to cell surface / low-density lipoprotein particle receptor binding / mesoderm development / ossification / phagocytosis / Wnt signaling pathway / protein folding / endoplasmic reticulum / identical protein binding / plasma membrane Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | lowest energy, model 1 | ||||||
Authors | Chen, J. / Wang, J. | ||||||
Citation | Journal: J.Biomol.Nmr / Year: 2010 Title: NMR structure note: solution structure of the core domain of MESD that is essential for proper folding of LRP5/6. Authors: Chen, J. / Li, Q. / Liu, C.C. / Zhou, B. / Bu, G. / Wang, J. #1: Journal: Cell(Cambridge,Mass.) / Year: 2003 Title: Coaxing the LDL receptor family into the fold Authors: Herz, J. / Marschang, P. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2kmi.cif.gz | 1 MB | Display | PDBx/mmCIF format |
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PDB format | pdb2kmi.ent.gz | 887 KB | Display | PDB format |
PDBx/mmJSON format | 2kmi.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/km/2kmi ftp://data.pdbj.org/pub/pdb/validation_reports/km/2kmi | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 16692.848 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Gene: Mesdc2 / Production host: Escherichia coli (E. coli) / References: UniProt: Q9ERE7 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR Details: Mesoderm development (MESD) protein is a 195-residue protein that serves as a specialized molecular chaperone to promote the proper folding of the six-bladed ??-propeller/EGF modules of the ...Details: Mesoderm development (MESD) protein is a 195-residue protein that serves as a specialized molecular chaperone to promote the proper folding of the six-bladed ??-propeller/EGF modules of the LDL receptor family members, and Mesd(12-155) is the most conserved region of Mesd protein. | ||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 1.0 mM [U-13C; U-15N] mesd12-155, 90% H2O/10% D2O / Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 1.0 mM / Component: mesd12-155-1 / Isotopic labeling: [U-13C; U-15N] |
Sample conditions | pH: 7 / Pressure: ambient / Temperature: 303 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: all calculated structures submitted Conformers calculated total number: 20 / Conformers submitted total number: 20 |