+Open data
-Basic information
Entry | Database: PDB / ID: 2m9g | ||||||
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Title | Solution structure of calcium-bound human S100A12 | ||||||
Components | Protein S100-A12 | ||||||
Keywords | METAL BINDING PROTEIN / S100A12 / calcium-bound | ||||||
Function / homology | Function and homology information mast cell activation / RAGE receptor binding / monocyte chemotaxis / TRAF6 mediated NF-kB activation / Advanced glycosylation endproduct receptor signaling / endothelial cell migration / defense response to fungus / xenobiotic metabolic process / neutrophil chemotaxis / positive regulation of MAP kinase activity ...mast cell activation / RAGE receptor binding / monocyte chemotaxis / TRAF6 mediated NF-kB activation / Advanced glycosylation endproduct receptor signaling / endothelial cell migration / defense response to fungus / xenobiotic metabolic process / neutrophil chemotaxis / positive regulation of MAP kinase activity / TAK1-dependent IKK and NF-kappa-B activation / positive regulation of inflammatory response / calcium-dependent protein binding / antimicrobial humoral immune response mediated by antimicrobial peptide / positive regulation of NF-kappaB transcription factor activity / secretory granule lumen / positive regulation of canonical NF-kappaB signal transduction / killing of cells of another organism / cytoskeleton / defense response to bacterium / inflammatory response / copper ion binding / innate immune response / calcium ion binding / Neutrophil degranulation / extracellular space / zinc ion binding / extracellular region / identical protein binding / nucleus / plasma membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Model details | lowest energy, model1 | ||||||
Authors | Hung, K.W. / Hsu, C.C. / Yu, C. | ||||||
Citation | Journal: J.Biomol.Nmr / Year: 2013 Title: Solution structure of human Ca(2+)-bound S100A12 Authors: Hung, K.W. / Hsu, C.C. / Yu, C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2m9g.cif.gz | 1.2 MB | Display | PDBx/mmCIF format |
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PDB format | pdb2m9g.ent.gz | 1.1 MB | Display | PDB format |
PDBx/mmJSON format | 2m9g.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/m9/2m9g ftp://data.pdbj.org/pub/pdb/validation_reports/m9/2m9g | 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: 10592.031 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: S100A12 / Production host: Escherichia coli (E. coli) / References: UniProt: P80511 |
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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: 1 mM [U-13C; U-15N] S100A12-1, 10 mM HEPES-2, 100 mM sodium chloride-3, 5 mM calcium chloride-4, 0.02% w/v sodium azide-5, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 0.065 / pH: 6.5 / Pressure: ambient / Temperature: 310 K |
-NMR measurement
NMR spectrometer | Type: Varian VNMRS / Manufacturer: Varian / Model: VNMRS / Field strength: 700 MHz |
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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 lowest energy Conformers calculated total number: 200 / Conformers submitted total number: 20 / Representative conformer: 1 |