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Yorodumi- PDB-5x1x: Solution NMR Structure of DNA Mismatch Repair Protein MutT (Famil... -
+Open data
-Basic information
Entry | Database: PDB / ID: 5x1x | ||||||
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Title | Solution NMR Structure of DNA Mismatch Repair Protein MutT (Family Nudix Hydrolase) from Methicillin Resistant Staphylococcus aureus 252 | ||||||
Components | Mutator mutT protein | ||||||
Keywords | HYDROLASE / divalent ion (Mg2+ / Ca2+) binding protein / adenosine monophosphate (AMP) binding protein | ||||||
Function / homology | Function and homology information Hydrolases; Acting on acid anhydrides; In phosphorus-containing anhydrides / hydrolase activity Similarity search - Function | ||||||
Biological species | Staphylococcus aureus subsp. aureus MN8 (bacteria) | ||||||
Method | SOLUTION NMR / distance geometry | ||||||
Authors | Wahab, A. / Durreshahwar, S. / Schwalbe, H. / Richter, C. / Choudhary, M.I. | ||||||
Citation | Journal: To Be Published Title: Solution NMR Structure of DNA Mismatch Repair Protein MutT (Family Nudix Hydrolase) from Methicillin Resistant Staphylococcus aureus 252 Authors: Wahab, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5x1x.cif.gz | 938.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5x1x.ent.gz | 813.1 KB | Display | PDB format |
PDBx/mmJSON format | 5x1x.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/x1/5x1x ftp://data.pdbj.org/pub/pdb/validation_reports/x1/5x1x | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
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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 | Mass: 14914.342 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: methicillin resistant Source: (gene. exp.) Staphylococcus aureus subsp. aureus MN8 (bacteria) Cell: Bacterial / Gene: HMPREF0769_10658 / Variant: MRSA252 / Plasmid: pSpeedET Details (production host): Bacterial expression vector, arabinose or T7 induced expression, adds N-terminal MGSDKIHHHHHHENLYFQG tag; kanamycin resistance; PIPE cloning Cell (production host): bacterial / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: A0A0E1XLJ5, 8-oxo-dGTP diphosphatase |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution Contents: 1 mM [U-99% 13C; U-99% 15N] DNA Mismatch Repair Protein MutT from Nudix Hydrolase Family, 95% H2O/5% D2O Details: The protein sample was made using 25 mM sodium phosphate buffer, pH 6.9, 100 mM NaCl, 1 mM DTT, 0.15 mM DSS, 5% D2O Label: 15N, 13C labeled / Solvent system: 95% H2O/5% D2O |
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Sample | Conc.: 1 mM Component: DNA Mismatch Repair Protein MutT from Nudix Hydrolase Family Isotopic labeling: [U-99% 13C; U-99% 15N] |
Sample conditions | Details: The protein sample was made using 25 mM sodium phosphate buffer, pH 6.9, 100 mM NaCl, 1 mM DTT, 0.15 mM DSS, 5% D2O Ionic strength: 25 mM sodium phosphate, 100 mM NaCl mM / Label: conditions-1 / pH: 6.9 / Pressure: 1 atm / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: distance geometry / Software ordinal: 8 | ||||||||||||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: all calculated structures submitted Conformers calculated total number: 100 / Conformers submitted total number: 20 |