+Open data
-Basic information
Entry | Database: PDB / ID: 1y9x | ||||||
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Title | Solution structure of Archaeon DNA-binding protein ssh10b | ||||||
Components | DNA/RNA-binding protein Alba 1 | ||||||
Keywords | DNA BINDING PROTEIN / DNA BINDING / ARCHAEA | ||||||
Function / homology | Function and homology information chromosome condensation / chromosome / double-stranded DNA binding / Hydrolases; Acting on ester bonds / RNA binding / cytoplasm Similarity search - Function | ||||||
Biological species | Sulfolobus shibatae (archaea) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Cui, Q. / Tong, Y. / Wang, J. | ||||||
Citation | Journal: Biochemistry / Year: 2008 Title: A stabilizing alpha/beta-hydrophobic core greatly contributes to hyperthermostability of archaeal [P62A]Ssh10b. Authors: Fang, X. / Cui, Q. / Tong, Y. / Feng, Y. / Shan, L. / Huang, L. / Wang, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1y9x.cif.gz | 1.2 MB | Display | PDBx/mmCIF format |
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PDB format | pdb1y9x.ent.gz | 1 MB | Display | PDB format |
PDBx/mmJSON format | 1y9x.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/y9/1y9x ftp://data.pdbj.org/pub/pdb/validation_reports/y9/1y9x | 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: 10575.405 Da / Num. of mol.: 2 / Mutation: P62A Source method: isolated from a genetically manipulated source Source: (gene. exp.) Sulfolobus shibatae (archaea) / Gene: albA1, ssh10b / Plasmid: PET11a / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P60848 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||
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NMR experiment |
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NMR details | Text: The structure was determined using triple-resonance NMR spectroscopy. |
-Sample preparation
Details | Contents: 1.5mM Ssh10b U-95% 13C, U-98% 15N; 20mM acetate buffer;20mM KCl; 90%H2O,10% D2O Solvent system: 90% H2O/10% D2O |
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Sample conditions | Ionic strength: 20mM KCl / pH: 5.0 / Pressure: ambient / Temperature: 310 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M |
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Radiation wavelength | Relative weight: 1 |
NMR spectrometer | Type: Bruker DMX / Manufacturer: Bruker / Model: DMX / Field strength: 600 MHz |
-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||||||
NMR representative | Selection criteria: fewest violations | ||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 20 |