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- PDB-1nfh: Structure of a Sir2 substrate, alba, reveals a mechanism for deac... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1nfh | ||||||
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Title | Structure of a Sir2 substrate, alba, reveals a mechanism for deactylation-induced enhancement of DNA-binding | ||||||
![]() | conserved hypothetical protein AF1956 | ||||||
![]() | GENE REGULATION / Sir2 / alba / HDAC / transcription | ||||||
Function / homology | ![]() chromosome condensation / chromosome / double-stranded DNA binding / RNA binding / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Zhao, K. / Chai, X. / Marmorstein, R. | ||||||
![]() | ![]() Title: Structure of a Sir2 substrate, Alba, reveals a mechanism for deacetylation-induced enhancement of DNA-binding Authors: Zhao, K. / Chai, X. / Marmorstein, R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 45.5 KB | Display | ![]() |
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PDB format | ![]() | 33.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 431.2 KB | Display | ![]() |
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Full document | ![]() | 436 KB | Display | |
Data in XML | ![]() | 10.4 KB | Display | |
Data in CIF | ![]() | 13.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 9908.438 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.86 Å3/Da / Density % sol: 68.1 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 6 Details: iso-propanol, KCl, MgCl2, Na-cacodylate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Aug 10, 2002 | ||||||||||||
Radiation | Monochromator: Ni MIRROR + Ni FILTER / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.65→20 Å / Num. obs: 9156 / % possible obs: 96.5 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 0 / Redundancy: 6.8 % / Biso Wilson estimate: 39.9 Å2 / Rmerge(I) obs: 0.084 / Rsym value: 0.082 / Net I/σ(I): 21.8 | ||||||||||||
Reflection shell | Resolution: 2.65→2.74 Å / Redundancy: 4.3 % / Rmerge(I) obs: 0.285 / Mean I/σ(I) obs: 6 / Num. unique all: 899 / Rsym value: 0.272 / % possible all: 97.7 | ||||||||||||
Reflection | *PLUS % possible obs: 96.6 % | ||||||||||||
Reflection shell | *PLUS % possible obs: 97.7 % |
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Processing
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Refinement | Method to determine structure: ![]()
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Displacement parameters | Biso mean: 48.2 Å2 | |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.65→20 Å
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Refine LS restraints |
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Refine LS restraints | *PLUS
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