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Open data
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Basic information
Entry | Database: PDB / ID: 4p7d | ||||||
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Title | Antitoxin HicB3 crystal structure | ||||||
![]() | Antitoxin HicB3 | ||||||
![]() | TOXIN / toxin-antitoxin complex / homotetramer | ||||||
Function / homology | ![]() sequence-specific DNA binding / regulation of DNA-templated transcription Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Li de la Sierra-Gallay, I. / Bibi-Triki, S. / van Tilbeurgh, H. / Lazar, N. / Pradel, E. | ||||||
![]() | ![]() Title: Functional and Structural Analysis of HicA3-HicB3, a Novel Toxin-Antitoxin System of Yersinia pestis. Authors: Bibi-Triki, S. / Li de la Sierra-Gallay, I. / Lazar, N. / Leroy, A. / Van Tilbeurgh, H. / Sebbane, F. / Pradel, E. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 113.5 KB | Display | ![]() |
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PDB format | ![]() | 94.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 457 KB | Display | ![]() |
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Full document | ![]() | 465.5 KB | Display | |
Data in XML | ![]() | 20.9 KB | Display | |
Data in CIF | ![]() | 28 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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Unit cell |
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Components
#1: Protein | Mass: 16475.211 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.41 Å3/Da / Density % sol: 48.89 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 6.5 / Details: polyethylene glycol 3000, MES pH 6.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: PSI PILATUS 6M / Detector: PIXEL / Date: Dec 5, 2012 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97911 Å / Relative weight: 1 |
Reflection | Resolution: 2.78→46.85 Å / Num. obs: 16491 / % possible obs: 99.5 % / Redundancy: 7.1 % / Biso Wilson estimate: 69.76 Å2 / Rmerge(I) obs: 0.095 / Net I/σ(I): 14.45 |
Reflection shell | Resolution: 2.78→2.95 Å / Redundancy: 7 % / Rmerge(I) obs: 0.683 / Mean I/σ(I) obs: 2.84 / % possible all: 97.2 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 63.42 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.781→46.846 Å
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Refine LS restraints |
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LS refinement shell |
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