+Open data
-Basic information
Entry | Database: PDB / ID: 7czo | ||||||
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Title | N-terminal domain of HipA toxin | ||||||
Components | Uncharacterized protein HI_0666 | ||||||
Keywords | UNKNOWN FUNCTION / N-terminal domain of HipA toxin | ||||||
Function / homology | HipA, N-terminal subdomain 1 / HipA N-terminal domain / protein serine/threonine kinase activity / cytosol / Uncharacterized protein HI_0666 Function and homology information | ||||||
Biological species | Haemophilus influenzae (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.7 Å | ||||||
Authors | Kang, S.M. | ||||||
Citation | Journal: Iucrj / Year: 2022 Title: The Haemophilus influenzae HipBA toxin-antitoxin system adopts an unusual three-com-ponent regulatory mechanism Authors: Koo, J.S. / Kang, S.M. / Jung, W.M. / Kim, D.H. / Lee, B.J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7czo.cif.gz | 37.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7czo.ent.gz | 24 KB | Display | PDB format |
PDBx/mmJSON format | 7czo.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 7czo_validation.pdf.gz | 1.4 MB | Display | wwPDB validaton report |
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Full document | 7czo_full_validation.pdf.gz | 1.4 MB | Display | |
Data in XML | 7czo_validation.xml.gz | 7.2 KB | Display | |
Data in CIF | 7czo_validation.cif.gz | 8.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cz/7czo ftp://data.pdbj.org/pub/pdb/validation_reports/cz/7czo | HTTPS FTP |
-Related structure data
Related structure data | 2wiuS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 12468.080 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (bacteria) Strain: ATCC 51907 / DSM 11121 / KW20 / Rd / Gene: HI_0666 / Production host: Escherichia coli (E. coli) / References: UniProt: P44034 | ||||
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#2: Chemical | ChemComp-CL / #3: Water | ChemComp-HOH / | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 4.56 Å3/Da / Density % sol: 73.03 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop Details: 1 M ammonium sulfate, 0.1 M HEPES, 0.5% (w/v) PEG 8000 |
-Data collection
Diffraction | Mean temperature: 293 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: PAL/PLS / Beamline: 11C / Wavelength: 0.9795 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Nov 14, 2019 |
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→50 Å / Num. obs: 6880 / % possible obs: 99.9 % / Redundancy: 9.6 % / CC1/2: 0.998 / Net I/σ(I): 27.9 |
Reflection shell | Resolution: 2.7→2.75 Å / Num. unique obs: 345 / CC1/2: 0.973 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 2WIU Resolution: 2.7→50 Å / Cross valid method: FREE R-VALUE Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Displacement parameters | Biso mean: 76.47 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.7→50 Å
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Refine LS restraints |
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