+Open data
-Basic information
Entry | Database: PDB / ID: 8ujw | ||||||||||||
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Title | Crystal structure of the KETc7 antigen from Taenia solium | ||||||||||||
Components | GRAM domain-containing protein | ||||||||||||
Keywords | UNKNOWN FUNCTION / Taenia Solium / Antigen / Recombinant / Vaccine | ||||||||||||
Function / homology | WW domain-binding protein 2-like / GRAM domain / GRAM domain / PH-like domain superfamily / transcription coactivator activity / GRAM domain-containing protein Function and homology information | ||||||||||||
Biological species | Taenia solium (pork tapeworm) | ||||||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.72 Å | ||||||||||||
Authors | Sotelo-Mundo, R.R. / Gomez-Yanes, A.C. / Lopez-Zavala, A.A. / Ochoa-Leyva, A. | ||||||||||||
Funding support | United States, 3items
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Citation | Journal: To Be Published Title: Crystal structure of the KETc7 antigen from Taenia solium Authors: Sotelo-Mundo, R. / Gomez-Yanes, A.C. / Lopez-Zavala, A.A. / Ochoa-Leyva, A. #1: Journal: Infect.Immun. / Year: 2017 Title: Experimental and Theoretical Approaches To Investigate the Immunogenicity of Taenia solium-Derived KE7 Antigen. Authors: Bobes, R.J. / Navarrete-Perea, J. / Ochoa-Leyva, A. / Anaya, V.H. / Hernandez, M. / Cervantes-Torres, J. / Estrada, K. / Sanchez-Lopez, F. / Soberon, X. / Rosas, G. / Nunes, C.M. / Garcia- ...Authors: Bobes, R.J. / Navarrete-Perea, J. / Ochoa-Leyva, A. / Anaya, V.H. / Hernandez, M. / Cervantes-Torres, J. / Estrada, K. / Sanchez-Lopez, F. / Soberon, X. / Rosas, G. / Nunes, C.M. / Garcia-Varela, M. / Sotelo-Mundo, R.R. / Lopez-Zavala, A.A. / Gevorkian, G. / Acero, G. / Laclette, J.P. / Fragoso, G. / Sciutto, E. | ||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8ujw.cif.gz | 93.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8ujw.ent.gz | 65.6 KB | Display | PDB format |
PDBx/mmJSON format | 8ujw.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8ujw_validation.pdf.gz | 422.7 KB | Display | wwPDB validaton report |
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Full document | 8ujw_full_validation.pdf.gz | 423.3 KB | Display | |
Data in XML | 8ujw_validation.xml.gz | 9.4 KB | Display | |
Data in CIF | 8ujw_validation.cif.gz | 12.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/uj/8ujw ftp://data.pdbj.org/pub/pdb/validation_reports/uj/8ujw | HTTPS FTP |
-Related structure data
Similar structure data | Similarity search - Function & homologyF&H Search |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 28461.002 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Taenia solium (pork tapeworm) / Gene: TASK_LOCUS7246 / Production host: Escherichia coli (E. coli) / References: UniProt: A0A0R3W9T8 |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 1.61 Å3/Da / Density % sol: 23.48 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, hanging drop Details: 0.2 M ammonium acetate, 0.1 M BIS-TRIS 6.5, 25 % w/v PEF 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: BESSY / Beamline: 14.1 / Wavelength: 1.195 Å |
Detector | Type: DECTRIS EIGER2 X CdTe 16M / Detector: PIXEL / Date: Jan 27, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.195 Å / Relative weight: 1 |
Reflection | Resolution: 1.72→37.81 Å / Num. obs: 18620 / % possible obs: 95.89 % / Redundancy: 13.72 % / Biso Wilson estimate: 22.11 Å2 / CC1/2: 1 / CC star: 1 / Rmerge(I) obs: 0.01388 / Rpim(I) all: 0.01388 / Rrim(I) all: 0.01962 / Net I/σ(I): 23.39 |
Reflection shell | Resolution: 1.724→1.785 Å / Rmerge(I) obs: 0.1804 / Num. unique obs: 1357 / CC1/2: 0.927 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.72→37.81 Å / SU ML: 0.191 / Cross valid method: FREE R-VALUE / σ(F): 1.36 / Phase error: 23.1736 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 26.83 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.72→37.81 Å
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Refine LS restraints |
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LS refinement shell |
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