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Yorodumi- PDB-6rux: P46, an immunodominant surface protein from Mycoplasma hyopneumoniae -
+Open data
-Basic information
Entry | Database: PDB / ID: 6rux | ||||||||||||
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Title | P46, an immunodominant surface protein from Mycoplasma hyopneumoniae | ||||||||||||
Components | 46 kDa surface antigen | ||||||||||||
Keywords | PROTEIN BINDING / immunodominant surface protein Mycoplasma hyopneumoniae P46 | ||||||||||||
Function / homology | Function and homology information outer membrane-bounded periplasmic space / carbohydrate binding / plasma membrane Similarity search - Function | ||||||||||||
Biological species | Mycoplasma hyopneumoniae J (bacteria) | ||||||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.5 Å | ||||||||||||
Authors | Guasch, A. / Gonzalez-Gonzalez, L. / Fita, I. | ||||||||||||
Funding support | Spain, 2items
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Citation | Journal: Acta Crystallogr D Struct Biol / Year: 2020 Title: Structure of P46, an immunodominant surface protein from Mycoplasma hyopneumoniae: interaction with a monoclonal antibody. Authors: Guasch, A. / Montane, J. / Moros, A. / Pinol, J. / Sitja, M. / Gonzalez-Gonzalez, L. / Fita, I. | ||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6rux.cif.gz | 226.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6rux.ent.gz | 179.3 KB | Display | PDB format |
PDBx/mmJSON format | 6rux.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6rux_validation.pdf.gz | 1.2 MB | Display | wwPDB validaton report |
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Full document | 6rux_full_validation.pdf.gz | 1.2 MB | Display | |
Data in XML | 6rux_validation.xml.gz | 24.9 KB | Display | |
Data in CIF | 6rux_validation.cif.gz | 37.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ru/6rux ftp://data.pdbj.org/pub/pdb/validation_reports/ru/6rux | HTTPS FTP |
-Related structure data
Related structure data | 6rnnC 6rqgSC 6s3tC S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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3 |
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Unit cell |
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-Components
#1: Protein | Mass: 42426.508 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mycoplasma hyopneumoniae J (bacteria) / Strain: J / ATCC 25934 / NCTC 10110 / Gene: p46, MHJ_0511 Production host: Escherichia coli 'BL21-Gold(DE3)pLysS AG' (bacteria) References: UniProt: P0C0J8 #2: Polysaccharide | #3: Chemical | #4: Water | ChemComp-HOH / | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.95 Å3/Da / Density % sol: 58.25 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop Details: 0.1 M Tris pH 8.5 0.2 M Sodium Acetate 32% PEG 4000 3% Maltose |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: ALBA / Beamline: XALOC / Wavelength: 0.9793 Å |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: May 17, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→60 Å / Num. obs: 52027 / % possible obs: 60 % / Redundancy: 9.3 % / CC1/2: 0.99 / Rmerge(I) obs: 0.02993 / Net I/σ(I): 35.42 |
Reflection shell | Resolution: 2.5→2.6 Å / Num. unique obs: 5152 / CC1/2: 0.74 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 6RQG Resolution: 2.5→60 Å / Cross valid method: THROUGHOUT
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Displacement parameters | Biso mean: 75.8 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.5→60 Å
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Refine LS restraints |
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