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Yorodumi- PDB-8tb2: Structure of SasG (type II) (residues 165-421) from Staphylococcu... -
+Open data
-Basic information
Entry | Database: PDB / ID: 8tb2 | |||||||||
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Title | Structure of SasG (type II) (residues 165-421) from Staphylococcus aureus MW2 | |||||||||
Components | Putative surface protein MW2416 | |||||||||
Keywords | CELL ADHESION / Lectin / SASG / adhesin | |||||||||
Function / homology | Function and homology information | |||||||||
Biological species | Staphylococcus aureus subsp. aureus MW2 (bacteria) | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.88 Å | |||||||||
Authors | Maciag, J.J. / Herr, A.B. | |||||||||
Funding support | United States, 2items
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Citation | Journal: Cell Rep / Year: 2024 Title: Staphylococcus aureus skin colonization is mediated by SasG lectin variation. Authors: Mills, K.B. / Maciag, J.J. / Wang, C. / Crawford, J.A. / Enroth, T.J. / Keim, K.C. / Dufrene, Y.F. / Robinson, D.A. / Fey, P.D. / Herr, A.B. / Horswill, A.R. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8tb2.cif.gz | 68.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8tb2.ent.gz | 48.4 KB | Display | PDB format |
PDBx/mmJSON format | 8tb2.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8tb2_validation.pdf.gz | 1.3 MB | Display | wwPDB validaton report |
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Full document | 8tb2_full_validation.pdf.gz | 1.3 MB | Display | |
Data in XML | 8tb2_validation.xml.gz | 12.9 KB | Display | |
Data in CIF | 8tb2_validation.cif.gz | 17.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tb/8tb2 ftp://data.pdbj.org/pub/pdb/validation_reports/tb/8tb2 | 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
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 28818.803 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Staphylococcus aureus subsp. aureus MW2 (bacteria) Strain: MW2 / Gene: MW2416 / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: Q8NUV0 |
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-Non-polymers , 5 types, 102 molecules
#2: Chemical | ChemComp-SO4 / #3: Chemical | #4: Chemical | ChemComp-NA / | #5: Chemical | #6: Water | ChemComp-HOH / | |
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-Details
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: 2.04 Å3/Da / Density % sol: 39.7 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7.8 Details: 100 mM HEPES (pH 7.8), 200 mM Ammonium Sulfate, 25%-33% BCS PEG SMEAR Medium |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 24-ID-E / Wavelength: 0.9793384 Å |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Jun 16, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793384 Å / Relative weight: 1 |
Reflection | Resolution: 1.88→52.36 Å / Num. obs: 20226 / % possible obs: 99.79 % / Redundancy: 2 % / Biso Wilson estimate: 20.27 Å2 / CC1/2: 0.991 / CC star: 0.998 / Rmerge(I) obs: 0.06672 / Rrim(I) all: 0.09436 / Net I/σ(I): 5.81 |
Reflection shell | Resolution: 1.88→1.947 Å / Rmerge(I) obs: 0.2974 / Mean I/σ(I) obs: 2.25 / Num. unique obs: 1980 / CC1/2: 0.78 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.88→52.36 Å / Cross valid method: THROUGHOUT
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Refinement step | Cycle: LAST / Resolution: 1.88→52.36 Å
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