+Open data
-Basic information
Entry | Database: PDB / ID: 5n7z | |||||||||
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Title | glycosyltransferase in LPS biosynthesis | |||||||||
Components | Lipopolysaccharide 1,6-galactosyltransferase | |||||||||
Keywords | TRANSFERASE / glycosyltransferase LPS biosynthesis | |||||||||
Function / homology | Glycosyltransferase Family 4 / Glycosyltransferase subfamily 4-like, N-terminal domain / lipopolysaccharide core region biosynthetic process / Glycosyl transferase, family 1 / Glycosyl transferases group 1 / Transferases; Glycosyltransferases; Hexosyltransferases / glycosyltransferase activity / Lipopolysaccharide 1,6-galactosyltransferase Function and homology information | |||||||||
Biological species | Salmonella typhimurium (bacteria) | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 1.81 Å | |||||||||
Authors | Ashworth, G.J. / Zhang, Z. | |||||||||
Citation | Journal: To Be Published Title: glycosyltransferase in LPS biosynthesis Authors: Ashworth, G.J. / Zhang, Z. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5n7z.cif.gz | 81.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5n7z.ent.gz | 64.2 KB | Display | PDB format |
PDBx/mmJSON format | 5n7z.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/n7/5n7z ftp://data.pdbj.org/pub/pdb/validation_reports/n7/5n7z | HTTPS FTP |
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-Related structure data
Similar structure data |
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-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: 40943.172 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (bacteria) Strain: LT2 / SGSC1412 / ATCC 700720 / Gene: rfaB, waaB, STM3719 / Production host: Escherichia coli BL21 (bacteria) References: UniProt: Q06994, Transferases; Glycosyltransferases; Hexosyltransferases |
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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: 2.94 Å3/Da / Density % sol: 58.1 % |
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Crystal grow | Temperature: 298.15 K / Method: evaporation Details: 1% trypton; 0.001M sodium azide; 0.05M HEPES pH7.0 and 20% w/v PEG 3350 |
-Data collection
Diffraction | Mean temperature: 77 K |
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I04 / Wavelength: 1.8233 Å |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: May 18, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.8233 Å / Relative weight: 1 |
Reflection | Resolution: 1.81→67.64 Å / Num. obs: 44340 / % possible obs: 98.5 % / Redundancy: 18.2 % / Net I/σ(I): 3.1 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 1.81→67.446 Å / SU ML: 0.23 / Cross valid method: NONE / σ(F): 2.03 / Phase error: 24.94
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.81→67.446 Å
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Refine LS restraints |
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LS refinement shell |
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