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Open data
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Basic information
Entry | Database: PDB / ID: 1jiv | ||||||
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Title | T4 phage BGT in complex with Mg2+ : Form II | ||||||
![]() | DNA BETA-GLUCOSYLTRANSFERASE | ||||||
![]() | TRANSFERASE / Glycosyltransferase | ||||||
Function / homology | ![]() DNA beta-glucosyltransferase / DNA beta-glucosyltransferase activity / symbiont-mediated evasion of host restriction-modification system / DNA modification / virus-mediated perturbation of host defense response Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Morera, S. / Lariviere, L. / Kurzeck, J. / Aschke-Sonnenborn, U. / Freemont, P.S. / Janin, J. / Ruger, W. | ||||||
![]() | ![]() Title: High resolution crystal structures of T4 phage beta-glucosyltransferase: induced fit and effect of substrate and metal binding. Authors: Morera, S. / Lariviere, L. / Kurzeck, J. / Aschke-Sonnenborn, U. / Freemont, P.S. / Janin, J. / Ruger, W. #1: ![]() Title: T4 phage beta-glucosyltransferase : substrate binding and proposed catalytic mechanism Authors: Morera, S. / Imberty, A. / Aschke-Sonnenborn, U. / Ruger, W. / Freemont, P.S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 92 KB | Display | ![]() |
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PDB format | ![]() | 68.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 765.5 KB | Display | ![]() |
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Full document | ![]() | 771.3 KB | Display | |
Data in XML | ![]() | 18.2 KB | Display | |
Data in CIF | ![]() | 26.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1jejC ![]() 1jg6C ![]() 1jg7C ![]() 1jiuC ![]() 1jixC ![]() 1qkjS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 40719.879 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() | ||||
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#2: Chemical | #3: Chemical | ChemComp-UDP / | #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.23 Å3/Da / Density % sol: 44.87 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: PEG 4000, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Feb 24, 2000 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.934 Å / Relative weight: 1 |
Reflection | Resolution: 2.07→30 Å / Num. all: 23581 / Num. obs: 23440 / % possible obs: 99.4 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 1 / Redundancy: 16.3 % / Biso Wilson estimate: 22 Å2 / Rmerge(I) obs: 0.088 / Net I/σ(I): 10.7 |
Reflection shell | Resolution: 2.07→2.14 Å / Rmerge(I) obs: 0.243 / Mean I/σ(I) obs: 4.8 / Num. unique all: 2277 / % possible all: 99.2 |
Reflection | *PLUS Lowest resolution: 30 Å / Num. measured all: 381698 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1QKJ Resolution: 2.07→20 Å / σ(F): 2 / σ(I): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.07→20 Å
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Refine LS restraints |
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Software | *PLUS Name: CNS / Version: 1 / Classification: refinement | |||||||||||||||||||||||||
Refinement | *PLUS Lowest resolution: 20 Å / σ(F): 2 / Rfactor obs: 0.186 / % reflection Rfree: 5 % | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS |