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Open data
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Basic information
Entry | Database: PDB / ID: 6syq | |||||||||
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Title | ASR Alternansucrase in complex with isomaltotriose | |||||||||
![]() | (Alternansucrase) x 2 | |||||||||
![]() | TRANSFERASE / glucansucrase / polysaccharides / dextran / alternan / GH70 / sucrose | |||||||||
Function / homology | ![]() dextransucrase activity / dextransucrase / glucan biosynthetic process / glucosyltransferase activity / metal ion binding Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Cioci, G. / Molina, M. / Moulis, C. / Remaud-Simeon, M. | |||||||||
![]() | ![]() Title: A specific oligosaccharide-binding site in the alternansucrase catalytic domain mediates alternan elongation. Authors: Molina, M. / Moulis, C. / Monties, N. / Guieysse, D. / Morel, S. / Cioci, G. / Remaud-Simeon, M. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 984.2 KB | Display | ![]() |
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PDB format | ![]() | 816.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.9 MB | Display | ![]() |
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Full document | ![]() | 1.9 MB | Display | |
Data in XML | ![]() | 78.3 KB | Display | |
Data in CIF | ![]() | 107.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6sziC ![]() 6t16C ![]() 6t18C ![]() 6t1pC ![]() 6hvgS 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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1 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments: Component-ID: _ / Ens-ID: 1 / Beg auth comp-ID: LYS / Beg label comp-ID: LYS / End auth comp-ID: MET / End label comp-ID: MET / Refine code: _ / Auth seq-ID: 239 - 1422
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Components
-Protein , 2 types, 2 molecules AB
#1: Protein | Mass: 142267.406 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Protein | Mass: 132395.938 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
-Sugars , 3 types, 5 molecules ![](data/chem/img/GLC.gif)
#3: Polysaccharide | alpha-D-glucopyranose-(1-6)-alpha-D-glucopyranose-(1-6)-alpha-D-glucopyranose Source method: isolated from a genetically manipulated source | ||
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#4: Polysaccharide | Source method: isolated from a genetically manipulated source #6: Sugar | |
-Non-polymers , 1 types, 2 molecules ![](data/chem/img/CA.gif)
#5: Chemical |
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-Details
Has ligand of interest | Y |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.98 Å3/Da / Density % sol: 58.68 % |
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Crystal grow | Temperature: 285 K / Method: vapor diffusion, hanging drop / Details: PEG3350 14% 0.4M NaNO3 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Nov 9, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97926 Å / Relative weight: 1 |
Reflection | Resolution: 3→119.47 Å / Num. all: 352514 / Num. obs: 61391 / % possible obs: 92.4 % / Redundancy: 5.7 % / CC1/2: 0.999 / Rmerge(I) obs: 0.076 / Net I/σ(I): 8.5 |
Reflection shell | Resolution: 3→3.16 Å / Rmerge(I) obs: 0.844 / Num. unique obs: 9576 / CC1/2: 0.818 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6hvg Resolution: 3→119.47 Å / Cor.coef. Fo:Fc: 0.946 / Cor.coef. Fo:Fc free: 0.929 / SU B: 49.707 / SU ML: 0.376 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R Free: 0.428 Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : WITH TLS ADDED
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 213.66 Å2 / Biso mean: 98.513 Å2 / Biso min: 55.03 Å2
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Refinement step | Cycle: final / Resolution: 3→119.47 Å
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Refine LS restraints |
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Refine LS restraints NCS | Ens-ID: 1 / Number: 69879 / Refine-ID: X-RAY DIFFRACTION / Type: interatomic distance / Rms dev position: 0.06 Å / Weight position: 0.05
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LS refinement shell | Resolution: 3→3.078 Å / Rfactor Rfree error: 0 / Total num. of bins used: 20
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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