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Open data
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Basic information
Entry | Database: PDB / ID: 5yt4 | ||||||
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Title | Galectin-10 variant H53A soaked in glycerol for 5 minutes | ||||||
![]() | Galectin-10 | ||||||
![]() | CELL ADHESION / Galectin-10 | ||||||
Function / homology | ![]() regulation of activated T cell proliferation / regulation of T cell cytokine production / T cell apoptotic process / regulation of T cell anergy / cysteine-type endopeptidase activity involved in apoptotic process / carbohydrate binding / collagen-containing extracellular matrix / identical protein binding / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Su, J. | ||||||
![]() | ![]() Title: Galectin-10: a new structural type of prototype galectin dimer and effects on saccharide ligand binding. Authors: Su, J. / Gao, J. / Si, Y. / Cui, L. / Song, C. / Wang, Y. / Wu, R. / Tai, G. / Zhou, Y. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 43.8 KB | Display | ![]() |
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PDB format | ![]() | 29.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 429.7 KB | Display | ![]() |
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Full document | ![]() | 429.7 KB | Display | |
Data in XML | ![]() | 8.6 KB | Display | |
Data in CIF | ![]() | 11.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5xrgC ![]() 5xrhC ![]() 5xriC ![]() 5xrjC ![]() 5xrkC ![]() 5xrlC ![]() 5xrmC ![]() 5xrnC ![]() 5xroC ![]() 5xrpC 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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Components on special symmetry positions |
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Components
#1: Protein | Mass: 15874.033 Da / Num. of mol.: 1 / Mutation: H53A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Chemical | ChemComp-GOL / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.78 Å3/Da / Density % sol: 55.8 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / Details: PEG |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Nov 11, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9778 Å / Relative weight: 1 |
Reflection | Resolution: 2→19.531 Å / Num. obs: 13190 / % possible obs: 99.7 % / Redundancy: 9.9 % / Rmerge(I) obs: 0.078 / Net I/σ(I): 13.8 |
Reflection shell | Resolution: 2→2.05 Å / Rmerge(I) obs: 0.307 / Num. unique obs: 949 / % possible all: 99.5 |
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Processing
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Refinement | Resolution: 2→19.531 Å / SU ML: 0.13 / Cross valid method: NONE / σ(F): 1.34 / Phase error: 19.7
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||
Displacement parameters | Biso max: 51.95 Å2 / Biso mean: 21.3534 Å2 / Biso min: 10.83 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2→19.531 Å
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