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Open data
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Basic information
Entry | Database: PDB / ID: 5xzk | ||||||
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Title | Pholiota squarrosa lectin trimer | ||||||
![]() | lectin (PhoSL) | ||||||
![]() | SUGAR BINDING PROTEIN / Lectin / Trimer / Fucose | ||||||
Function / homology | Lectin (PhoSL)![]() | ||||||
Biological species | ![]() | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
![]() | Yamasaki, K. | ||||||
![]() | ![]() Title: The trimeric solution structure and fucose-binding mechanism of the core fucosylation-specific lectin PhoSL. Authors: Yamasaki, K. / Yamasaki, T. / Tateno, H. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 701.4 KB | Display | ![]() |
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PDB format | ![]() | 593.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 393.6 KB | Display | ![]() |
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Full document | ![]() | 600.3 KB | Display | |
Data in XML | ![]() | 27 KB | Display | |
Data in CIF | ![]() | 48.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | |
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Links
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Assembly
Deposited unit | ![]()
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NMR ensembles |
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Components
#1: Protein/peptide | Mass: 4440.958 Da / Num. of mol.: 3 / Source method: obtained synthetically / Source: (synth.) ![]() |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||
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NMR experiment |
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Sample preparation
Details | Type: solution Contents: 0.3 mM no Pholiota squarrosa lectin (PhoSL), 95% H2O/5% D2O Details: Concentration value is for peptide, but not for the trimer. Label: sample / Solvent system: 95% H2O/5% D2O |
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Sample | Conc.: 0.3 mM / Component: Pholiota squarrosa lectin (PhoSL) / Isotopic labeling: no |
Sample conditions | Ionic strength: 0 Not defined / Label: conditions_1 / pH: 7.5 / Pressure: 1 atm / Temperature: 308 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE III HD / Manufacturer: Bruker / Model: AVANCE III HD / Field strength: 900 MHz |
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Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 / Details: NONCRYSTALLOGRAPHIC SYMMETRY WAS APPLIED | ||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 50 / Conformers submitted total number: 20 |