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Open data
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Basic information
Entry | Database: PDB / ID: 1c1l | |||||||||
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Title | LACTOSE-LIGANDED CONGERIN I | |||||||||
![]() | PROTEIN (CONGERIN I) | |||||||||
![]() | SUGAR BINDING PROTEIN / ![]() ![]() | |||||||||
Function / homology | ![]() ![]() ![]() ![]() ![]() Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Shirai, T. / Mitsuyama, C. / Niwa, Y. / Matsui, Y. / Hotta, H. / Yamane, T. / Kamiya, H. / Ishii, C. / Ogawa, T. / Muramoto, K. | |||||||||
![]() | ![]() Title: High-resolution structure of the conger eel galectin, congerin I, in lactose-liganded and ligand-free forms: emergence of a new structure class by accelerated evolution. Authors: Shirai, T. / Mitsuyama, C. / Niwa, Y. / Matsui, Y. / Hotta, H. / Yamane, T. / Kamiya, H. / Ishii, C. / Ogawa, T. / Muramoto, K. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 43.2 KB | Display | ![]() |
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PDB format | ![]() | 28.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 1c1fC ![]() 1sltS 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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Components
#1: Protein | Mass: 15356.081 Da / Num. of mol.: 1 / Fragment: CARBOHYDRATE-RECOGNITION-DOMAIN / Source method: isolated from a natural source / Details: COMPLEXED WITH LACTOSE / Source: (natural) ![]() ![]() |
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#2: Polysaccharide | beta-D-galactopyranose-(1-4)-beta-D-glucopyranose / beta-lactose |
#3: Water | ChemComp-HOH / ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.28 Å3/Da / Density % sol: 46 % | ||||||||||||||||||||||||||||||
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Crystal grow![]() | pH: 9 / Details: pH 9.0 | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 18 ℃ / pH: 7 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 291 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: FUJI / Detector: IMAGE PLATE |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.5→20 Å / Num. obs: 20509 / % possible obs: 89 % / Observed criterion σ(I): 2 / Redundancy: 2.2 % / Rmerge(I) obs: 0.068 |
Reflection shell | Resolution: 1.5→1.55 Å / % possible all: 65.5 |
Reflection shell | *PLUS % possible obs: 65.5 % |
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Processing
Software |
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Refinement | Method to determine structure![]() ![]() Starting model: PDB ENTRY 1SLT Resolution: 1.5→8 Å / Cross valid method: THROUGHOUT / σ(F): 3 Details: SIDE-CHAINS OF GLN28, SER123 AND LEU124 ARE MODELED AS ALTERNATIVE CONFORMERS.
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Refinement step | Cycle: LAST / Resolution: 1.5→8 Å
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Refine LS restraints |
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Xplor file |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS σ(F): 3 / % reflection Rfree: 5 % / Rfactor obs: 0.213 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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