+Open data
-Basic information
Entry | Database: PDB / ID: 4uw3 | ||||||
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Title | Human galectin-7 in complex with a galactose based dendron D1. | ||||||
Components | HUMAN GALECTIN-7 | ||||||
Keywords | SUGAR BINDING PROTEIN / LECTIN / GALECTIN-7 / DENDRIMERS / MULTIVALENCY / CARBOHYDRATE BINDING | ||||||
Function / homology | Function and homology information heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules / carbohydrate binding / apoptotic process / extracellular space / extracellular exosome / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | HOMO SAPIENS (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.479 Å | ||||||
Authors | Ramaswamy, S. / Sleiman, M.H. / Masuyer, G. / Arbez-Gindre, C. / Micha-Screttas, M. / Calogeropoulou, T. / Steele, B.R. / Acharya, K.R. | ||||||
Citation | Journal: FEBS J. / Year: 2015 Title: Structural Basis of Multivalent Galactose-Based Dendrimer Recognition by Human Galectin-7. Authors: Ramaswamy, S. / Haj Sleiman, M. / Masuyer, G. / Arbez-Gindre, C. / Micha-Screttas, M. / Calogeropoulou, T. / Steele, B.R. / Acharya, K.R. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4uw3.cif.gz | 72 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4uw3.ent.gz | 53 KB | Display | PDB format |
PDBx/mmJSON format | 4uw3.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/uw/4uw3 ftp://data.pdbj.org/pub/pdb/validation_reports/uw/4uw3 | HTTPS FTP |
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-Related structure data
Related structure data | 4uw4C 4uw5C 4uw6C 1bkzS C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 15097.046 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) HOMO SAPIENS (human) / Plasmid: PET-22 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P47929 #2: Chemical | ChemComp-50G / | #3: Water | ChemComp-HOH / | Nonpolymer details | DENDRON D1 (18B): ELECTRON DENSITY FOR TWO OF THREE ARMS OF THE DENDRON OBSSERVED.THE PDB FILE ...DENDRON D1 (18B): ELECTRON DENSITY FOR TWO OF THREE ARMS OF THE DENDRON OBSSERVED.THE PDB FILE CONTAINS THE CORDINATES | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 1.77 Å3/Da / Density % sol: 30.61 % / Description: NONE |
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Crystal grow | Details: 0.05 M BIS TRIS PROPANE PH7, 17 % PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I04 / Wavelength: 0.9795 |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Jun 23, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 1.48→29.38 Å / Num. obs: 38926 / % possible obs: 99.8 % / Observed criterion σ(I): 0 / Redundancy: 8.4 % / Biso Wilson estimate: 13.58 Å2 / Rmerge(I) obs: 0.08 / Net I/σ(I): 16.5 |
Reflection shell | Resolution: 1.48→1.56 Å / Redundancy: 6.9 % / Rmerge(I) obs: 0.49 / Mean I/σ(I) obs: 4.3 / % possible all: 98.3 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1BKZ Resolution: 1.479→29.384 Å / SU ML: 0.12 / σ(F): 1.34 / Phase error: 18.59 / Stereochemistry target values: ML / Details: RESIDUE 1 IS DISORDERED
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.479→29.384 Å
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Refine LS restraints |
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LS refinement shell |
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