+Open data
-Basic information
Entry | Database: PDB / ID: 6gtt | ||||||
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Title | Human STK10 bound to BIRB-796 | ||||||
Components | Serine/threonine-protein kinase 10Serine/threonine-specific protein kinase | ||||||
Keywords | TRANSFERASE / Kinase / Structural Genomics Consortium / SGC | ||||||
Function / homology | Function and homology information lymphocyte aggregation / regulation of lymphocyte migration / RHOB GTPase cycle / RHOC GTPase cycle / RHOA GTPase cycle / specific granule membrane / protein autophosphorylation / non-specific serine/threonine protein kinase / cell cycle / protein phosphorylation ...lymphocyte aggregation / regulation of lymphocyte migration / RHOB GTPase cycle / RHOC GTPase cycle / RHOA GTPase cycle / specific granule membrane / protein autophosphorylation / non-specific serine/threonine protein kinase / cell cycle / protein phosphorylation / protein serine kinase activity / protein serine/threonine kinase activity / Neutrophil degranulation / protein homodimerization activity / extracellular exosome / ATP binding / identical protein binding / plasma membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.25 Å | ||||||
Authors | Berger, B.T. / Sorrell, F.J. / von Delft, F. / Bountra, C. / Knapp, S. / Edwards, A.M. / Arrowsmith, C. / Elkins, J.M. | ||||||
Citation | Journal: To Be Published Title: STK10 bound to BIRB-796 Authors: Berger, B.T. / Elkins, J.M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6gtt.cif.gz | 129.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6gtt.ent.gz | 101 KB | Display | PDB format |
PDBx/mmJSON format | 6gtt.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/gt/6gtt ftp://data.pdbj.org/pub/pdb/validation_reports/gt/6gtt | HTTPS FTP |
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-Related structure data
Related structure data | 4useS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 34240.504 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: STK10, LOK / Plasmid: pNIC28-Bsa4 / Production host: Escherichia coli BL21(DE3) (bacteria) References: UniProt: O94804, non-specific serine/threonine protein kinase |
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#2: Chemical | ChemComp-B96 / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.11 Å3/Da / Density % sol: 60.5 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 6 Details: 20% PEG6000, 10% ethylene glycol, 0.1M MES pH 6.0, 0.1M magnesium chloride |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I04-1 / Wavelength: 0.9282 Å |
Detector | Type: DECTRIS PILATUS3 R CdTe 300K / Detector: PIXEL / Date: Feb 20, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9282 Å / Relative weight: 1 |
Reflection | Resolution: 2.25→87.18 Å / Num. obs: 21422 / % possible obs: 100 % / Redundancy: 17.7 % / Rmerge(I) obs: 0.07 / Net I/σ(I): 22.8 |
Reflection shell | Resolution: 2.25→2.32 Å / Redundancy: 18.3 % / Mean I/σ(I) obs: 2.1 / Num. unique obs: 1920 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 4use Resolution: 2.25→87.18 Å / Cor.coef. Fo:Fc: 0.951 / Cor.coef. Fo:Fc free: 0.879 / SU B: 30.034 / SU ML: 0.309 / Cross valid method: THROUGHOUT / ESU R: 0.246 / ESU R Free: 0.23 / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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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 mean: 97.193 Å2
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Refinement step | Cycle: 1 / Resolution: 2.25→87.18 Å
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Refine LS restraints |
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