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- PDB-1b18: PH AFFECTS GLU B13 SWITCHING AND SULFATE BINDING IN CUBIC INSULIN... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1b18 | ||||||
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Title | PH AFFECTS GLU B13 SWITCHING AND SULFATE BINDING IN CUBIC INSULIN CRYSTALS (PH 5.53 COORDINATES) | ||||||
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![]() | HORMONE/GROWTH FACTOR / HORMONE / GLUCOSE CONCENTRATION DECREASE / HORMONE-GROWTH FACTOR COMPLEX | ||||||
Function / homology | ![]() Insulin processing / IRS activation / Signal attenuation / Insulin receptor signalling cascade / Signaling by Insulin receptor / Synthesis, secretion, and deacylation of Ghrelin / PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling / Insulin receptor recycling / glycoprotein biosynthetic process / response to L-arginine ...Insulin processing / IRS activation / Signal attenuation / Insulin receptor signalling cascade / Signaling by Insulin receptor / Synthesis, secretion, and deacylation of Ghrelin / PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling / Insulin receptor recycling / glycoprotein biosynthetic process / response to L-arginine / positive regulation of lipoprotein lipase activity / lactate biosynthetic process / positive regulation of fatty acid biosynthetic process / positive regulation of glucose metabolic process / lipoprotein biosynthetic process / COPI-mediated anterograde transport / lipid biosynthetic process / negative regulation of gluconeogenesis / positive regulation of insulin receptor signaling pathway / positive regulation of protein autophosphorylation / insulin-like growth factor receptor binding / positive regulation of DNA replication / positive regulation of protein secretion / hormone activity / glucose metabolic process / insulin receptor signaling pathway / glucose homeostasis / positive regulation of cell migration / extracellular space / identical protein binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() | ||||||
![]() | Diao, J.S. / Caspar, D.L.D. | ||||||
![]() | ![]() Title: Crystallographic titration of cubic insulin crystals: pH affects GluB13 switching and sulfate binding. Authors: Diao, J. #1: ![]() Title: Conformational Changes in Cubic Insulin Crystals in the Ph Range 7-11 Authors: Gursky, O. / Badger, J. / Li, Y. / Caspar, D.L. #2: ![]() Title: Monovalent Cation Binding in Cubic Insulin Crystals Authors: Gursky, O. / Li, Y. / Badger, J. / Caspar, D.L. #4: ![]() Title: Structure of the Pig Insulin Dimer in the Cubic Crystal Authors: Badger, J. / Harris, M.R. / Reynolds, C.D. / Evans, A.C. / Dodson, E.J. / Dodson, G.G. / North, A.C.T. #5: ![]() Title: Water Structure in Cubic Insulin Crystals Authors: Badger, J. / Caspar, D.L. #6: ![]() Title: Zinc-Free Cubic Pig Insulin: Crystallization and Structure Determination Authors: Dodson, E.J. / Dodson, G.G. / Lewitova, A. / Sabesan, M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 22.7 KB | Display | ![]() |
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PDB format | ![]() | 14.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 1b17C ![]() 1b19C ![]() 1b2aC ![]() 1b2bC ![]() 1b2cC ![]() 1b2dC ![]() 1b2eC ![]() 1b2fC ![]() 1b2gC 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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2 | ![]()
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3 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein/peptide | Mass: 2383.698 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() |
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#2: Protein/peptide | Mass: 3403.927 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() |
#3: Chemical | ChemComp-SO4 / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.51 Å3/Da / Density % sol: 65 % / Description: RAXIS-II | ||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 5.53 / Details: pH 5.53 | ||||||||||||||||||||||||||||||||||||
Components of the solutions | Conc.: 2 / Name: 1M SODIUM SULFATE SOLUTION AT PH 5.53 / Details: 3 / Volume: 1 Å3 | ||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 9.2 / Method: microdialysis | ||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 287 K |
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Diffraction source | Wavelength: 1.5418 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→55 Å / Num. obs: 9061 / % possible obs: 99.6 % / Redundancy: 3.79 % / Biso Wilson estimate: 20.05 Å2 / Rsym value: 0.094 |
Reflection | *PLUS Highest resolution: 1.8 Å / % possible obs: 99.7 % / Rmerge(I) obs: 0.094 |
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Processing
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Refinement | Method to determine structure: OTHER / Resolution: 1.8→10 Å / Data cutoff high absF: 1000000 / Data cutoff low absF: 0.001 / Cross valid method: THROUGHOUT / σ(F): 2
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Displacement parameters | Biso mean: 21.7 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.8→10 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.8→1.84 Å / Total num. of bins used: 15
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Xplor file |
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Refinement | *PLUS Highest resolution: 1.8 Å / Lowest resolution: 10 Å / Rfactor Rfree: 0.2173 / Rfactor Rwork: 0.1839 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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