|Entry||Database: PDB / ID: 3a60|
|Title||Crystal structure of unphosphorylated p70S6K1 (Form I)|
|Components||Ribosomal protein S6 kinase beta-1Ribosome|
|Keywords||TRANSFERASE / Kinase / Kinase domain / Inactive / Active / Ribosomal S6 kinase / Activation / Alternative initiation / ATP-binding / Cell junction / Cytoplasm / Nucleotide-binding / Phosphoprotein / Polymorphism / Serine/threonine-protein kinase / Synapse / Synaptosome|
|Function / homology|
Function and homology information
long-chain fatty acid import into cell / response to electrical stimulus involved in regulation of muscle adaptation / skeletal muscle atrophy / positive regulation of skeletal muscle tissue growth / ribosomal protein S6 kinase activity / regulation of glucose import / response to leucine / response to glucagon / response to testosterone / positive regulation of translational initiation ...long-chain fatty acid import into cell / response to electrical stimulus involved in regulation of muscle adaptation / skeletal muscle atrophy / positive regulation of skeletal muscle tissue growth / ribosomal protein S6 kinase activity / regulation of glucose import / response to leucine / response to glucagon / response to testosterone / positive regulation of translational initiation / mTORC1-mediated signalling / positive regulation of smooth muscle cell migration / TOR signaling / behavioral fear response / germ cell development / skeletal muscle contraction / response to tumor necrosis factor / phosphatidylinositol-mediated signaling / negative regulation of insulin receptor signaling pathway / cellular response to dexamethasone stimulus / long-term memory / protein kinase B signaling / positive regulation of mitotic cell cycle / response to mechanical stimulus / response to glucose / protein phosphatase 2A binding / response to nutrient / positive regulation of smooth muscle cell proliferation / cellular response to type II interferon / protein serine/threonine/tyrosine kinase activity / positive regulation of translation / response to nutrient levels / PDZ domain binding / negative regulation of extrinsic apoptotic signaling pathway / response to toxic substance / peptide binding / G1/S transition of mitotic cell cycle / cellular response to growth factor stimulus / response to wounding / cellular response to insulin stimulus / cell migration / response to heat / response to lipopolysaccharide / mitochondrial outer membrane / response to ethanol / aging / non-specific serine/threonine protein kinase / anchoring junction / peptidyl-serine phosphorylation / protein kinase activity / response to xenobiotic stimulus / neuron projection / synapse / protein serine kinase activity / protein serine/threonine kinase activity / apoptotic process / negative regulation of apoptotic process / perinuclear region of cytoplasm / cell surface / signal transduction / mitochondrion / nucleoplasm / ATP binding / identical protein binding / nucleus / cytosol / cytoplasm
Similarity search - Function
Ribosomal protein S6 kinase / Protein kinase C terminal domain / Protein kinase, C-terminal / Extension to Ser/Thr-type protein kinases / AGC-kinase, C-terminal / AGC-kinase C-terminal domain profile. / Serine/threonine-protein kinase, active site / Serine/Threonine protein kinases active-site signature. / Transferase(Phosphotransferase) domain 1 / Transferase(Phosphotransferase); domain 1 ...Ribosomal protein S6 kinase / Protein kinase C terminal domain / Protein kinase, C-terminal / Extension to Ser/Thr-type protein kinases / AGC-kinase, C-terminal / AGC-kinase C-terminal domain profile. / Serine/threonine-protein kinase, active site / Serine/Threonine protein kinases active-site signature. / Transferase(Phosphotransferase) domain 1 / Transferase(Phosphotransferase); domain 1 / Phosphorylase Kinase; domain 1 / Protein kinase domain / Phosphorylase Kinase; domain 1 / Serine/Threonine protein kinases, catalytic domain / Protein kinases ATP-binding region signature. / Protein kinase, ATP binding site / Protein kinase domain profile. / Protein kinase domain / Protein kinase-like domain superfamily / 2-Layer Sandwich / Orthogonal Bundle / Mainly Alpha / Alpha Beta
Similarity search - Domain/homology
STAUROSPORINE / Ribosomal protein S6 kinase beta-1
Similarity search - Component
|Biological species||Homo sapiens (human)|
|Method||X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.8 Å|
|Authors||Sunami, T. / Byrne, N. / Diehl, R.E. / Funabashi, K. / Hall, D.L. / Ikuta, M. / Patel, S.B. / Shipman, J.M. / Smith, R.F. / Takahashi, I. ...Sunami, T. / Byrne, N. / Diehl, R.E. / Funabashi, K. / Hall, D.L. / Ikuta, M. / Patel, S.B. / Shipman, J.M. / Smith, R.F. / Takahashi, I. / Zugay-Murphy, J. / Iwasawa, Y. / Lumb, K.J. / Munshi, S.K. / Sharma, S.|
|Citation||Journal: J.Biol.Chem. / Year: 2010|
Title: Structural basis of human p70 ribosomal S6 kinase-1 regulation by activation loop phosphorylation.
Authors: Sunami, T. / Byrne, N. / Diehl, R.E. / Funabashi, K. / Hall, D.L. / Ikuta, M. / Patel, S.B. / Shipman, J.M. / Smith, R.F. / Takahashi, I. / Zugay-Murphy, J. / Iwasawa, Y. / Lumb, K.J. / Munshi, S.K. / Sharma, S.
|Structure viewer||Molecule: |
Downloads & links
A: Ribosomal protein S6 kinase beta-1
B: Ribosomal protein S6 kinase beta-1
Mass: 36936.641 Da / Num. of mol.: 2 / Fragment: UNP residues 75-399
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Homo sapiens (human) / Plasmid: pVL1392 / Cell line (production host): Sf21 / Production host: Spodoptera frugiperda (fall armyworm)
References: UniProt: P23443, non-specific serine/threonine protein kinase
Mass: 466.531 Da / Num. of mol.: 2 / Source method: obtained synthetically / Formula: C28H26N4O3 / Comment: anticancer, antifungal, antibiotic, alkaloid*YM
|#3: Water|| ChemComp-HOH / |
|Experiment||Method: X-RAY DIFFRACTION / Number of used crystals: 1|
|Crystal||Density Matthews: 2.9 Å3/Da / Density % sol: 57.62 %|
|Crystal grow||Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 5.5 |
Details: 0.1M Bis-Tris, pH 5.5, 0.2M lithium sulfate, 22.5% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
|Diffraction||Mean temperature: 100 K|
|Diffraction source||Source: SYNCHROTRON / Site: APS / Beamline: 17-ID / Wavelength: 1 Å|
|Detector||Type: MAR CCD 165 mm / Detector: CCD / Date: Mar 19, 2008|
|Radiation||Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray|
|Radiation wavelength||Wavelength: 1 Å / Relative weight: 1|
|Reflection||Resolution: 2.8→19.81 Å / Num. obs: 20565 / % possible obs: 97.9 % / Redundancy: 3.6 % / Biso Wilson estimate: 70.1 Å2 / Rsym value: 0.049 / Net I/σ(I): 14.3|
|Reflection shell||Resolution: 2.8→2.9 Å / Redundancy: 2.4 % / Mean I/σ(I) obs: 2.85 / Rsym value: 0.282 / % possible all: 83.8|
|Refinement||Method to determine structure: MOLECULAR REPLACEMENT|
Starting model: p70S6K1 homology model based on the published RSK1 structure; PDB ENTRY 2Z7R
Resolution: 2.8→19.81 Å / Rfactor Rfree error: 0.006 / Data cutoff high absF: 1025624.23 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 3
|Solvent computation||Solvent model: FLAT MODEL / Bsol: 24.6967 Å2 / ksol: 0.325502 e/Å3|
|Displacement parameters||Biso mean: 51.9 Å2|
|Refinement step||Cycle: LAST / Resolution: 2.8→19.81 Å|
|Refine LS restraints|
|LS refinement shell||Resolution: 2.8→2.97 Å / Rfactor Rfree error: 0.027 / Total num. of bins used: 6 |
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