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Yorodumi- PDB-2z7q: Crystal structure of the N-terminal kinase domain of human RSK-1 ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2z7q | ||||||
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Title | Crystal structure of the N-terminal kinase domain of human RSK-1 bound to AMP-PCP | ||||||
Components | Ribosomal protein S6 kinase alpha-1Ribosome | ||||||
Keywords | TRANSFERASE / protein kinase / cancer / kinase inhibitor / ATP-binding / Magnesium / Metal-binding / Nucleotide-binding / Phosphorylation / Serine/threonine-protein kinase | ||||||
Function / homology | Function and homology information regulation of translation in response to stress / CREB1 phosphorylation through NMDA receptor-mediated activation of RAS signaling / ribosomal protein S6 kinase activity / CREB phosphorylation / hepatocyte proliferation / positive regulation of hepatic stellate cell activation / Gastrin-CREB signalling pathway via PKC and MAPK / negative regulation of TOR signaling / RSK activation / Recycling pathway of L1 ...regulation of translation in response to stress / CREB1 phosphorylation through NMDA receptor-mediated activation of RAS signaling / ribosomal protein S6 kinase activity / CREB phosphorylation / hepatocyte proliferation / positive regulation of hepatic stellate cell activation / Gastrin-CREB signalling pathway via PKC and MAPK / negative regulation of TOR signaling / RSK activation / Recycling pathway of L1 / ERK/MAPK targets / cysteine-type endopeptidase inhibitor activity involved in apoptotic process / protein serine/threonine/tyrosine kinase activity / positive regulation of cell differentiation / negative regulation of cysteine-type endopeptidase activity involved in apoptotic process / Senescence-Associated Secretory Phenotype (SASP) / chemical synaptic transmission / positive regulation of cell growth / non-specific serine/threonine protein kinase / intracellular signal transduction / cell cycle / protein phosphorylation / protein serine kinase activity / protein serine/threonine kinase activity / synapse / negative regulation of apoptotic process / positive regulation of DNA-templated transcription / magnesium ion binding / signal transduction / positive regulation of transcription by RNA polymerase II / nucleoplasm / ATP binding / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2 Å | ||||||
Authors | Ikuta, M. / Munshi, S.K. | ||||||
Citation | Journal: Protein Sci. / Year: 2007 Title: Crystal structures of the N-terminal kinase domain of human RSK1 bound to three different ligands: Implications for the design of RSK1 specific inhibitors. Authors: Ikuta, M. / Kornienko, M. / Byrne, N. / Reid, J.C. / Mizuarai, S. / Kotani, H. / Munshi, S.K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2z7q.cif.gz | 71.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2z7q.ent.gz | 50.6 KB | Display | PDB format |
PDBx/mmJSON format | 2z7q.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/z7/2z7q ftp://data.pdbj.org/pub/pdb/validation_reports/z7/2z7q | HTTPS FTP |
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-Related structure data
Related structure data | 2z7rC 2z7sC 1vzoS 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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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 36777.391 Da / Num. of mol.: 1 / Fragment: Residues 33-353 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: RPS6KA1, RSK1 / Cell line (production host): SF21 / Production host: Spodoptera frugiperda (fall armyworm) References: UniProt: Q15418, non-specific serine/threonine protein kinase |
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#2: Chemical | ChemComp-MG / |
#3: Chemical | ChemComp-ACP / |
#4: 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: 2.28 Å3/Da / Density % sol: 46.13 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 12-16% PEG MME 2000, 150mM DL-malic acid, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 17-ID |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Aug 18, 2006 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 2→50 Å / Num. obs: 23584 / % possible obs: 99.1 % / Redundancy: 5.5 % / Biso Wilson estimate: 37.1 Å2 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1VZO Resolution: 2→20 Å
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Refinement step | Cycle: LAST / Resolution: 2→20 Å
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