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Yorodumi- PDB-1u8t: Crystal structure of CheY D13K Y106W alone and in complex with a ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1u8t | ||||||
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Title | Crystal structure of CheY D13K Y106W alone and in complex with a FliM peptide | ||||||
Components |
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Keywords | SIGNALING PROTEIN / CHEY / FLIM / (beta/alpha)5 | ||||||
Function / homology | Function and homology information bacterial-type flagellum basal body, C ring / bacterial-type flagellum rotor complex / bacterial-type flagellum-dependent swimming motility / regulation of bacterial-type flagellum-dependent cell motility / aerotaxis / bacterial-type flagellum-dependent swarming motility / bacterial-type flagellum / regulation of chemotaxis / thermotaxis / internal peptidyl-lysine acetylation ...bacterial-type flagellum basal body, C ring / bacterial-type flagellum rotor complex / bacterial-type flagellum-dependent swimming motility / regulation of bacterial-type flagellum-dependent cell motility / aerotaxis / bacterial-type flagellum-dependent swarming motility / bacterial-type flagellum / regulation of chemotaxis / thermotaxis / internal peptidyl-lysine acetylation / phosphorelay response regulator activity / positive chemotaxis / protein acetylation / acetyltransferase activity / cytoskeletal motor activity / phosphorelay signal transduction system / chemotaxis / magnesium ion binding / signal transduction / plasma membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 1.5 Å | ||||||
Authors | Dyer, C.M. / Quillin, M.L. / Campos, A. / Lu, J. / McEvoy, M.M. / Hausrath, A.C. / Westbrook, E.M. / Matsumura, P. / Matthews, B.W. / Dahlquist, F.W. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2004 Title: Structure of the Constitutively Active Double Mutant CheY(D13K Y106W) Alone and in Complex with a FliM Peptide Authors: Dyer, C.M. / Quillin, M.L. / Campos, A. / Lu, J. / McEvoy, M.M. / Hausrath, A.C. / Westbrook, E.M. / Matsumura, P. / Matthews, B.W. / Dahlquist, F.W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1u8t.cif.gz | 123.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1u8t.ent.gz | 102.2 KB | Display | PDB format |
PDBx/mmJSON format | 1u8t.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/u8/1u8t ftp://data.pdbj.org/pub/pdb/validation_reports/u8/1u8t | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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3 |
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4 |
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5 |
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Unit cell |
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-Components
#1: Protein | Mass: 14299.634 Da / Num. of mol.: 4 / Mutation: D13K Y106W Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: cheY / Species (production host): Escherichia coli / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: P06143, UniProt: P0AE67*PLUS #2: Protein/peptide | Mass: 1689.884 Da / Num. of mol.: 2 / Source method: obtained synthetically / Details: prepared using solid-state synthesis / References: UniProt: P06974 #3: Chemical | ChemComp-SO4 / #4: Water | ChemComp-HOH / | |
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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: 1.94 Å3/Da / Density % sol: 36.17 % |
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Crystal grow | Temperature: 277 K / pH: 7.9 Details: PEG 3350, ammonium sulfate, Tris, VAPOR DIFFUSION, temperature 277K, pH 7.90 |
-Data collection
Diffraction | Mean temperature: 100 K | |||||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 17-ID / Wavelength: 0.98397,0.97938,0.97925, 0.97239 | |||||||||||||||
Detector | Type: MAR CCD 165 mm / Detector: CCD / Date: Nov 26, 1999 | |||||||||||||||
Radiation | Monochromator: SI(111) / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||
Radiation wavelength |
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Reflection | Resolution: 1.45→13.6 Å / Num. obs: 71506 / % possible obs: 92.7 % / Observed criterion σ(I): 0 / Biso Wilson estimate: 26 Å2 / Rmerge(I) obs: 0.1 / Net I/σ(I): 8.6 | |||||||||||||||
Reflection shell | Resolution: 1.45→1.51 Å / Rmerge(I) obs: 0.374 / Mean I/σ(I) obs: 1.6 / % possible all: 72 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 1.5→13.6 Å / Isotropic thermal model: TNT BCORREL / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: TNT PROTGEO
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Solvent computation | Solvent model: MOEWS AND KRETSINGER / Bsol: 125 Å2 / ksol: 0.83116 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.5→13.6 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.5→1.55 Å
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