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Open data
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Basic information
Entry | Database: PDB / ID: 1c02 | ||||||
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Title | CRYSTAL STRUCTURE OF YEAST YPD1P | ||||||
![]() | PHOSPHOTRANSFERASE YPD1P | ||||||
![]() | TRANSFERASE / HELIX-BUNDLE | ||||||
Function / homology | ![]() transferase activity, transferring phosphorus-containing groups / protein histidine kinase binding / osmosensory signaling via phosphorelay pathway / histidine phosphotransfer kinase activity / phosphorelay signal transduction system / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Song, H.K. / Lee, J.Y. / Lee, M.G. / Suh, S.W. | ||||||
![]() | ![]() Title: Insights into eukaryotic multistep phosphorelay signal transduction revealed by the crystal structure of Ypd1p from Saccharomyces cerevisiae. Authors: Song, H.K. / Lee, J.Y. / Lee, M.G. / Moon, J. / Min, K. / Yang, J.K. / Suh, S.W. #1: ![]() Title: Crystallization and preliminary X-ray analysis of Saccharomyces cerevisiae Ypd1p, a key intermediate in phosphorelay signal transduction Authors: Lee, M.G. / Lee, J.Y. / Song, H.K. / Suh, S.W. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 75 KB | Display | ![]() |
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PDB format | ![]() | 58.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 19055.471 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Plasmid: PET22B / Production host: ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.26 Å3/Da / Density % sol: 45.5 % |
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Crystal grow | Temperature: 297 K / Method: vapor diffusion, hanging drop / pH: 7.36 Details: AMMONIUM SULFATE, LITHIUM SULFATE, HEPES, PEG 400, pH 7.36, VAPOR DIFFUSION, HANGING DROP, temperature 297.0K |
Crystal grow | *PLUS Temperature: 296 K |
Components of the solutions | *PLUS Conc.: 23 mg/ml / Common name: protein |
-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: FUJI / Detector: IMAGE PLATE / Date: Nov 10, 1998 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→50 Å / Num. all: 319853 / Num. obs: 319853 / % possible obs: 97.6 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 9.6 % / Biso Wilson estimate: 25 Å2 / Rmerge(I) obs: 0.048 / Net I/σ(I): 15.1 |
Reflection shell | Resolution: 1.8→1.9 Å / Redundancy: 5.3 % / Rmerge(I) obs: 0.279 / % possible all: 94 |
Reflection | *PLUS Num. obs: 33318 |
Reflection shell | *PLUS % possible obs: 94 % |
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Processing
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Refinement | Resolution: 1.8→8 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: ENGH & HUBER
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Refinement step | Cycle: LAST / Resolution: 1.8→8 Å
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Refine LS restraints |
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