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Yorodumi- PDB-1wn0: Crystal Structure of Histidine-containing Phosphotransfer Protein... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1wn0 | ||||||
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Title | Crystal Structure of Histidine-containing Phosphotransfer Protein, ZmHP2, from maize | ||||||
Components | histidine-containing phosphotransfer protein | ||||||
Keywords | SIGNALING PROTEIN / four-helix bundle / Structural Genomics / NPPSFA / National Project on Protein Structural and Functional Analyses / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | Function and homology information positive regulation of cytokinin-activated signaling pathway / protein histidine kinase binding / cytokinin-activated signaling pathway / histidine phosphotransfer kinase activity / phosphorelay signal transduction system / nucleus / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Zea mays (maize) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.2 Å | ||||||
Authors | Sugawara, H. / Kawano, Y. / Hatakeyama, T. / Yamaya, T. / Kamiya, N. / Sakakibara, H. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: Protein Sci. / Year: 2005 Title: Crystal structure of the histidine-containing phosphotransfer protein ZmHP2 from maize Authors: Sugawara, H. / Kawano, Y. / Hatakeyama, T. / Yamaya, T. / Kamiya, N. / Sakakibara, H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1wn0.cif.gz | 114 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1wn0.ent.gz | 90.7 KB | Display | PDB format |
PDBx/mmJSON format | 1wn0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1wn0_validation.pdf.gz | 454.5 KB | Display | wwPDB validaton report |
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Full document | 1wn0_full_validation.pdf.gz | 475.1 KB | Display | |
Data in XML | 1wn0_validation.xml.gz | 23.3 KB | Display | |
Data in CIF | 1wn0_validation.cif.gz | 31.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wn/1wn0 ftp://data.pdbj.org/pub/pdb/validation_reports/wn/1wn0 | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data | |
Other databases |
-Links
-Assembly
Deposited unit |
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Unit cell |
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-Components
#1: Protein | Mass: 16225.483 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Zea mays (maize) / Gene: Zmhp2 / Plasmid: pQE30 / Production host: Escherichia coli (E. coli) / Strain (production host): M15 / References: UniProt: Q9SLX1 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 3.49 Å3/Da / Density % sol: 65 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 4.2 Details: 50mM ammonium sulfate, 100mM sodium acetate buffer, pH 4.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction |
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Diffraction source |
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Detector | Type: RIGAKU JUPITER 210 / Detector: CCD / Date: Feb 28, 2003 | ||||||||||||||||||
Radiation |
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Radiation wavelength |
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Reflection | Resolution: 2.2→20 Å / Num. obs: 42707 / % possible obs: 94.1 % / Observed criterion σ(I): 0 | ||||||||||||||||||
Reflection shell | Resolution: 2.2→2.28 Å / % possible all: 91.7 |
-Processing
Software |
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Refinement | Method to determine structure: MAD Starting model: selenomethionine labeled protein Resolution: 2.2→19.84 Å / Cor.coef. Fo:Fc: 0.939 / Cor.coef. Fo:Fc free: 0.919 / SU B: 4.951 / SU ML: 0.125 / TLS residual ADP flag: LIKELY RESIDUAL / Cross valid method: THROUGHOUT / ESU R: 0.204 / ESU R Free: 0.184 / Stereochemistry target values: MAXIMUM LIKELIHOOD
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→19.84 Å
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Refine LS restraints |
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LS refinement shell | Highest resolution: 2.2 Å / Num. reflection Rwork: 2847 / Total num. of bins used: 20 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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