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Yorodumi- PDB-1q53: SOLUTION STRUCTURE OF HYPOTHETICAL ARABIDOPSIS THALIANA PROTEIN A... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1q53 | |||||||||
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Title | SOLUTION STRUCTURE OF HYPOTHETICAL ARABIDOPSIS THALIANA PROTEIN AT3G17210. CENTER FOR EUKARYOTIC STRUCTURAL GENOMICS TARGET 13081 | |||||||||
Components | expressed protein: At3g17210 | |||||||||
Keywords | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / Protein Structure Initiative / CESG / PSI / Center for Eukaryotic Structural Genomics | |||||||||
Function / homology | Function and homology information pollen tube adhesion / defense response to fungus / defense response to bacterium / metal ion binding / plasma membrane / cytosol Similarity search - Function | |||||||||
Biological species | Arabidopsis thaliana (thale cress) | |||||||||
Method | SOLUTION NMR / torsion angle dynamics | |||||||||
Authors | Lytle, B.L. / Peterson, F.C. / Volkman, B.F. / Center for Eukaryotic Structural Genomics (CESG) | |||||||||
Citation | Journal: J.Biomol.Nmr / Year: 2004 Title: Structure of the hypothetical protein At3g17210 from Arabidopsis thaliana. Authors: Lytle, B.L. / Peterson, F.C. / Kjer, K.L. / Frederick, R.O. / Zhao, Q. / Thao, S. / Bingman, C. / Johnson, K.A. / Phillips Jr., G.N. / Volkman, B.F. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1q53.cif.gz | 1.3 MB | Display | PDBx/mmCIF format |
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PDB format | pdb1q53.ent.gz | 1.1 MB | Display | PDB format |
PDBx/mmJSON format | 1q53.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1q53_validation.pdf.gz | 358.8 KB | Display | wwPDB validaton report |
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Full document | 1q53_full_validation.pdf.gz | 727.3 KB | Display | |
Data in XML | 1q53_validation.xml.gz | 94.1 KB | Display | |
Data in CIF | 1q53_validation.cif.gz | 125.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/q5/1q53 ftp://data.pdbj.org/pub/pdb/validation_reports/q5/1q53 | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 12482.234 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Arabidopsis thaliana (thale cress) / Plasmid: pET-15b / Production host: Escherichia coli (E. coli) / Strain (production host): Rosetta (Novagen) / References: UniProt: Q9LUV2 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
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NMR experiment |
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NMR details | Text: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR SPECTROSCOPY. |
-Sample preparation
Details | Contents: 1 mM At3g17210 U-15N,13C, 20 MM SODIUM PHOSPHATE BUFFER, 50 MM SODIUM CHLORIDE, 90% H20, 10% D2O Solvent system: 90% H20, 10% D2O |
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Sample conditions | Ionic strength: 50 mM SODIUM CHLORIDE / pH: 6.5 / Pressure: AMBIENT / Temperature: 298 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
NMR spectrometer | Type: Bruker DMX / Manufacturer: Bruker / Model: DMX / Field strength: 600 MHz |
-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 Details: INITIAL STRUCTURES WERE GENERATED USING THE CANDID MODULE OF THE TORSION ANGLE DYNAMICS PROGRAM CYANA. ADDITIONAL NOE ASSIGNMENTS WERE DETERMINED MANUALLY AND PEAK INTENSITIES WERE CONVERTED ...Details: INITIAL STRUCTURES WERE GENERATED USING THE CANDID MODULE OF THE TORSION ANGLE DYNAMICS PROGRAM CYANA. ADDITIONAL NOE ASSIGNMENTS WERE DETERMINED MANUALLY AND PEAK INTENSITIES WERE CONVERTED INTO UPPER DISTANCE BOUNDS WITH THE CALIBA FUNCTION OF CYANA. THE FINAL STRUCTURES WERE BASED ON THE FOLLOWING RESTRAINTS (FOR EACH MONOMER): 2001 NON-TRIVIAL NOE DISTANCE CONSTRAINTS (1831 INTRAMOLECULAR AND 170 INTERMOLECULAR) AND 141 PHI AND PSI TORSION ANGLE CONSTRAINTS GENERATED FROM CHEMICAL SHIFT DATABASE SEARCHING USING THE PROGRAM TALOS. | ||||||||||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: LOWEST TARGET FUNCTION / Conformers calculated total number: 100 / Conformers submitted total number: 20 |