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Yorodumi- PDB-1u6f: NMR solution structure of TcUBP1, a single RBD-unit from Trypanos... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1u6f | ||||||
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Title | NMR solution structure of TcUBP1, a single RBD-unit from Trypanosoma cruzi | ||||||
Components | RNA-binding protein UBP1 | ||||||
Keywords | RNA BINDING PROTEIN / trypanosome / TcUBP1 / mRNA-binding protein / GU-rich RNA | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Trypanosoma cruzi (eukaryote) | ||||||
Method | SOLUTION NMR / distance geometry, simulated annealing | ||||||
Authors | Volpon, L. / D'orso, I. / Frasch, A. / Gehring, K. | ||||||
Citation | Journal: Biochemistry / Year: 2005 Title: NMR Structural Study of TcUBP1, a Single RRM Domain Protein from Trypanosoma cruzi: Contribution of a beta Hairpin to RNA Binding Authors: Volpon, L. / D'Orso, I. / Young, C.R. / Frasch, A. / Gehring, K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1u6f.cif.gz | 848.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1u6f.ent.gz | 709.2 KB | Display | PDB format |
PDBx/mmJSON format | 1u6f.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/u6/1u6f ftp://data.pdbj.org/pub/pdb/validation_reports/u6/1u6f | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 15427.367 Da / Num. of mol.: 1 / Fragment: Residues 1-139 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Trypanosoma cruzi (eukaryote) / Gene: Tcubp-1 / Plasmid: pGEX2T / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 Gold (DE3) / References: UniProt: Q967R0 |
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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 |
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Sample conditions | Ionic strength: 50 mM NaCl / pH: 7.2 / Pressure: ambient / Temperature: 303 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M | |||||||||||||||
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Radiation wavelength | Relative weight: 1 | |||||||||||||||
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: distance geometry, simulated annealing / Software ordinal: 1 Details: the structures are based on a total of 1545 restraints: 1369 are NOE-derived distance constraints, 122 are dihedral angle restraints and 54 are distance restraints from hydrogen bonds. | ||||||||||||||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations, structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 20 |