+Open data
-Basic information
Entry | Database: PDB / ID: 1d6k | ||||||
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Title | NMR SOLUTION STRUCTURE OF THE 5S RRNA E-LOOP/L25 COMPLEX | ||||||
Components |
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Keywords | RIBOSOME / PROTEIN-RNA COMPLEX | ||||||
Function / homology | Function and homology information response to radiation / ribosomal large subunit assembly / cytoplasmic translation / 5S rRNA binding / cytosolic large ribosomal subunit / negative regulation of translation / structural constituent of ribosome / translation / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | SOLUTION NMR / HYBRID DISTANCE GEOMETRY, SIMULATED ANNEALING | ||||||
Authors | Stoldt, M. / Wohnert, J. / Ohlenschlager, O. / Gorlach, M. / Brown, L.R. | ||||||
Citation | Journal: EMBO J. / Year: 1999 Title: The NMR structure of the 5S rRNA E-domain-protein L25 complex shows preformed and induced recognition. Authors: Stoldt, M. / Wohnert, J. / Ohlenschlager, O. / Gorlach, M. / Brown, L.R. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1d6k.cif.gz | 1 MB | Display | PDBx/mmCIF format |
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PDB format | pdb1d6k.ent.gz | 918 KB | Display | PDB format |
PDBx/mmJSON format | 1d6k.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/d6/1d6k ftp://data.pdbj.org/pub/pdb/validation_reports/d6/1d6k | 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: RNA chain | Mass: 12024.151 Da / Num. of mol.: 1 / Source method: obtained synthetically Details: THE RNA SEQUENCE WAS SYNTHESIZED VIA IN VITRO TRANSCIPTION (T7 POLYMERASE) OF A PLASMID DNA TEMPLATE. |
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#2: Protein | Mass: 10713.465 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Plasmid: PET11A / Production host: Escherichia coli (E. coli) / References: UniProt: P68919 |
-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 |
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Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer | Type: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 750 MHz |
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-Processing
NMR software |
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Refinement | Method: HYBRID DISTANCE GEOMETRY, SIMULATED ANNEALING / Software ordinal: 1 | ||||||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: target function / Conformers calculated total number: 200 / Conformers submitted total number: 20 |