+Open data
-Basic information
Entry | Database: PDB / ID: 2ru3 | ||||||
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Title | Solution structure of c.elegans SUP-12 RRM in complex with RNA | ||||||
Components |
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Keywords | RNA BINDING PROTEIN/RNA / solution structure / Protein-RNA Complex / RRM (RNA recognition motif) / RNA BINDING PROTEIN-RNA complex | ||||||
Function / homology | Function and homology information alternative mRNA splicing, via spliceosome / pre-mRNA binding / regulation of locomotion / regulation of alternative mRNA splicing, via spliceosome / pre-mRNA intronic binding / regulation of actin cytoskeleton organization / single-stranded RNA binding / nuclear speck / ribonucleoprotein complex Similarity search - Function | ||||||
Biological species | Caenorhabditis elegans (invertebrata) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | fewest violations, model1 | ||||||
Authors | Takahashi, M. / Kuwasako, K. / Unzai, S. / Tsuda, K. / Yoshikawa, S. / He, F. / Kobayashi, N. / Guntert, P. / Shirouzu, M. / Ito, T. ...Takahashi, M. / Kuwasako, K. / Unzai, S. / Tsuda, K. / Yoshikawa, S. / He, F. / Kobayashi, N. / Guntert, P. / Shirouzu, M. / Ito, T. / Tanaka, A. / Yokoyama, S. / Hagiwara, M. / Kuroyanagi, H. / Muto, Y. | ||||||
Citation | Journal: Nat.Struct.Mol.Biol. / Year: 2014 Title: RBFOX and SUP-12 sandwich a G base to cooperatively regulate tissue-specific splicing Authors: Kuwasako, K. / Takahashi, M. / Unzai, S. / Tsuda, K. / Yoshikawa, S. / He, F. / Kobayashi, N. / Guntert, P. / Shirouzu, M. / Ito, T. / Tanaka, A. / Yokoyama, S. / Hagiwara, M. / Kuroyanagi, H. / Muto, Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2ru3.cif.gz | 692.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2ru3.ent.gz | 579.6 KB | Display | PDB format |
PDBx/mmJSON format | 2ru3.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ru/2ru3 ftp://data.pdbj.org/pub/pdb/validation_reports/ru/2ru3 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 11426.773 Da / Num. of mol.: 1 / Fragment: RNA recognition motif (RRM), UNP residues 20-121 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Caenorhabditis elegans (invertebrata) / Gene: sup-12, CELE_T22B2.4, T22B2.4 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 / References: UniProt: O45189 |
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#2: RNA chain | Mass: 1908.173 Da / Num. of mol.: 1 / Source method: obtained synthetically |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 0.6 mM [U-100% 13C; U-100% 15N] SUP-12-1, 0.72 mM RNA-2, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||
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Sample |
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Sample conditions | Ionic strength: 0.1 / pH: 5-7 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software | Name: Amber / Version: 9 Developer: Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman Classification: refinement |
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Refinement | Method: simulated annealing / Software ordinal: 1 |
NMR representative | Selection criteria: fewest violations |
NMR ensemble | Conformer selection criteria: structures with the least restraint violations Conformers calculated total number: 200 / Conformers submitted total number: 20 / Representative conformer: 1 |