+Open data
-Basic information
Entry | Database: PDB / ID: 1c4l | ||||||
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Title | SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDING A C-U BASE-PAIR | ||||||
Components |
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Keywords | RNA / C-U base pair | ||||||
Function / homology | RNA Function and homology information | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model type details | minimized average | ||||||
Authors | Tanaka, Y. / Kojima, C. / Yamazaki, T. / Kodama, T.S. / Yasuno, K. / Miyashita, S. / Ono, A.M. / Ono, A.S. / Kainosho, M. / Kyogoku, Y. | ||||||
Citation | Journal: Biochemistry / Year: 2000 Title: Solution structure of an RNA duplex including a C-U base pair. Authors: Tanaka, Y. / Kojima, C. / Yamazaki, T. / Kodama, T.S. / Yasuno, K. / Miyashita, S. / Ono, A. / Ono, A. / Kainosho, M. / Kyogoku, Y. #1: Journal: Nucleic Acids Symp.Ser. / Year: 1997 Title: Structure model and physicochemical properties of the C-U mismatch pair in the double stranded RNA in solution Authors: Tanaka, Y. / Kojima, C. / Yamazaki, T. / Kyogoku, Y. / Miyashita, S. / Ono, A.S. / Kainosho, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1c4l.cif.gz | 19.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1c4l.ent.gz | 12.3 KB | Display | PDB format |
PDBx/mmJSON format | 1c4l.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1c4l_validation.pdf.gz | 298 KB | Display | wwPDB validaton report |
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Full document | 1c4l_full_validation.pdf.gz | 298.3 KB | Display | |
Data in XML | 1c4l_validation.xml.gz | 1.8 KB | Display | |
Data in CIF | 1c4l_validation.cif.gz | 2.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/c4/1c4l ftp://data.pdbj.org/pub/pdb/validation_reports/c4/1c4l | HTTPS FTP |
-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: 2870.783 Da / Num. of mol.: 1 / Source method: obtained synthetically Details: THIS OLIGONUCLEOTIDE WAS CHEMICALLY SYNTHESIZED (PHOSPHORAMIDITE METHOD). |
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#2: RNA chain | Mass: 2823.719 Da / Num. of mol.: 1 / Source method: obtained synthetically Details: THIS OLIGONUCLEOTIDE WAS CHEMICALLY SYNTHESIZED (PHOSPHORAMIDITE METHOD). |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||
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NMR experiment |
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NMR details | Text: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D HOMONUCLEAR TECHNIQUES |
-Sample preparation
Details |
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Sample conditions |
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Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 Details: DISTANCE CONSTRAINTS (NOE 433, HYDROGEN BOND (BASE-PAIR) 54), DIHEDRAL ANGLE CONSTRAINTS 45 | ||||||||||||||||||||
NMR representative | Selection criteria: minimized average structure | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: SUMMATION OF TOTAL ENERGY (COVALENT GEOMETRY, NON-BOND ENERGY, DISTANCE AND DIHEDRAL ANGLE CONSTRAINTS) Conformers calculated total number: 50 / Conformers submitted total number: 1 |