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Yorodumi- PDB-2u2a: STEM LOOP IIA FROM U2 SNRNA OF SACCHAROMYCES CEREVISIAE, NMR, MIN... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2u2a | ||||||||||||||||||||
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Title | STEM LOOP IIA FROM U2 SNRNA OF SACCHAROMYCES CEREVISIAE, NMR, MINIMIZED AVERAGE STRUCTURE | ||||||||||||||||||||
Components | RNA (5'-R(P*Keywords | RNA / PRE-MRNA SPLICING / U2SNRNA / U-TURN / RNA-PROTEIN INTERACTIONS / RIBONUCLEIC ACID | Function / homology | RNA / RNA (> 10) | Function and homology information Biological species | Saccharomyces cerevisiae (brewer's yeast) | Method | SOLUTION NMR / molecular dynamics | Authors | Stallings, S.C. / Moore, P.B. | Citation | Journal: Structure / Year: 1997 Title: The structure of an essential splicing element: stem loop IIa from yeast U2 snRNA. Authors: Stallings, S.C. / Moore, P.B. #1: Journal: Genes Dev. / Year: 1991 Title: Efficient Association of U2 Snrnps with Pre-Mrna Requires an Essential U2 RNA Structural Element Authors: Zavanelli, M.I. / Ares Junior, M. #2: Journal: Genes Dev. / Year: 1990 Title: Lethal and Temperature-Sensitive Mutations and Their Suppressors Identify an Essential Structural Element in U2 Small Nuclear RNA Authors: Ares Junior, M. / Igel, A.H. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2u2a.cif.gz | 20.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2u2a.ent.gz | 13.4 KB | Display | PDB format |
PDBx/mmJSON format | 2u2a.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/u2/2u2a ftp://data.pdbj.org/pub/pdb/validation_reports/u2/2u2a | 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: RNA chain | Mass: 6406.878 Da / Num. of mol.: 1 / Fragment: STEM LOOP IIA Mutation: TWO TERMINAL BASE PAIRS WERE CHANGED FROM UAS IN STEM LOOP IIA TO GCS IN U2A TO ACCOMMODATE T7 TRANSCRIPTION Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) Description: MOLECULE TRANSCRIBED FROM A PARTIALLY SINGLE-STRANDED DNA TEMPLATE USING T7 RNA POLYMERASE Production host: Escherichia coli (E. coli) |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Sample conditions | Ionic strength: 75 mM / pH: 7.6 Pressure: 1 ATM SOLVENT SYSTEM : 10MM KH2PO4, 50 MM KCL, 15 MM NACL, 0.5 MM EDTA atm Temperature: 303 K |
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Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer |
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-Processing
Software |
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NMR software |
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Refinement | Method: molecular dynamics / Software ordinal: 1 Details: REFINEMENT WAS DONE USING TORSION ANGLE MOLECULAR DYNAMICS. DETAILS OF THE PROTOCOL CAN BE FOUND IN THE STRUCTURE CITATION ABOVE. | ||||||||||||||||
NMR ensemble | Conformer selection criteria: LEAST RESTRAINT VIOLATIONS / Conformers calculated total number: 15 / Conformers submitted total number: 1 |