[English] 日本語
Yorodumi- PDB-5u9b: Solution structure of the zinc fingers 1 and 2 of MBNL1 in comple... -
+Open data
-Basic information
Entry | Database: PDB / ID: 5u9b | ||||||
---|---|---|---|---|---|---|---|
Title | Solution structure of the zinc fingers 1 and 2 of MBNL1 in complex with human cardiac troponin T pre-mRNA | ||||||
Components |
| ||||||
Keywords | RNA BINDING PROTEIN/RNA / Zinc fingers RNA-binding / Structure from MOLMOL / RNA BINDING PROTEIN-RNA complex | ||||||
Function / homology | Function and homology information regulatory region RNA binding / myoblast differentiation / embryonic limb morphogenesis / regulation of RNA splicing / RNA splicing / mRNA processing / cytoplasmic stress granule / double-stranded RNA binding / nervous system development / in utero embryonic development ...regulatory region RNA binding / myoblast differentiation / embryonic limb morphogenesis / regulation of RNA splicing / RNA splicing / mRNA processing / cytoplasmic stress granule / double-stranded RNA binding / nervous system development / in utero embryonic development / RNA binding / nucleoplasm / metal ion binding / nucleus / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Phukan, P.D. / Park, S. / Martinez-Yamout, M.M. / Zeeb, M. / Dyson, H.J. / Wright, P.E. | ||||||
Funding support | United States, 1items
| ||||||
Citation | Journal: Biochemistry / Year: 2017 Title: Structural Basis for Interaction of the Tandem Zinc Finger Domains of Human Muscleblind with Cognate RNA from Human Cardiac Troponin T. Authors: Park, S. / Phukan, P.D. / Zeeb, M. / Martinez-Yamout, M.A. / Dyson, H.J. / Wright, P.E. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 5u9b.cif.gz | 761.9 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb5u9b.ent.gz | 636.8 KB | Display | PDB format |
PDBx/mmJSON format | 5u9b.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/u9/5u9b ftp://data.pdbj.org/pub/pdb/validation_reports/u9/5u9b | HTTPS FTP |
---|
-Related structure data
Related structure data | 5u6hC 5u6lC C: citing same article (ref.) |
---|---|
Similar structure data | |
Other databases |
|
-Links
-Assembly
Deposited unit |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-Components
#1: Protein | Mass: 10577.180 Da / Num. of mol.: 1 / Fragment: zinc fingers 1 and 2 (UNP residues 1-92) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: MBNL1, EXP, KIAA0428, MBNL / Production host: Escherichia coli (E. coli) / References: UniProt: Q9NR56 |
---|---|
#2: RNA chain | Mass: 4618.721 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) Homo sapiens (human) |
#3: Chemical |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
|
-Sample preparation
Details | Type: solution Contents: 0.4 mM [U-98% 13C; U-98% 15N] Zinc fingers 1 and 2 of MBNL1, 0.4 mM unlabeled RNA (5'-R(P*GP*UP*CP*UP*CP*GP*CP*UP*UP*UP*UP*CP*CP*CP*C)-3'), 90% H2O/10% D2O Label: 15N,13C-MBNL / Solvent system: 90% H2O/10% D2O | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sample |
| ||||||||||||
Sample conditions | Ionic strength: 100 mM NaCl mM / Label: 1 / pH: 7.0 / Pressure: 1 atm / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
|
---|
-Processing
NMR software |
| |||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method: simulated annealing / Software ordinal: 6 | |||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | |||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 200 / Conformers submitted total number: 20 |