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Yorodumi- PDB-2rvc: Solution structure of Zalpha domain of goldfish ZBP-containing pr... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2rvc | ||||||
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Title | Solution structure of Zalpha domain of goldfish ZBP-containing protein kinase | ||||||
Components | Interferon-inducible and double-stranded-dependent eIF-2kinase | ||||||
Keywords | DNA BINDING PROTEIN / Z dna binding protein / helix turn helix | ||||||
Function / homology | Function and homology information double-stranded RNA adenosine deaminase activity / eukaryotic translation initiation factor 2alpha kinase activity / RNA binding / ATP binding / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | Carassius auratus (goldfish) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Model details | lowest energy, model1 | ||||||
Authors | Lee, A. / Park, C. / Park, J. / Kwon, M. / Choi, Y. / Kim, K. / Choi, B. / Lee, J. | ||||||
Citation | Journal: Nucleic Acids Res. / Year: 2016 Title: Solution structure of the Z-DNA binding domain of PKR-like protein kinase from Carassius auratus and quantitative analyses of the intermediate complex during B-Z transition. Authors: Lee, A.R. / Park, C.J. / Cheong, H.K. / Ryu, K.S. / Park, J.W. / Kwon, M.Y. / Lee, J. / Kim, K.K. / Choi, B.S. / Lee, J.H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2rvc.cif.gz | 209.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2rvc.ent.gz | 173.2 KB | Display | PDB format |
PDBx/mmJSON format | 2rvc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2rvc_validation.pdf.gz | 404.7 KB | Display | wwPDB validaton report |
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Full document | 2rvc_full_validation.pdf.gz | 465.3 KB | Display | |
Data in XML | 2rvc_validation.xml.gz | 14.3 KB | Display | |
Data in CIF | 2rvc_validation.cif.gz | 22.7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/rv/2rvc ftp://data.pdbj.org/pub/pdb/validation_reports/rv/2rvc | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 7458.514 Da / Num. of mol.: 1 / Fragment: UNP RESIDUES 1-64 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Carassius auratus (goldfish) / Production host: Escherichia coli (E. coli) / References: UniProt: Q7T2M9 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 1.0 mM [U-99% 13C; U-99% 15N] caZapkz-1, 100 mM sodium chloride-2, 10 mM sodium phosphate-3, 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: 6 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Varian Agilent DD2 / Manufacturer: Varian / Model: Agilent DD2 / Field strength: 700 MHz |
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-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 Details: CNS 1.3 in explicit solvent using the RECOORD protocol | ||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 10 / Representative conformer: 1 |