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Yorodumi- PDB-2kvf: Structure of the three-Cys2His2 domain of mouse testis zinc finge... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2kvf | ||||||
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Title | Structure of the three-Cys2His2 domain of mouse testis zinc finger protein | ||||||
Components | Zinc finger and BTB domain-containing protein 32 | ||||||
Keywords | TRANSCRIPTION / protein/DNA / Metal-binding / Zinc-finger | ||||||
Function / homology | Function and homology information regulation of immune system process / nuclear chromosome / hemopoiesis / T cell proliferation / regulation of cytokine production / DNA-binding transcription repressor activity, RNA polymerase II-specific / transcription corepressor activity / RNA polymerase II cis-regulatory region sequence-specific DNA binding / negative regulation of transcription by RNA polymerase II / DNA binding ...regulation of immune system process / nuclear chromosome / hemopoiesis / T cell proliferation / regulation of cytokine production / DNA-binding transcription repressor activity, RNA polymerase II-specific / transcription corepressor activity / RNA polymerase II cis-regulatory region sequence-specific DNA binding / negative regulation of transcription by RNA polymerase II / DNA binding / zinc ion binding / nucleoplasm Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | closest to the average, model 1 | ||||||
Authors | Chou, C.-C. / Lou, Y.-C. / Chen, C. | ||||||
Citation | Journal: Proteins / Year: 2010 Title: Structure and DNA binding characteristics of the three-Cys(2)His(2) domain of mouse testis zinc finger protein. Authors: Chou, C.-C. / Lou, Y.-C. / Tang, T.K. / Chen, C. | ||||||
History |
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Remark 650 | HELIX DETERMINATION METHOD: AUTHOR DETERMINED |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2kvf.cif.gz | 142.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2kvf.ent.gz | 115.2 KB | Display | PDB format |
PDBx/mmJSON format | 2kvf.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2kvf_validation.pdf.gz | 340.3 KB | Display | wwPDB validaton report |
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Full document | 2kvf_full_validation.pdf.gz | 437.2 KB | Display | |
Data in XML | 2kvf_validation.xml.gz | 12.3 KB | Display | |
Data in CIF | 2kvf_validation.cif.gz | 18.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/kv/2kvf ftp://data.pdbj.org/pub/pdb/validation_reports/kv/2kvf | HTTPS FTP |
-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/peptide | Mass: 3347.917 Da / Num. of mol.: 1 Fragment: mTZD_finger1, C2H2-type 1 domain, UNP residues 348-374 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Production host: Escherichia coli (E. coli) / Strain (production host): Tuner(DE3)pLacI / References: UniProt: Q9JKD9 |
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#2: Chemical | ChemComp-ZN / |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 50 mM [U-99% 2H] acetic acid-1, 20 mM sodium chloride-2, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||
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Sample |
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Sample conditions | Ionic strength: 20 / pH: 6 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 50 / Conformers submitted total number: 15 / Representative conformer: 1 |