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Yorodumi- PDB-2el6: Solution structure of the 21th zf-C2H2 domain from human Zinc fin... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2el6 | ||||||
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Title | Solution structure of the 21th zf-C2H2 domain from human Zinc finger protein 268 | ||||||
Components | Zinc finger protein 268 | ||||||
Keywords | TRANSCRIPTION / Alternative splicing / DNA-binding / Metal-binding / Nuclear protein / Repeat / Transcription regulation / Zinc / Zinc-finger / Structural Genomics / NPPSFA / National Project on Protein Structural and Functional Analyses / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | Function and homology information regulation of protein heterodimerization activity / positive regulation of protein homodimerization activity / Generic Transcription Pathway / regulation of mitotic cell cycle / positive regulation of cell differentiation / positive regulation of non-canonical NF-kappaB signal transduction / positive regulation of protein catabolic process / cellular response to tumor necrosis factor / DNA-binding transcription activator activity, RNA polymerase II-specific / cell differentiation ...regulation of protein heterodimerization activity / positive regulation of protein homodimerization activity / Generic Transcription Pathway / regulation of mitotic cell cycle / positive regulation of cell differentiation / positive regulation of non-canonical NF-kappaB signal transduction / positive regulation of protein catabolic process / cellular response to tumor necrosis factor / DNA-binding transcription activator activity, RNA polymerase II-specific / cell differentiation / regulation of cell cycle / positive regulation of cell migration / positive regulation of protein phosphorylation / positive regulation of apoptotic process / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / negative regulation of cell population proliferation / positive regulation of cell population proliferation / regulation of DNA-templated transcription / regulation of transcription by RNA polymerase II / negative regulation of apoptotic process / negative regulation of transcription by RNA polymerase II / positive regulation of transcription by RNA polymerase II / DNA binding / metal ion binding / nucleus / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR | ||||||
Authors | Kurosaki, C. / Yoshida, M. / Hayashi, F. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: To be Published Title: Solution structure of the 21th zf-C2H2 domain from human Zinc finger protein 268 Authors: Kurosaki, C. / Yoshida, M. / Hayashi, F. / Yokoyama, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2el6.cif.gz | 262.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2el6.ent.gz | 227.1 KB | Display | PDB format |
PDBx/mmJSON format | 2el6.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/el/2el6 ftp://data.pdbj.org/pub/pdb/validation_reports/el/2el6 | HTTPS FTP |
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-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/peptide | Mass: 4830.427 Da / Num. of mol.: 1 / Fragment: UNP Residues 831-863 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Description: cell free protein synthesis / Gene: ZNF268 / Plasmid: P061225-02 / References: UniProt: Q14587 |
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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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NMR details | Text: spectrometer_id 1 for 3D_13C_separated_NOESY; spectrometer_id 2 for 3D_15N_separated_NOESY |
-Sample preparation
Details | Contents: 1.11mM 13C, 15N-labeled protein; 20mM d-Tris-HCl(pH7.0); 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 0.05mM ZnCl2; 1mM IDA; 90% H2O; 10% D2O Solvent system: 90% H2O/10% D2O |
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Sample conditions | Ionic strength: 120mM / pH: 7.0 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations,structures with the lowest energy,target function Conformers calculated total number: 100 / Conformers submitted total number: 20 |