[English] 日本語
Yorodumi- PDB-2kkj: Solution structure of the Nuclear coactivator binding domain of CBP -
+Open data
-Basic information
Entry | Database: PDB / ID: 2kkj | ||||||
---|---|---|---|---|---|---|---|
Title | Solution structure of the Nuclear coactivator binding domain of CBP | ||||||
Components | CREB-binding protein | ||||||
Keywords | TRANSCRIPTION / CREB binding protein / iBID / nuclear coactivator domain / CBP / p160 | ||||||
Function / homology | Function and homology information Activation of the TFAP2 (AP-2) family of transcription factors / Regulation of FOXO transcriptional activity by acetylation / TRAF6 mediated IRF7 activation / Nuclear events mediated by NFE2L2 / Attenuation phase / Regulation of gene expression by Hypoxia-inducible Factor / LRR FLII-interacting protein 1 (LRRFIP1) activates type I IFN production / RUNX1 regulates transcription of genes involved in differentiation of myeloid cells / cAMP response element binding protein binding / Formation of the beta-catenin:TCF transactivating complex ...Activation of the TFAP2 (AP-2) family of transcription factors / Regulation of FOXO transcriptional activity by acetylation / TRAF6 mediated IRF7 activation / Nuclear events mediated by NFE2L2 / Attenuation phase / Regulation of gene expression by Hypoxia-inducible Factor / LRR FLII-interacting protein 1 (LRRFIP1) activates type I IFN production / RUNX1 regulates transcription of genes involved in differentiation of myeloid cells / cAMP response element binding protein binding / Formation of the beta-catenin:TCF transactivating complex / NOTCH1 Intracellular Domain Regulates Transcription / RUNX3 regulates NOTCH signaling / Notch-HLH transcription pathway / positive regulation of cell adhesion molecule production / germ-line stem cell population maintenance / Regulation of lipid metabolism by PPARalpha / negative regulation of viral process / Cytoprotection by HMOX1 / CD209 (DC-SIGN) signaling / Estrogen-dependent gene expression / outer kinetochore / negative regulation of interferon-beta production / histone H3K18 acetyltransferase activity / N-terminal peptidyl-lysine acetylation / histone H3K27 acetyltransferase activity / MRF binding / peroxisome proliferator activated receptor binding / face morphogenesis / negative regulation of transcription by RNA polymerase I / peptide-lysine-N-acetyltransferase activity / cellular response to hepatocyte growth factor stimulus / positive regulation of dendritic spine development / positive regulation of transforming growth factor beta receptor signaling pathway / non-canonical NF-kappaB signal transduction / SMAD binding / behavioral response to cocaine / acetyltransferase activity / cellular response to nutrient levels / TFIIB-class transcription factor binding / histone acetyltransferase complex / positive regulation of G1/S transition of mitotic cell cycle / long-term memory / histone acetyltransferase activity / histone acetyltransferase / Transferases; Acyltransferases; Transferring groups other than aminoacyl groups / RNA polymerase II transcription regulatory region sequence-specific DNA binding / protein destabilization / protein modification process / transcription coactivator binding / PML body / chromatin DNA binding / cellular response to virus / positive regulation of non-canonical NF-kappaB signal transduction / positive regulation of protein localization to nucleus / RNA polymerase II transcription regulator complex / transcription corepressor activity / cellular response to UV / rhythmic process / positive regulation of DNA-binding transcription factor activity / disordered domain specific binding / p53 binding / DNA-binding transcription factor binding / transcription regulator complex / RNA polymerase II-specific DNA-binding transcription factor binding / damaged DNA binding / transcription coactivator activity / molecular adaptor activity / nuclear body / protein domain specific binding / chromatin binding / chromatin / protein-containing complex binding / positive regulation of gene expression / regulation of DNA-templated transcription / positive regulation of DNA-templated transcription / negative regulation of transcription by RNA polymerase II / positive regulation of transcription by RNA polymerase II / protein-containing complex / DNA binding / zinc ion binding / nucleoplasm / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | closest to the average, model 1 | ||||||
Authors | Kjaergaard, M. / Teilum, K. / Poulsen, F.M. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2010 Title: Conformational selection in the molten globule state of the nuclear coactivator binding domain of CBP Authors: Kjaergaard, M. / Teilum, K. / Poulsen, F.M. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 2kkj.cif.gz | 185.7 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb2kkj.ent.gz | 160.3 KB | Display | PDB format |
PDBx/mmJSON format | 2kkj.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/kk/2kkj ftp://data.pdbj.org/pub/pdb/validation_reports/kk/2kkj | HTTPS FTP |
---|
-Related structure data
Related structure data | |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-Components
#1: Protein | Mass: 6568.562 Da / Num. of mol.: 1 Fragment: Nuclear coactivator binding domain, UNP residues 2059-2441 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Description: Coexpressed with ACTR / Production host: Escherichia coli (E. coli) / References: UniProt: P45481, histone acetyltransferase |
---|
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR Details: Structure of the ligand free state of the nuclear coactivator binding domaing of CBP | ||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
|
-Sample preparation
Details | Contents: 10 % D2O-1, 20 mM sodium chloride-2, 20 mM sodium phosphate-3, 2 mM [U-100% 13C; U-100% 15N] protein-4, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sample |
| ||||||||||||||||||||
Sample conditions | Ionic strength: 0.1 / pH: 6.5 / Pressure: ambient / Temperature: 31 K |
-NMR measurement
NMR spectrometer |
|
---|
-Processing
NMR software |
| ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations Conformers calculated total number: 50 / Conformers submitted total number: 10 / Representative conformer: 1 |