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Yorodumi- PDB-1sb0: Solution structure of the KIX domain of CBP bound to the transact... -
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-Basic information
Entry | Database: PDB / ID: 1sb0 | ||||||
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Title | Solution structure of the KIX domain of CBP bound to the transactivation domain of c-Myb | ||||||
Components |
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Keywords | TRANSCRIPTION / CREB-binding protein / transcriptional activation / constitutive activation / LXXLL motif / Myb / KIX | ||||||
Function / homology | Function and homology information positive regulation of testosterone secretion / Activation of the TFAP2 (AP-2) family of transcription factors / myeloid cell development / Regulation of FOXO transcriptional activity by acetylation / TRAF6 mediated IRF7 activation / Nuclear events mediated by NFE2L2 / positive regulation of hepatic stellate cell proliferation / Attenuation phase / Regulation of gene expression by Hypoxia-inducible Factor / LRR FLII-interacting protein 1 (LRRFIP1) activates type I IFN production ...positive regulation of testosterone secretion / Activation of the TFAP2 (AP-2) family of transcription factors / myeloid cell development / Regulation of FOXO transcriptional activity by acetylation / TRAF6 mediated IRF7 activation / Nuclear events mediated by NFE2L2 / positive regulation of hepatic stellate cell proliferation / 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 hepatic stellate cell activation / positive regulation of cell adhesion molecule production / germ-line stem cell population maintenance / positive regulation of transforming growth factor beta production / negative regulation of viral process / Regulation of lipid metabolism by PPARalpha / Cytoprotection by HMOX1 / embryonic digestive tract development / stem cell division / CD209 (DC-SIGN) signaling / Estrogen-dependent gene expression / peptide lactyltransferase (CoA-dependent) activity / outer kinetochore / myeloid cell differentiation / negative regulation of interferon-beta production / histone H3K18 acetyltransferase activity / cellular response to interleukin-6 / 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 / WD40-repeat domain binding / peptide-lysine-N-acetyltransferase activity / cellular response to hepatocyte growth factor stimulus / positive regulation of dendritic spine development / SMAD binding / behavioral response to cocaine / acetyltransferase activity / TFIIB-class transcription factor binding / positive regulation of double-strand break repair via homologous recombination / homeostasis of number of cells / histone acetyltransferase complex / positive regulation of collagen biosynthetic process / positive regulation of G1/S transition of mitotic cell cycle / long-term memory / histone acetyltransferase activity / positive regulation of glial cell proliferation / histone acetyltransferase / spleen development / Transferases; Acyltransferases; Transferring groups other than aminoacyl groups / B cell differentiation / thymus development / cellular response to leukemia inhibitory factor / RNA polymerase II transcription regulatory region sequence-specific DNA binding / positive regulation of smooth muscle cell proliferation / protein destabilization / protein modification process / chromatin DNA binding / cellular response to virus / PML body / transcription coactivator binding / positive regulation of DNA-binding transcription factor activity / G1/S transition of mitotic cell cycle / positive regulation of non-canonical NF-kappaB signal transduction / RNA polymerase II transcription regulator complex / calcium ion transport / cellular response to UV / disordered domain specific binding / positive regulation of neuron apoptotic process / rhythmic process / mitotic cell cycle / regulation of gene expression / DNA-binding transcription activator activity, RNA polymerase II-specific / DNA-binding transcription factor binding / in utero embryonic development / RNA polymerase II-specific DNA-binding transcription factor binding / transcription regulator complex / damaged DNA binding / molecular adaptor activity / transcription coactivator activity / nuclear body / DNA-binding transcription factor activity, RNA polymerase II-specific / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / protein domain specific binding / chromatin binding / positive regulation of gene expression / protein-containing complex binding / regulation of DNA-templated transcription / chromatin / positive regulation of DNA-templated transcription / positive regulation of transcription by RNA polymerase II Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | SOLUTION NMR / initial structures from DYANA, refined in AMBER | ||||||
Authors | Zor, T. / De Guzman, R.N. / Dyson, H.J. / Wright, P.E. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2004 Title: Solution Structure of the KIX Domain of CBP Bound to the Transactivation Domain of c-Myb Authors: Zor, T. / De Guzman, R.N. / Dyson, H.J. / Wright, P.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1sb0.cif.gz | 735.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1sb0.ent.gz | 620.5 KB | Display | PDB format |
PDBx/mmJSON format | 1sb0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1sb0_validation.pdf.gz | 366.9 KB | Display | wwPDB validaton report |
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Full document | 1sb0_full_validation.pdf.gz | 579 KB | Display | |
Data in XML | 1sb0_validation.xml.gz | 29.6 KB | Display | |
Data in CIF | 1sb0_validation.cif.gz | 53.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/sb/1sb0 ftp://data.pdbj.org/pub/pdb/validation_reports/sb/1sb0 | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 10353.856 Da / Num. of mol.: 1 / Fragment: KIX domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Gene: CBP / Plasmid: pET / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) DNAY / References: UniProt: P45481 |
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#2: Protein/peptide | Mass: 2947.469 Da / Num. of mol.: 1 / Fragment: transcriptional activation domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Gene: c-Myb / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) DNAY / References: UniProt: P06876 |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 20 mM Tris d11 acetate d4; 50 mM NaCl; 2 mM NaN3; pH 5.5 Solvent system: 90% H20; 10% D2O |
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Sample conditions | Ionic strength: 50 mM / pH: 5.5 / Pressure: ambient / Temperature: 27 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: initial structures from DYANA, refined in AMBER / Software ordinal: 1 | ||||||||||||||||||||
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 |