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- PDB-2ka6: NMR structure of the CBP-TAZ2/STAT1-TAD complex -

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Basic information

Entry
Database: PDB / ID: 2ka6
TitleNMR structure of the CBP-TAZ2/STAT1-TAD complex
Components
  • CREB-binding protein
  • Signal transducer and activator of transcription 1-alpha/beta
KeywordsTRANSCRIPTION REGULATOR / CBP/p300 / TAZ2 / STAT1 / transactivation domain / Bromodomain / Activator / Alternative splicing / Antiviral defense / Cytoplasm / Disease mutation / DNA-binding / Host-virus interaction / Nucleus / Phosphoprotein / Polymorphism / SH2 domain / Transcription / Transcription regulation / Acetylation / Chromosomal rearrangement / Metal-binding / Methylation / Transferase / Ubl conjugation / Zinc / Zinc-finger
Function / homology
Function and homology information


metanephric mesenchymal cell differentiation / negative regulation of metanephric nephron tubule epithelial cell differentiation / negative regulation by virus of viral protein levels in host cell / renal tubule development / ISGF3 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 / response to interferon-beta ...metanephric mesenchymal cell differentiation / negative regulation of metanephric nephron tubule epithelial cell differentiation / negative regulation by virus of viral protein levels in host cell / renal tubule development / ISGF3 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 / response to interferon-beta / Attenuation phase / LRR FLII-interacting protein 1 (LRRFIP1) activates type I IFN production / metanephric mesenchymal cell proliferation involved in metanephros development / RUNX1 regulates transcription of genes involved in differentiation of myeloid cells / Formation of the beta-catenin:TCF transactivating complex / NOTCH1 Intracellular Domain Regulates Transcription / RUNX3 regulates NOTCH signaling / Regulation of gene expression by Hypoxia-inducible Factor / cAMP response element binding protein binding / interleukin-27-mediated signaling pathway / Notch-HLH transcription pathway / Transcriptional and post-translational regulation of MITF-M expression and activity / negative regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis / germ-line stem cell population maintenance / CCR5 chemokine receptor binding / negative regulation of viral process / Regulation of lipid metabolism by PPARalpha / Interleukin-9 signaling / Interleukin-21 signaling / interleukin-7-mediated signaling pathway / Cytoprotection by HMOX1 / interleukin-9-mediated signaling pathway / Estrogen-dependent gene expression / CD209 (DC-SIGN) signaling / peptide lactyltransferase (CoA-dependent) activity / outer kinetochore / negative regulation of interferon-beta production / histone H3K18 acetyltransferase activity / N-terminal peptidyl-lysine acetylation / histone H3K27 acetyltransferase activity / Signaling by cytosolic FGFR1 fusion mutants / tumor necrosis factor receptor binding / MRF binding / Interleukin-27 signaling / Interleukin-35 Signalling / cell surface receptor signaling pathway via STAT / blood circulation / face morphogenesis / positive regulation of mesenchymal cell proliferation / negative regulation of transcription by RNA polymerase I / NOTCH3 Intracellular Domain Regulates Transcription / protein-lysine-acetyltransferase activity / Interleukin-20 family signaling / cellular response to hepatocyte growth factor stimulus / Interleukin-6 signaling / type I interferon-mediated signaling pathway / histone acetyltransferase binding / acetyltransferase activity / negative regulation of endothelial cell proliferation / TFIIB-class transcription factor binding / ubiquitin-like protein ligase binding / Regulation of IFNA/IFNB signaling / positive regulation of interferon-alpha production / histone acetyltransferase complex / response to cAMP / cell surface receptor signaling pathway via JAK-STAT / response to type II interferon / type II interferon-mediated signaling pathway / response to mechanical stimulus / Regulation of IFNG signaling / Growth hormone receptor signaling / positive regulation of DNA-binding transcription factor activity / histone acetyltransferase activity / RNA polymerase II core promoter sequence-specific DNA binding / Signaling by PDGFRA transmembrane, juxtamembrane and kinase domain mutants / Signaling by PDGFRA extracellular domain mutants / cellular response to interferon-beta / histone acetyltransferase / positive regulation of double-strand break repair via homologous recombination / Signaling by CSF3 (G-CSF) / positive regulation of defense response to virus by host / response to cytokine / negative regulation of canonical NF-kappaB signal transduction / response to nutrient / Transferases; Acyltransferases; Transferring groups other than aminoacyl groups / positive regulation of smooth muscle cell proliferation / Downstream signal transduction / positive regulation of erythrocyte differentiation / protein phosphatase 2A binding / Signaling by phosphorylated juxtamembrane, extracellular and kinase domain KIT mutants / negative regulation of angiogenesis / Turbulent (oscillatory, disturbed) flow shear stress activates signaling by PIEZO1 and integrins in endothelial cells / transcription corepressor binding / tumor necrosis factor-mediated signaling pathway / RNA polymerase II transcription regulatory region sequence-specific DNA binding / promoter-specific chromatin binding / Downregulation of SMAD2/3:SMAD4 transcriptional activity / response to hydrogen peroxide / defense response / Signaling by SCF-KIT
Similarity search - Function
signal transducer and activator of transcription 1 / Signal transducer and activation of transcription 1, TAZ2 binding domain, C-terminal / STAT1, SH2 domain / STAT1, C-terminal domain superfamily / STAT1 TAZ2 binding domain / CREB-binding Protein; Chain A / TAZ domain / STAT transcription factor, DNA-binding, N-terminal / STAT transcription factor, protein interaction / STAT transcription factor, all-alpha domain ...signal transducer and activator of transcription 1 / Signal transducer and activation of transcription 1, TAZ2 binding domain, C-terminal / STAT1, SH2 domain / STAT1, C-terminal domain superfamily / STAT1 TAZ2 binding domain / CREB-binding Protein; Chain A / TAZ domain / STAT transcription factor, DNA-binding, N-terminal / STAT transcription factor, protein interaction / STAT transcription factor, all-alpha domain / STAT transcription factor, DNA-binding / : / STAT transcription factor, coiled-coil domain / STAT protein, DNA binding domain / STAT protein, protein interaction domain / Signal transducer and activator of transcription, linker domain / STAT protein, protein interaction domain / STAT transcription factor, N-terminal domain superfamily / Transcription factor STAT / STAT transcription factor, coiled coil / Nuclear receptor coactivator, CREB-bp-like, interlocking / Nuclear receptor coactivator, CREB-bp-like, interlocking domain superfamily / Creb binding / Zinc finger, TAZ-type / TAZ domain superfamily / TAZ zinc finger / Zinc finger TAZ-type profile. / TAZ zinc finger, present in p300 and CBP / : / Histone acetyltransferase p300-like, PHD domain / Coactivator CBP, KIX domain / CREB-binding protein/p300, atypical RING domain / CBP/p300-type histone acetyltransferase domain / CBP/p300, atypical RING domain superfamily / KIX domain / CREB-binding protein/p300, atypical RING domain / KIX domain profile. / CBP/p300-type histone acetyltransferase (HAT) domain profile. / Histone acetyltransferase Rtt109/CBP / Histone acetylation protein / Histone acetylation protein / Coactivator CBP, KIX domain superfamily / Zinc finger ZZ-type signature. / Zinc-binding domain, present in Dystrophin, CREB-binding protein. / Zinc finger, ZZ type / Zinc finger, ZZ-type / Zinc finger, ZZ-type superfamily / Zinc finger ZZ-type profile. / Single alpha-helices involved in coiled-coils or other helix-helix interfaces / p53-like transcription factor, DNA-binding / Nuclear receptor coactivator, interlocking / Helix non-globular / SH2 domain / Special / Src homology 2 (SH2) domain profile. / SH2 domain / SH2 domain superfamily / Bromodomain, conserved site / Bromodomain signature. / Bromodomain / bromo domain / Bromodomain / Bromodomain (BrD) profile. / Bromodomain-like superfamily / Zinc finger, RING/FYVE/PHD-type / Up-down Bundle / Mainly Alpha
Similarity search - Domain/homology
Signal transducer and activator of transcription 1-alpha/beta / Histone lysine acetyltransferase CREBBP
Similarity search - Component
Biological speciesMus musculus (house mouse)
Homo sapiens (human)
MethodSOLUTION NMR / molecular dynamics
AuthorsWojciak, J.M. / Martinez-Yamout, M.A. / Dyson, H.J. / Wright, P.E.
CitationJournal: Embo J. / Year: 2009
Title: Structural basis for recruitment of CBP/p300 coactivators by STAT1 and STAT2 transactivation domains.
Authors: Wojciak, J.M. / Martinez-Yamout, M.A. / Dyson, H.J. / Wright, P.E.
History
DepositionOct 30, 2008Deposition site: BMRB / Processing site: RCSB
Revision 1.0Apr 7, 2009Provider: repository / Type: Initial release
Revision 1.1Jul 13, 2011Group: Version format compliance
Revision 1.2Feb 19, 2020Group: Data collection / Database references ...Data collection / Database references / Derived calculations / Other
Category: database_2 / pdbx_database_status ...database_2 / pdbx_database_status / pdbx_nmr_software / pdbx_nmr_spectrometer / pdbx_struct_assembly / pdbx_struct_oper_list / struct_ref_seq_dif
Item: _pdbx_database_status.status_code_cs / _pdbx_nmr_software.name ..._pdbx_database_status.status_code_cs / _pdbx_nmr_software.name / _pdbx_nmr_spectrometer.model / _struct_ref_seq_dif.details
Revision 1.3Oct 20, 2021Group: Database references / Derived calculations / Category: database_2 / struct_ref_seq_dif / struct_site
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _struct_ref_seq_dif.details / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_id
Revision 1.4May 8, 2024Group: Data collection / Database references / Category: chem_comp_atom / chem_comp_bond / database_2 / Item: _database_2.pdbx_DOI

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: CREB-binding protein
B: Signal transducer and activator of transcription 1-alpha/beta
hetero molecules


Theoretical massNumber of molelcules
Total (without water)15,7655
Polymers15,5692
Non-polymers1963
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_5551
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)20 / 200structures with the lowest energy
RepresentativeModel #1closest to the average

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Components

#1: Protein CREB-binding protein


Mass: 10527.567 Da / Num. of mol.: 1 / Fragment: UNP residues 1764 to 1855
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Mus musculus (house mouse) / Gene: Cbp, Crebbp / Production host: Escherichia coli (E. coli) / References: UniProt: P45481, histone acetyltransferase
#2: Protein/peptide Signal transducer and activator of transcription 1-alpha/beta / Transcription factor ISGF-3 components p91/p84


Mass: 5041.582 Da / Num. of mol.: 1 / Fragment: UNP residues 710 to 750
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Homo sapiens (human) / Gene: STAT1 / Production host: Escherichia coli (E. coli) / References: UniProt: P42224
#3: Chemical ChemComp-ZN / ZINC ION


Mass: 65.409 Da / Num. of mol.: 3 / Source method: obtained synthetically / Formula: Zn

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experimentType: 2D 1H-15N HSQC

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Sample preparation

DetailsContents: 1 mM [U-100% 15N] TAZ2, 90% H2O/10% D2O / Solvent system: 90% H2O/10% D2O
SampleConc.: 1 mM / Component: TAZ2 / Isotopic labeling: [U-100% 15N]
Sample conditionsIonic strength: 0.05 / pH: 6.8 / Pressure: ambient / Temperature: 290 K

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NMR measurement

NMR spectrometer
TypeManufacturerModelField strength (MHz)Spectrometer-ID
Bruker DRXBrukerDRX6001
Bruker AvanceBrukerAVANCE9002

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Processing

NMR softwareName: Amber
Developer: Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm
Classification: refinement
RefinementMethod: molecular dynamics / Software ordinal: 1
NMR representativeSelection criteria: closest to the average
NMR ensembleConformer selection criteria: structures with the lowest energy
Conformers calculated total number: 200 / Conformers submitted total number: 20

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