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Open data
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Basic information
Entry | Database: PDB / ID: 1s5q | ||||||
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Title | Solution Structure of Mad1 SID-mSin3A PAH2 Complex | ||||||
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![]() | TRANSCRIPTION / Protein-peptide complex / Amphipathic helix motif / Four-helix bundle / Repressor-corepressor complex | ||||||
Function / homology | ![]() cellular response to tert-butyl hydroperoxide / Regulation of MECP2 expression and activity / Mad-Max complex / response to methylglyoxal / SUMOylation of transcription cofactors / regulation of hormone levels / cerebral cortex neuron differentiation / RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function / negative regulation of circadian rhythm / Regulation of lipid metabolism by PPARalpha ...cellular response to tert-butyl hydroperoxide / Regulation of MECP2 expression and activity / Mad-Max complex / response to methylglyoxal / SUMOylation of transcription cofactors / regulation of hormone levels / cerebral cortex neuron differentiation / RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function / negative regulation of circadian rhythm / Regulation of lipid metabolism by PPARalpha / Cytoprotection by HMOX1 / negative regulation of stem cell population maintenance / cellular response to dopamine / negative regulation of protein localization to nucleus / transcription regulator inhibitor activity / regulation of axon extension / Sin3-type complex / positive regulation of stem cell population maintenance / type I interferon-mediated signaling pathway / histone deacetylase complex / hematopoietic progenitor cell differentiation / heterochromatin formation / positive regulation of defense response to virus by host / : / positive regulation of G2/M transition of mitotic cell cycle / activation of innate immune response / transcription repressor complex / positive regulation of neuron differentiation / negative regulation of cell migration / cellular response to glucose stimulus / negative regulation of transforming growth factor beta receptor signaling pathway / protein localization / kinetochore / DNA-binding transcription repressor activity, RNA polymerase II-specific / transcription corepressor activity / rhythmic process / DNA replication / in utero embryonic development / RNA polymerase II-specific DNA-binding transcription factor binding / transcription regulator complex / protein dimerization activity / DNA-binding transcription factor activity, RNA polymerase II-specific / RNA polymerase II cis-regulatory region sequence-specific DNA binding / negative regulation of DNA-templated transcription / chromatin binding / protein-containing complex binding / regulation of DNA-templated transcription / chromatin / nucleolus / regulation of transcription by RNA polymerase II / negative regulation of apoptotic process / negative regulation of transcription by RNA polymerase II / protein-containing complex / mitochondrion / DNA binding / RNA binding / nucleoplasm / nucleus / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | SOLUTION NMR / Torsion angle dynamics, simulated annealing | ||||||
![]() | Swanson, K.A. / Knoepfler, P.S. / Huang, K. / Kang, R.S. / Cowley, S.M. / Laherty, C.D. / Eisenman, R.N. / Radhakrishnan, I. | ||||||
![]() | ![]() Title: HBP1 and Mad1 repressors bind the Sin3 corepressor PAH2 domain with opposite helical orientations. Authors: Swanson, K.A. / Knoepfler, P.S. / Huang, K. / Kang, R.S. / Cowley, S.M. / Laherty, C.D. / Eisenman, R.N. / Radhakrishnan, I. #1: ![]() Title: Solution Structure of the Interacting Domains of the Mad-Sin3 Complex: Implications for Recruitment of a Chromatin-Modifying Complex Authors: Brubaker, K. / Cowley, S.M. / Huang, K. / Loo, L. / Yochum, G.S. / Ayer, D.E. / Eisenman, R.N. / Radhakrishnan, I. | ||||||
History |
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Remark 650 | HELIX DETERMINATION METHOD: AUTHOR PROVIDED |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 663.8 KB | Display | ![]() |
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PDB format | ![]() | 558.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 351.1 KB | Display | ![]() |
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Full document | ![]() | 567.3 KB | Display | |
Data in XML | ![]() | 28.3 KB | Display | |
Data in CIF | ![]() | 48.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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NMR ensembles |
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Components
#1: Protein/peptide | Mass: 1968.302 Da / Num. of mol.: 1 / Fragment: Sin3 Interaction Domain (SID), Residues 6 to 21 / Source method: obtained synthetically Details: The peptide sequence was synthesized using automated methods. The sequence is naturally found in Homo sapiens (human). References: UniProt: Q05195 |
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#2: Protein | Mass: 10343.438 Da / Num. of mol.: 1 Fragment: Paired Amphipathic Helix 2, (PAH2 repeat), Residues 295 to 383 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||
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NMR experiment |
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Sample preparation
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Sample conditions | Ionic strength: 20 mM sodium phosphate, pH 6, 0.2% NaN3 / pH: 6 / Pressure: ambient / Temperature: 300 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M |
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Radiation wavelength | Relative weight: 1 |
NMR spectrometer | Type: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 600 MHz |
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Processing
NMR software |
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Refinement | Method: Torsion angle dynamics, simulated annealing / Software ordinal: 1 | ||||||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: The submitted conformers are the 20 structures with the lowest restraint energies, restraint violations, and RMS deviations from ideal covalent geometry Conformers calculated total number: 80 / Conformers submitted total number: 20 |