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Yorodumi- PDB-2rnz: Solution structure of the presumed chromodomain of the yeast hist... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2rnz | ||||||
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Title | Solution structure of the presumed chromodomain of the yeast histone acetyltransferase, Esa1 | ||||||
Components | Histone acetyltransferase ESA1 | ||||||
Keywords | TRANSFERASE / Esa1 / HAT / chromodomain / tudor domain / RNA binding / Activator / Chromatin regulator / Transcription / Transcription regulation | ||||||
Function / homology | Function and homology information DNA Damage/Telomere Stress Induced Senescence / Sensing of DNA Double Strand Breaks / piccolo histone acetyltransferase complex / Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks / histone H4K16 acetyltransferase activity / peptide 2-hydroxyisobutyryltransferase activity / histone crotonyltransferase activity / DNA-templated transcription elongation / positive regulation of triglyceride biosynthetic process / histone H4 acetyltransferase activity ...DNA Damage/Telomere Stress Induced Senescence / Sensing of DNA Double Strand Breaks / piccolo histone acetyltransferase complex / Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks / histone H4K16 acetyltransferase activity / peptide 2-hydroxyisobutyryltransferase activity / histone crotonyltransferase activity / DNA-templated transcription elongation / positive regulation of triglyceride biosynthetic process / histone H4 acetyltransferase activity / rDNA heterochromatin formation / peptide N-acetyltransferase activity / NuA4 histone acetyltransferase complex / peptide-lysine-N-acetyltransferase activity / Estrogen-dependent gene expression / positive regulation of macroautophagy / histone acetyltransferase activity / histone acetyltransferase / Transferases; Acyltransferases; Transferring groups other than aminoacyl groups / positive regulation of transcription elongation by RNA polymerase II / transcription coregulator activity / nucleosome / regulation of cell cycle / DNA repair / negative regulation of DNA-templated transcription / DNA-templated transcription / chromatin / regulation of transcription by RNA polymerase II / positive regulation of transcription by RNA polymerase II / nucleus Similarity search - Function | ||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | Shimojo, H. / Sano, N. / Moriwaki, Y. / Okuda, M. / Horikoshi, M. / Nishimura, Y. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2008 Title: Novel structural and functional mode of a knot essential for RNA binding activity of the Esa1 presumed chromodomain Authors: Shimojo, H. / Sano, N. / Moriwaki, Y. / Okuda, M. / Horikoshi, M. / Nishimura, Y. | ||||||
History |
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Remark 650 | HELIX DETERMINATION METHOD: AUTHOR DETERMINED | ||||||
Remark 700 | SHEET DETERMINATION METHOD: AUTHOR DETERMINED |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2rnz.cif.gz | 596.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2rnz.ent.gz | 520.5 KB | Display | PDB format |
PDBx/mmJSON format | 2rnz.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/rn/2rnz ftp://data.pdbj.org/pub/pdb/validation_reports/rn/2rnz | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 11071.521 Da / Num. of mol.: 1 / Fragment: Residues 17-89 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) Plasmid: PET15B / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: Q08649, histone acetyltransferase |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details |
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Sample |
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Sample conditions | pH: 6.8 / Pressure: AMBIENT / Temperature: 295 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 | ||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations Conformers calculated total number: 600 / Conformers submitted total number: 20 |