+Open data
-Basic information
Entry | Database: PDB / ID: 2c5z | ||||||
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Title | Structure and CTD binding of the Set2 SRI domain | ||||||
Components | SET DOMAIN PROTEIN 2Data domain | ||||||
Keywords | TRANSCRIPTION / SRI DOMAIN / RNA POLYMERASE II / CTD / SET2 HISTONE METHYLTRANSFERASE | ||||||
Function / homology | Function and homology information negative regulation of antisense RNA transcription / ascospore formation / negative regulation of reciprocal meiotic recombination / [histone H3]-lysine36 N-trimethyltransferase / histone H3K36 trimethyltransferase activity / DNA-templated transcription elongation / histone H3K36 methyltransferase activity / regulation of DNA-templated DNA replication initiation / DNA-templated transcription termination / methylation ...negative regulation of antisense RNA transcription / ascospore formation / negative regulation of reciprocal meiotic recombination / [histone H3]-lysine36 N-trimethyltransferase / histone H3K36 trimethyltransferase activity / DNA-templated transcription elongation / histone H3K36 methyltransferase activity / regulation of DNA-templated DNA replication initiation / DNA-templated transcription termination / methylation / chromatin / regulation of DNA-templated transcription / nucleus / cytosol Similarity search - Function | ||||||
Biological species | SACCHAROMYCES CEREVISIAE (brewer's yeast) | ||||||
Method | SOLUTION NMR / ARIA | ||||||
Authors | Vojnic, E. / Simon, B. / Strahl, B.D. / Sattler, M. / Cramer, P. | ||||||
Citation | Journal: J. Biol. Chem. / Year: 2006 Title: Structure and carboxyl-terminal domain (CTD) binding of the Set2 SRI domain that couples histone H3 Lys36 methylation to transcription. Authors: Vojnic, E. / Simon, B. / Strahl, B.D. / Sattler, M. / Cramer, P. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2c5z.cif.gz | 343.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2c5z.ent.gz | 290.9 KB | Display | PDB format |
PDBx/mmJSON format | 2c5z.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/c5/2c5z ftp://data.pdbj.org/pub/pdb/validation_reports/c5/2c5z | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar 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: 11982.031 Da / Num. of mol.: 1 / Fragment: SET2 RPB1 INTERACTING DOMAIN, RESIDUES 620-719 Source method: isolated from a genetically manipulated source Details: RESIDUES 1-4 IN THE CONSTRUCT USED FOR THE STRUCTURE DETERMINATION ARE FROM THE EXPRESSION VECTOR. Source: (gene. exp.) SACCHAROMYCES CEREVISIAE (brewer's yeast) Plasmid: PET 9D / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P46995 |
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Sequence details | RESIDUES 1-4 IN THE CONSTRUCT USED FOR THE STRUCTURE DETERMINAT |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR |
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NMR experiment | Type: NOESY |
NMR details | Text: 3D_15N-SEPARATED_NOESY, 3D_13C-SEPARATED_NOESY, 3D_13C EDITED NOESY, 3D_15N EDITED NOESY, HNHA, 2 D NOESY |
-Sample preparation
Details | Contents: 0.4-1MM 15N OR 15N/13C LABELLED PROTEIN, 90% WATER/ 10% D2O OR 100 % D2O |
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Sample conditions | Ionic strength: 20 MM SODIUM PHOSHATE, 200 MM SODIUM CHLORIDE pH: 6.5 / Pressure: 1.0 atm / Temperature: 292.0 K |
-NMR measurement
NMR spectrometer | Type: Bruker DRX / Manufacturer: Bruker / Model: DRX / Field strength: 500 MHz |
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-Processing
NMR software |
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Refinement | Method: ARIA / Software ordinal: 1 Details: THE NMR ENSEMBLE HAS BEEN REFINED IN A SHELL OF WATER MOLECULES. REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE AND LINGE ET AL. | ||||||||||||
NMR ensemble | Conformer selection criteria: LOWEST ENERGY / Conformers calculated total number: 100 / Conformers submitted total number: 10 |