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Yorodumi- PDB-2lh0: NMR structure of the histone-interacting N-terminal homodimeric r... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2lh0 | ||||||
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Title | NMR structure of the histone-interacting N-terminal homodimeric region of Rtt106 | ||||||
Components | Histone chaperone RTT106 | ||||||
Keywords | CHAPERONE / HISTONE CHAPERONE / CHROMOSOMAL PROTEIN / NUCLEUS / PHOSPHOPROTEIN / TRANSCRIPTION / TRANSCRIPTION REGULATION / TRANSPOSITION | ||||||
Function / homology | Function and homology information transposition / DNA replication-dependent chromatin assembly / heterochromatin formation / nucleosome binding / transcription elongation by RNA polymerase II / chromatin organization / chromosome / histone binding / double-stranded DNA binding / negative regulation of transcription by RNA polymerase II ...transposition / DNA replication-dependent chromatin assembly / heterochromatin formation / nucleosome binding / transcription elongation by RNA polymerase II / chromatin organization / chromosome / histone binding / double-stranded DNA binding / negative regulation of transcription by RNA polymerase II / identical protein binding / nucleus Similarity search - Function | ||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | lowest energy, model 1 | ||||||
Authors | Hu, Q. / Cui, G. / Mer, G. | ||||||
Citation | Journal: Nature / Year: 2012 Title: Structural basis for recognition of H3K56-acetylated histone H3-H4 by the chaperone Rtt106. Authors: Su, D. / Hu, Q. / Li, Q. / Thompson, J.R. / Cui, G. / Fazly, A. / Davies, B.A. / Botuyan, M.V. / Zhang, Z. / Mer, G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2lh0.cif.gz | 884.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2lh0.ent.gz | 745.2 KB | Display | PDB format |
PDBx/mmJSON format | 2lh0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2lh0_validation.pdf.gz | 418.4 KB | Display | wwPDB validaton report |
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Full document | 2lh0_full_validation.pdf.gz | 690.8 KB | Display | |
Data in XML | 2lh0_validation.xml.gz | 54.1 KB | Display | |
Data in CIF | 2lh0_validation.cif.gz | 73.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lh/2lh0 ftp://data.pdbj.org/pub/pdb/validation_reports/lh/2lh0 | HTTPS FTP |
-Related structure data
Related structure data | 3fssC 3tvvC 3tw1C C: citing same article (ref.) |
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Similar structure data | |
Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 8129.175 Da / Num. of mol.: 2 / Fragment: sequence database residues 1-67 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) Strain: ATCC 204508 / S288c / Gene: N1346, RTT106, YNL206C / Production host: Escherichia coli (E. coli) / Strain (production host): ROSETTA PLYSS / References: UniProt: P40161 |
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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 | Ionic strength: 50 / pH: 6.95 / Pressure: AMBIENT / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: BRUKER AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 700 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / 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 |