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Yorodumi- PDB-2ebw: Solution structure of the BRCT domain from human DNA repair prote... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2ebw | ||||||
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Title | Solution structure of the BRCT domain from human DNA repair protein REV1 | ||||||
Components | DNA repair protein REV1 | ||||||
Keywords | TRANSFERASE / a/b/a 3 layers / parallel beta-sheet / DNA replication / translession synthesis / TLS / DNA polymerase zeta / PCNA / Structural Genomics / NPPSFA / National Project on Protein Structural and Functional Analyses / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | Function and homology information deoxycytidyl transferase activity / error-free translesion synthesis / error-prone translesion synthesis / response to UV / Translesion synthesis by REV1 / Translesion synthesis by POLK / Translesion synthesis by POLI / Termination of translesion DNA synthesis / Transferases; Transferring phosphorus-containing groups; Nucleotidyltransferases / DNA replication ...deoxycytidyl transferase activity / error-free translesion synthesis / error-prone translesion synthesis / response to UV / Translesion synthesis by REV1 / Translesion synthesis by POLK / Translesion synthesis by POLI / Termination of translesion DNA synthesis / Transferases; Transferring phosphorus-containing groups; Nucleotidyltransferases / DNA replication / damaged DNA binding / DNA-directed DNA polymerase activity / nucleoplasm / metal ion binding Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | Nagashima, T. / Hayashi, F. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: To be Published Title: Solution structure of the BRCT domain from human DNA repair protein REV1 Authors: Nagashima, T. / Hayashi, F. / Yokoyama, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2ebw.cif.gz | 590.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2ebw.ent.gz | 495.8 KB | Display | PDB format |
PDBx/mmJSON format | 2ebw.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2ebw_validation.pdf.gz | 341.6 KB | Display | wwPDB validaton report |
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Full document | 2ebw_full_validation.pdf.gz | 473.3 KB | Display | |
Data in XML | 2ebw_validation.xml.gz | 32.7 KB | Display | |
Data in CIF | 2ebw_validation.cif.gz | 50.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/eb/2ebw ftp://data.pdbj.org/pub/pdb/validation_reports/eb/2ebw | HTTPS FTP |
-Related structure data
Similar structure data | |
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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: 10784.303 Da / Num. of mol.: 1 / Fragment: BRCT domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Description: Cell-free protein synthesis / Plasmid: P060821-10 References: UniProt: Q9UBZ9, Transferases; Transferring phosphorus-containing groups; Nucleotidyltransferases |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 0.76mM uniformly 13C/15N-labeled protein, 20mM TrisHCl, 100mM NaCl, 1mM DTT, 0.02% NaN3, 10% D2O, 90% H2O Solvent system: 10% D2O, 90% H2O |
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Sample conditions | Ionic strength: 120mM / pH: 7.0 / Pressure: ambient / Temperature: 293 K |
-NMR measurement
NMR spectrometer | Type: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 900 MHz |
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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 lowest energy, target function Conformers calculated total number: 100 / Conformers submitted total number: 20 |