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Yorodumi- PDB-6zyc: Solution structure of the C-terminal domain of the vaccinia virus... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6zyc | ||||||
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Title | Solution structure of the C-terminal domain of the vaccinia virus DNA polymerase processivity factor component A20. | ||||||
Components | DNA polymerase processivity factor component A20 | ||||||
Keywords | REPLICATION / Poxviridae / DNA polymerase holoenzyme / processivity factor binding | ||||||
Function / homology | Chordopoxvirus A20R / Chordopoxvirus A20R protein / viral DNA genome replication / DNA replication / DNA polymerase processivity factor component OPG148 Function and homology information | ||||||
Biological species | Vaccinia virus | ||||||
Method | SOLUTION NMR / molecular dynamics | ||||||
Authors | Bersch, B. / Iseni, F. / Burmeister, W. / Tarbouriech, N. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2021 Title: Solution Structure of the C-terminal Domain of A20, the Missing Brick for the Characterization of the Interface between Vaccinia Virus DNA Polymerase and its Processivity Factor. Authors: Bersch, B. / Tarbouriech, N. / Burmeister, W.P. / Iseni, F. #1: Journal: Nature Communications / Year: 2017 Title: The vaccinia virus DNA polymerase structure provides insights into the mode of processivity factor binding. Authors: Tarbouriech, N. / Ducournau, C. / Hutin, S. / Mas, P.J. / Man, P. / Forest, E. / Hart, D.J. / Peyrefitte, C.N. / Burmeister, W. / Iseni, F. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6zyc.cif.gz | 985.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6zyc.ent.gz | 841.1 KB | Display | PDB format |
PDBx/mmJSON format | 6zyc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6zyc_validation.pdf.gz | 549.8 KB | Display | wwPDB validaton report |
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Full document | 6zyc_full_validation.pdf.gz | 1.9 MB | Display | |
Data in XML | 6zyc_validation.xml.gz | 317.1 KB | Display | |
Data in CIF | 6zyc_validation.cif.gz | 220.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/zy/6zyc ftp://data.pdbj.org/pub/pdb/validation_reports/zy/6zyc | HTTPS FTP |
-Related structure data
Related structure data | 6zxpC C: citing same article (ref.) |
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Similar structure data | |
Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 16668.709 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: Residues 2-124 of the construct correspond to A20:304-426, residues 125-134 to a flexible linker and residues 136-148 to a Biotin Affinity Peptide (BAP),Residues 2-124 of the construct ...Details: Residues 2-124 of the construct correspond to A20:304-426, residues 125-134 to a flexible linker and residues 136-148 to a Biotin Affinity Peptide (BAP),Residues 2-124 of the construct correspond to A20:304-426, residues 125-134 to a flexible linker and residues 136-148 to a Biotin Affinity Peptide (BAP) Source: (gene. exp.) Vaccinia virus (strain Copenhagen) / Strain: Copenhagen / Gene: A20R / Production host: Escherichia coli BL21(DE3) (bacteria) / Variant (production host): -Star / References: UniProt: P20995 |
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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: 0.3 M / Label: general / pH: 6 / PH err: 0.1 / Pressure: 1 atm / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: molecular dynamics / Software ordinal: 5 / Details: water refinement | ||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 1000 / Conformers submitted total number: 20 |