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Yorodumi- PDB-6ce5: NMR structure of the Rous sarcoma virus matrix protein (M-domain)... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6ce5 | ||||||
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Title | NMR structure of the Rous sarcoma virus matrix protein (M-domain) in the presence of myo-inositol hexakisphosphate | ||||||
Components | virus matrix protein (M-domain) | ||||||
Keywords | VIRAL PROTEIN / RSV / ASV / Gag / IP6 | ||||||
Function / homology | Function and homology information Hydrolases; Acting on peptide bonds (peptidases); Aspartic endopeptidases / ribonuclease H / DNA integration / viral genome integration into host DNA / RNA-directed DNA polymerase / establishment of integrated proviral latency / RNA stem-loop binding / RNA-directed DNA polymerase activity / RNA-DNA hybrid ribonuclease activity / Transferases; Transferring phosphorus-containing groups; Nucleotidyltransferases ...Hydrolases; Acting on peptide bonds (peptidases); Aspartic endopeptidases / ribonuclease H / DNA integration / viral genome integration into host DNA / RNA-directed DNA polymerase / establishment of integrated proviral latency / RNA stem-loop binding / RNA-directed DNA polymerase activity / RNA-DNA hybrid ribonuclease activity / Transferases; Transferring phosphorus-containing groups; Nucleotidyltransferases / viral nucleocapsid / DNA recombination / DNA-directed DNA polymerase / Hydrolases; Acting on ester bonds / aspartic-type endopeptidase activity / DNA-directed DNA polymerase activity / symbiont entry into host cell / proteolysis / DNA binding / zinc ion binding Similarity search - Function | ||||||
Biological species | Rous sarcoma virus | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | Vlach, J. / Saad, J.S. | ||||||
Funding support | United States, 1items
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Citation | Journal: J. Biol. Chem. / Year: 2018 Title: Structural basis for targeting avian sarcoma virus Gag polyprotein to the plasma membrane for virus assembly. Authors: Vlach, J. / Eastep, G.N. / Ghanam, R.H. / Watanabe, S.M. / Carter, C.A. / Saad, J.S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6ce5.cif.gz | 511.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6ce5.ent.gz | 431.8 KB | Display | PDB format |
PDBx/mmJSON format | 6ce5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6ce5_validation.pdf.gz | 465.9 KB | Display | wwPDB validaton report |
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Full document | 6ce5_full_validation.pdf.gz | 1.3 MB | Display | |
Data in XML | 6ce5_validation.xml.gz | 167.4 KB | Display | |
Data in CIF | 6ce5_validation.cif.gz | 115.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ce/6ce5 ftp://data.pdbj.org/pub/pdb/validation_reports/ce/6ce5 | HTTPS FTP |
-Related structure data
Related structure data | 6ccjC 6cusC 6cv8C 6cw4C 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: 9209.771 Da / Num. of mol.: 1 / Mutation: M1S Source method: isolated from a genetically manipulated source Source: (gene. exp.) Rous sarcoma virus / Strain: Prague C / Gene: gag-pol / Production host: Escherichia coli (E. coli) / References: UniProt: P03354 |
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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: 0.05 M / Label: cond1 / pH: 6 / Pressure: 1 atm / Temperature: 305 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE II / Manufacturer: Bruker / Model: AVANCE II / Field strength: 700 MHz |
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-Processing
NMR software |
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Refinement |
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NMR representative | Selection criteria: lowest energy | |||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 80 / Conformers submitted total number: 20 |