[English] 日本語
Yorodumi- PDB-6lxf: Aromatic interactions drive the coupled folding and binding of th... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6lxf | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | Aromatic interactions drive the coupled folding and binding of the intrinsically disordered Sesbania mosaic virus VPg protein. | |||||||||
Components | Polyprotein | |||||||||
Keywords | PLANT VIRAL PROTEIN / IDPs (Intrinsically Disorder Proteins) / VPg (Viral Protein genome linked) | |||||||||
Function / homology | Function and homology information host cell membrane / viral process / serine-type endopeptidase activity / proteolysis / membrane Similarity search - Function | |||||||||
Biological species | Sesbania mosaic virus | |||||||||
Method | SOLUTION NMR / na | |||||||||
Authors | Dixit, K. / Karanth, N.M. / Nair, S. / Kumari, K. / Chakrabarti, K.S. / Savithri, H.S. / Sarma, S.P. | |||||||||
Funding support | India, 2items
| |||||||||
Citation | Journal: Biochemistry / Year: 2020 Title: Aromatic Interactions Drive the Coupled Folding and Binding of the Intrinsically Disordered Sesbania mosaic Virus VPg Protein. Authors: Dixit, K. / Karanth, N.M. / Nair, S. / Kumari, K. / Chakrabarti, K.S. / Savithri, H.S. / Sarma, S.P. | |||||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 6lxf.cif.gz | 514.7 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb6lxf.ent.gz | 439.5 KB | Display | PDB format |
PDBx/mmJSON format | 6lxf.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6lxf_validation.pdf.gz | 464.7 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 6lxf_full_validation.pdf.gz | 627.3 KB | Display | |
Data in XML | 6lxf_validation.xml.gz | 26.1 KB | Display | |
Data in CIF | 6lxf_validation.cif.gz | 39.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lx/6lxf ftp://data.pdbj.org/pub/pdb/validation_reports/lx/6lxf | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-Components
#1: Protein | Mass: 6568.417 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Sesbania mosaic virus / Plasmid: pET21a / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: Q9EB08 |
---|
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
|
-Sample preparation
Details | Type: solution Contents: 0.3 mM [U-13C; U-15N; U-2H] SELECTIVELY 1H (CH3) ILE, VAL, LEU Sesbania Mosaic Virus- Viral Protein genome linked (SeMV VPg), 90% H2O/10% D2O Details: 0.3 mM [U-13C; U-15N; U-2H] SELECTIVELY 1H (CH3) ILE, VAL, LEU VIRAL PROTEIN GENOME LINKED (VPG) FROM SESBANIA MOSAIC VIRUS Label: U-13C, 15N, 2H selectively 1H (CH3) ILV / Solvent system: 90% H2O/10% D2O |
---|---|
Sample | Conc.: 0.3 mM Component: Sesbania Mosaic Virus- Viral Protein genome linked (SeMV VPg) Isotopic labeling: [U-13C; U-15N; U-2H] SELECTIVELY 1H (CH3) ILE, VAL, LEU |
Sample conditions | Ionic strength: 0.065 Not defined / Label: condition_1 / pH: 7 / Pressure: 1 atm / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Agilent Uniform NMR System / Manufacturer: Agilent / Model: Uniform NMR System / Field strength: 600 MHz Details: Agilent (Varian) DDS2 600 MHz spectrometer equipped with a cryogenically cooled cold-probe fitted with a pulsed field gradient (z-axis only) accessory |
---|
-Processing
NMR software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method: na / Software ordinal: 2 | ||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: target function / Conformers calculated total number: 999 / Conformers submitted total number: 25 |