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Yorodumi- PDB-1z66: NMR solution structure of domain III of E-protein of tick-borne L... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1z66 | ||||||
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Title | NMR solution structure of domain III of E-protein of tick-borne Langat flavivirus (no RDC restraints) | ||||||
Components | Major envelope protein E | ||||||
Keywords | VIRAL PROTEIN | ||||||
Function / homology | Function and homology information symbiont-mediated suppression of host JAK-STAT cascade via inhibition of JAK1 activity / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of host TYK2 activity / flavivirin / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT2 activity / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT1 activity / : / : / viral capsid / nucleoside-triphosphate phosphatase / double-stranded RNA binding ...symbiont-mediated suppression of host JAK-STAT cascade via inhibition of JAK1 activity / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of host TYK2 activity / flavivirin / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT2 activity / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT1 activity / : / : / viral capsid / nucleoside-triphosphate phosphatase / double-stranded RNA binding / mRNA (guanine-N7)-methyltransferase / methyltransferase cap1 / clathrin-dependent endocytosis of virus by host cell / mRNA (nucleoside-2'-O-)-methyltransferase activity / mRNA 5'-cap (guanine-N7-)-methyltransferase activity / RNA helicase activity / host cell endoplasmic reticulum membrane / host cell perinuclear region of cytoplasm / protein dimerization activity / RNA helicase / induction by virus of host autophagy / RNA-directed RNA polymerase / viral RNA genome replication / RNA-dependent RNA polymerase activity / serine-type endopeptidase activity / fusion of virus membrane with host endosome membrane / viral envelope / symbiont-mediated suppression of host type I interferon-mediated signaling pathway / host cell nucleus / virion attachment to host cell / virion membrane / structural molecule activity / ATP hydrolysis activity / proteolysis / extracellular region / ATP binding / membrane / metal ion binding Similarity search - Function | ||||||
Biological species | Langat virus | ||||||
Method | SOLUTION NMR / distance geometry, simulated annealing | ||||||
Authors | Mukherjee, M. / Dutta, K. / White, M.A. / Cowburn, D. / Fox, R.O. | ||||||
Citation | Journal: Protein Sci. / Year: 2006 Title: NMR solution structure and backbone dynamics of domain III of the E protein of tick-borne Langat flavivirus suggests a potential site for molecular recognition. Authors: Mukherjee, M. / Dutta, K. / White, M.A. / Cowburn, D. / Fox, R.O. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1z66.cif.gz | 551.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1z66.ent.gz | 477 KB | Display | PDB format |
PDBx/mmJSON format | 1z66.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/z6/1z66 ftp://data.pdbj.org/pub/pdb/validation_reports/z6/1z66 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 10612.123 Da / Num. of mol.: 1 / Fragment: Domain III Source method: isolated from a genetically manipulated source Source: (gene. exp.) Langat virus / Genus: Flavivirus / Plasmid: His-MBP-T / Production host: Escherichia coli (E. coli) / Strain (production host): BL21-dE3 Codon plus / References: UniProt: P29838, UniProt: P29837*PLUS |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||
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NMR experiment |
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NMR details | Text: This structure was determined using standard 2D and 3D heteronuclear NMR experiments. |
-Sample preparation
Details | Contents: 0.7mM Langat E-protein domain III, U-15N, 13C, 20mM Bis Tris, 10mM NaCl, 95% H2O, 5% D2O Solvent system: 95% H2O, 10% D2O |
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Sample conditions | Ionic strength: 10mM NaCl / pH: 6.2 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M | ||||||||||||||||||||||||||||||
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Radiation wavelength | Relative weight: 1 | ||||||||||||||||||||||||||||||
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: distance geometry, 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: 500 / Conformers submitted total number: 20 |