+Open data
-Basic information
Entry | Database: PDB / ID: 1kxc | ||||||
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Title | SINDBIS VIRUS CAPSID (N190K MUTANT), TETRAGONAL CRYSTAL FORM | ||||||
Components | SINDBIS VIRUS CAPSID PROTEIN | ||||||
Keywords | VIRAL PROTEIN / SINDBIS VIRUS CAPSID PROTEIN / CHYMOTRYPSIN-LIKE SERINE PROTEINASE / WILD TYPE / COAT PROTEIN | ||||||
Function / homology | Function and homology information icosahedral viral capsid, spike / togavirin / T=4 icosahedral viral capsid / ubiquitin-like protein ligase binding / symbiont-mediated suppression of host toll-like receptor signaling pathway / clathrin-dependent endocytosis of virus by host cell / host cell cytoplasm / membrane fusion / serine-type endopeptidase activity / fusion of virus membrane with host endosome membrane ...icosahedral viral capsid, spike / togavirin / T=4 icosahedral viral capsid / ubiquitin-like protein ligase binding / symbiont-mediated suppression of host toll-like receptor signaling pathway / clathrin-dependent endocytosis of virus by host cell / host cell cytoplasm / membrane fusion / serine-type endopeptidase activity / fusion of virus membrane with host endosome membrane / viral envelope / host cell nucleus / structural molecule activity / virion attachment to host cell / host cell plasma membrane / virion membrane / proteolysis / RNA binding / membrane Similarity search - Function | ||||||
Biological species | Sindbis virus | ||||||
Method | X-RAY DIFFRACTION / Resolution: 3.1 Å | ||||||
Authors | Choi, H.-K. / Rossmann, M.G. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1996 Title: Structural analysis of Sindbis virus capsid mutants involving assembly and catalysis. Authors: Choi, H.K. / Lee, S. / Zhang, Y.P. / McKinney, B.R. / Wengler, G. / Rossmann, M.G. / Kuhn, R.J. #1: Journal: J.Mol.Biol. / Year: 1993 Title: Refined Structure of Sindbis Virus Core Protein and Comparison with Other Chymotrypsin-Like Serine Proteinase Structures Authors: Tong, L. / Wengler, G. / Rossmann, M.G. #2: Journal: Acta Crystallogr.,Sect.A / Year: 1992 Title: The Structure Determination of Sindbis Virus Core Protein Using Isomorphous Replacement and Molecular Replacement Averaging between Two Crystal Forms Authors: Tong, L. / Choi, H.-K. / Minor, W. / Rossmann, M.G. #3: Journal: Nature / Year: 1991 Title: Structure of Sindbis Virus Core Protein Reveals a Chymotrypsin-Like Serine Proteinase and the Organization of the Virion Authors: Choi, H.K. / Tong, L. / Minor, W. / Dumas, P. / Boege, U. / Rossmann, M.G. / Wengler, G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1kxc.cif.gz | 41.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1kxc.ent.gz | 29 KB | Display | PDB format |
PDBx/mmJSON format | 1kxc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/kx/1kxc ftp://data.pdbj.org/pub/pdb/validation_reports/kx/1kxc | HTTPS FTP |
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-Related structure data
Related structure data | 1kxaC 1kxbC 1kxdC 1kxeC 1kxfC 2snwC C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 17433.758 Da / Num. of mol.: 1 / Fragment: MET 106 - ALA 264 OF THE NATIVE SINDBIS CAPSID / Mutation: N190K Source method: isolated from a genetically manipulated source Source: (gene. exp.) Sindbis virus / Genus: Alphavirus / Description: T7 RNA POLYMERASE / Gene: SINDBIS VIRUS CAPSID PROTEIN / Plasmid: PET11A / Gene (production host): SINDBIS VIRUS CAPSID PROTEIN / Production host: Escherichia coli (E. coli) References: UniProt: P03316, Hydrolases; Acting on peptide bonds (peptidases); Serine endopeptidases |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.55 Å3/Da / Density % sol: 53 % | ||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Method: vapor diffusion, hanging drop / PH range low: 8.5 / PH range high: 7.6 | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Wavelength: 1.5418 |
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Detector | Type: SIEMENS / Detector: AREA DETECTOR / Date: Feb 7, 1994 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Num. obs: 3575 / % possible obs: 76 % / Observed criterion σ(I): 1 / Redundancy: 2.77 % / Rmerge(I) obs: 0.071 |
Reflection | *PLUS Highest resolution: 2.8 Å / Lowest resolution: 9999 Å / Num. measured all: 9916 |
Reflection shell | *PLUS Highest resolution: 2.8 Å / Lowest resolution: 3.2 Å / % possible obs: 26.1 % / Rmerge(I) obs: 0.158 |
-Processing
Software |
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Refinement | Resolution: 3.1→6 Å / σ(F): 1 /
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Displacement parameters | Biso mean: 21.7 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.1→6 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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