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Open data
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Basic information
Entry | Database: PDB / ID: 6kz0 | ||||||
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Title | HRV14 3C in complex with single chain antibody GGVV | ||||||
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![]() | VIRAL PROTEIN / protease / inhibitor / complex structure | ||||||
Function / homology | ![]() lysis of host organelle involved in viral entry into host cell / symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of RIG-I activity / picornain 2A / symbiont-mediated suppression of host mRNA export from nucleus / symbiont genome entry into host cell via pore formation in plasma membrane / picornain 3C / T=pseudo3 icosahedral viral capsid / host cell cytoplasmic vesicle membrane / endocytosis involved in viral entry into host cell / nucleoside-triphosphate phosphatase ...lysis of host organelle involved in viral entry into host cell / symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of RIG-I activity / picornain 2A / symbiont-mediated suppression of host mRNA export from nucleus / symbiont genome entry into host cell via pore formation in plasma membrane / picornain 3C / T=pseudo3 icosahedral viral capsid / host cell cytoplasmic vesicle membrane / endocytosis involved in viral entry into host cell / nucleoside-triphosphate phosphatase / protein complex oligomerization / monoatomic ion channel activity / DNA replication / RNA helicase activity / induction by virus of host autophagy / RNA-directed RNA polymerase / viral RNA genome replication / cysteine-type endopeptidase activity / RNA-dependent RNA polymerase activity / virus-mediated perturbation of host defense response / DNA-templated transcription / host cell nucleus / virion attachment to host cell / structural molecule activity / ATP hydrolysis activity / proteolysis / RNA binding / ATP binding / membrane / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Meng, B. / Yang, B. / Wilson, I.A. | ||||||
![]() | ![]() Title: Inhibitory antibodies identify unique sites of therapeutic vulnerability in rhinovirus and other enteroviruses. Authors: Meng, B. / Lan, K. / Xie, J. / Lerner, R.A. / Wilson, I.A. / Yang, B. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 339.3 KB | Display | ![]() |
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PDB format | ![]() | 250.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 6kyzC ![]() 2ghwS ![]() 2in2S C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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3 | ![]()
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4 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 20166.008 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() References: UniProt: P03303, picornain 2A, nucleoside-triphosphate phosphatase, picornain 3C, RNA-directed RNA polymerase #2: Protein | Mass: 14577.108 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() #3: Antibody | Mass: 11629.018 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.98 Å3/Da / Density % sol: 58.7 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8.6 / Details: 0.1 M Tris-HCl, 25% MPEG5000, 0.2 M Li2SO4 / PH range: 8.5-8.8 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Jul 20, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.397→50 Å / Num. obs: 77385 / % possible obs: 100 % / Redundancy: 6.3 % / Biso Wilson estimate: 26.64 Å2 / CC1/2: 0.98 / Rpim(I) all: 0.093 / Rrim(I) all: 0.239 / Net I/σ(I): 11.1 |
Reflection shell | Resolution: 2.4→2.46 Å / Rmerge(I) obs: 0.817 / Mean I/σ(I) obs: 2.1 / Num. unique obs: 5169 / CC1/2: 0.854 / Rpim(I) all: 0.376 / Rrim(I) all: 0.901 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 2IN2, 2GHW Resolution: 2.4→48.35 Å / SU ML: 0.2433 / Cross valid method: THROUGHOUT / σ(F): 1.34 / Phase error: 27.0658
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||
Displacement parameters | Biso mean: 31.68 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.4→48.35 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.4→2.43 Å
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