+Open data
-Basic information
Entry | Database: PDB / ID: 6zfg | ||||||
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Title | 14-3-3 zeta chimera with 18E6 and fusicoccin | ||||||
Components | 14-3-3 protein zeta/delta,Protein E6 | ||||||
Keywords | PROTEIN BINDING / 14-3-3 / HPV / E6 oncoprotein | ||||||
Function / homology | Function and homology information Golgi reassembly / synaptic target recognition / symbiont-mediated perturbation of host apoptosis / respiratory system process / NOTCH4 Activation and Transmission of Signal to the Nucleus / establishment of Golgi localization / regulation of synapse maturation / tube formation / Rap1 signalling / negative regulation of protein localization to nucleus ...Golgi reassembly / synaptic target recognition / symbiont-mediated perturbation of host apoptosis / respiratory system process / NOTCH4 Activation and Transmission of Signal to the Nucleus / establishment of Golgi localization / regulation of synapse maturation / tube formation / Rap1 signalling / negative regulation of protein localization to nucleus / KSRP (KHSRP) binds and destabilizes mRNA / GP1b-IX-V activation signalling / Regulation of localization of FOXO transcription factors / phosphoserine residue binding / Interleukin-3, Interleukin-5 and GM-CSF signaling / Activation of BAD and translocation to mitochondria / protein targeting / SARS-CoV-2 targets host intracellular signalling and regulatory pathways / Chk1/Chk2(Cds1) mediated inactivation of Cyclin B:Cdk1 complex / regulation of ERK1 and ERK2 cascade / cellular response to glucose starvation / SARS-CoV-1 targets host intracellular signalling and regulatory pathways / RHO GTPases activate PKNs / negative regulation of TORC1 signaling / protein sequestering activity / ERK1 and ERK2 cascade / negative regulation of innate immune response / hippocampal mossy fiber to CA3 synapse / lung development / Translocation of SLC2A4 (GLUT4) to the plasma membrane / PDZ domain binding / Deactivation of the beta-catenin transactivating complex / TP53 Regulates Metabolic Genes / Negative regulation of NOTCH4 signaling / regulation of protein stability / protein localization / melanosome / DNA-binding transcription factor binding / symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of IRF3 activity / symbiont-mediated perturbation of host ubiquitin-like protein modification / angiogenesis / vesicle / transmembrane transporter binding / host cell cytoplasm / blood microparticle / symbiont-mediated suppression of host type I interferon-mediated signaling pathway / cadherin binding / protein domain specific binding / protein phosphorylation / focal adhesion / negative regulation of DNA-templated transcription / virus-mediated perturbation of host defense response / DNA-templated transcription / ubiquitin protein ligase binding / glutamatergic synapse / host cell nucleus / negative regulation of apoptotic process / protein kinase binding / negative regulation of transcription by RNA polymerase II / signal transduction / DNA binding / RNA binding / extracellular space / zinc ion binding / extracellular exosome / nucleoplasm / identical protein binding / nucleus / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | Homo sapiens (human) Human papillomavirus type 18 | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.85 Å | ||||||
Authors | Gogl, G. / Tugaeva, K. / Sluchanko, N.N. / Trave, G. | ||||||
Citation | Journal: Nat Commun / Year: 2021 Title: Hierarchized phosphotarget binding by the seven human 14-3-3 isoforms. Authors: Gogl, G. / Tugaeva, K.V. / Eberling, P. / Kostmann, C. / Trave, G. / Sluchanko, N.N. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6zfg.cif.gz | 232.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6zfg.ent.gz | 177.5 KB | Display | PDB format |
PDBx/mmJSON format | 6zfg.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6zfg_validation.pdf.gz | 1.2 MB | Display | wwPDB validaton report |
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Full document | 6zfg_full_validation.pdf.gz | 1.2 MB | Display | |
Data in XML | 6zfg_validation.xml.gz | 25.1 KB | Display | |
Data in CIF | 6zfg_validation.cif.gz | 37 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/zf/6zfg ftp://data.pdbj.org/pub/pdb/validation_reports/zf/6zfg | HTTPS FTP |
-Related structure data
Related structure data | 6zfdC 2o02S C: citing same article (ref.) S: Starting model for refinement |
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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: 27394.764 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human), (gene. exp.) Human papillomavirus type 18 Gene: YWHAZ, E6 / Production host: Escherichia coli (E. coli) / References: UniProt: P63104, UniProt: P06463 #2: Chemical | ChemComp-GOL / | #3: Chemical | #4: Water | ChemComp-HOH / | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.28 Å3/Da / Density % sol: 45.95 % Description: The crystal was soaked in a saturated "5 mM" fusicoccin solution for 18h |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop Details: 19% PEG4000, 0.1M cacodylate, 20%glycerol as a cryoprotectant |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: SLS / Beamline: X06DA / Wavelength: 1 Å |
Detector | Type: DECTRIS PILATUS 2M / Detector: PIXEL / Date: Feb 17, 2020 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.85→38.4 Å / Num. obs: 41927 / % possible obs: 97.1 % / Redundancy: 13.3 % / Biso Wilson estimate: 23.88 Å2 / CC1/2: 0.998 / Rrim(I) all: 0.163 / Net I/σ(I): 12.36 |
Reflection shell | Resolution: 1.85→1.9 Å / Redundancy: 13.6 % / Mean I/σ(I) obs: 1.4 / Num. unique obs: 3038 / CC1/2: 0.584 / Rrim(I) all: 2.16 / % possible all: 96.5 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 2O02 Resolution: 1.85→38.4 Å / SU ML: 0.226 / Cross valid method: FREE R-VALUE / σ(F): 1.33 / Phase error: 22.9007 / Stereochemistry target values: CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 29.6 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.85→38.4 Å
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Refine LS restraints |
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LS refinement shell |
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