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Open data
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Basic information
Entry | Database: PDB / ID: 8as9 | ||||||
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Title | Crystal structure of the talin-KANK1 complex | ||||||
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![]() | CELL INVASION / Cell-Migration / Talin / KANK / Focal Adhesions | ||||||
Function / homology | ![]() negative regulation of lamellipodium morphogenesis / negative regulation of ruffle assembly / NR1D1 (REV-ERBA) represses gene expression / podocyte cell migration / GRB2:SOS provides linkage to MAPK signaling for Integrins / Integrin signaling / Smooth Muscle Contraction / Loss of MECP2 binding ability to the NCoR/SMRT complex / p130Cas linkage to MAPK signaling for integrins / SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion ...negative regulation of lamellipodium morphogenesis / negative regulation of ruffle assembly / NR1D1 (REV-ERBA) represses gene expression / podocyte cell migration / GRB2:SOS provides linkage to MAPK signaling for Integrins / Integrin signaling / Smooth Muscle Contraction / Loss of MECP2 binding ability to the NCoR/SMRT complex / p130Cas linkage to MAPK signaling for integrins / SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion / negative regulation of substrate adhesion-dependent cell spreading / MAP2K and MAPK activation / regulation of memory T cell differentiation / negative regulation of mitotic cell cycle DNA replication / intronic transcription regulatory region sequence-specific DNA binding / negative regulation of isotype switching to IgE isotypes / negative regulation of plasma cell differentiation / negative regulation of T-helper 2 cell differentiation / isotype switching to IgE isotypes / LIM domain binding / negative regulation of androgen receptor signaling pathway / Platelet degranulation / negative regulation of mast cell cytokine production / regulation of germinal center formation / negative regulation of mononuclear cell proliferation / negative regulation of actin filament polymerization / plasma cell differentiation / vinculin binding / paraspeckles / germinal center formation / integrin activation / regulation of immune system process / pyramidal neuron differentiation / regulation of Rho protein signal transduction / negative regulation of JNK cascade / type 2 immune response / T-helper 2 cell differentiation / positive regulation of regulatory T cell differentiation / cell-substrate junction assembly / negative regulation of B cell apoptotic process / positive regulation of cell motility / negative regulation of glycolytic process / regulation of establishment of cell polarity / nuclear thyroid hormone receptor binding / negative regulation of Rho protein signal transduction / cortical actin cytoskeleton organization / FOXO-mediated transcription of cell death genes / negative regulation of cell-matrix adhesion / negative regulation of fatty acid metabolic process / positive regulation of wound healing / NR1H2 & NR1H3 regulate gene expression to control bile acid homeostasis / regulation of T cell proliferation / negative regulation of Notch signaling pathway / regulation of cell differentiation / Notch-HLH transcription pathway / B cell proliferation / TP53 regulates transcription of several additional cell death genes whose specific roles in p53-dependent apoptosis remain uncertain / phosphatidylserine binding / locomotor rhythm / negative regulation of cellular senescence / histone deacetylase complex / Rho protein signal transduction / Regulation of MECP2 expression and activity / positive regulation of Wnt signaling pathway / regulation of immune response / spindle assembly / erythrocyte development / positive regulation of B cell proliferation / Nuclear signaling by ERBB4 / negative regulation of insulin receptor signaling pathway / NR1H3 & NR1H2 regulate gene expression linked to cholesterol transport and efflux / ruffle / regulation of cytokine production / transcription repressor complex / positive regulation of neuron differentiation / Regulation of lipid metabolism by PPARalpha / phosphatidylinositol binding / cell-matrix adhesion / transcription corepressor binding / negative regulation of miRNA transcription / negative regulation of cell migration / integrin-mediated signaling pathway / nuclear receptor binding / cell motility / HDACs deacetylate histones / adherens junction / Downregulation of SMAD2/3:SMAD4 transcriptional activity / Heme signaling / Transcriptional activation of mitochondrial biogenesis / cell morphogenesis / heterochromatin formation / PPARA activates gene expression / Cytoprotection by HMOX1 / negative regulation of cell growth / chromatin DNA binding / structural constituent of cytoskeleton / NOTCH1 Intracellular Domain Regulates Transcription / mitotic spindle / cell-cell adhesion / DNA-binding transcription repressor activity, RNA polymerase II-specific Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Zacharchenko, T. | ||||||
Funding support | ![]()
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![]() | ![]() Title: The structural basis of the talin-KANK1 interaction that coordinates the actin and microtubule cytoskeletons at focal adhesions. Authors: Li, X. / Goult, B.T. / Ballestrem, C. / Zacharchenko, T. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 255.1 KB | Display | ![]() |
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PDB format | ![]() | 206.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 6xyxS S: Starting model for refinement |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 15602.981 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Details: Recombinant Protein / Source: (gene. exp.) ![]() Production host: ![]() ![]() References: UniProt: P41182 #2: Protein | | Mass: 5781.594 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) ![]() #3: Protein | | Mass: 32574.725 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #4: Chemical | ChemComp-SO4 / #5: Chemical | ChemComp-GOL / | Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.9 Å3/Da / Density % sol: 73.6 % |
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Crystal grow | Temperature: 277.15 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 1M Ammonium sulfate, 0.1M CHES 9.5, 0.2M Sodium chloride, 6 % (v/v) Glycerol |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER2 XE 16M / Detector: PIXEL / Date: Jan 28, 2022 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97625 Å / Relative weight: 1 |
Reflection | Resolution: 3.4→61.89 Å / Num. obs: 17332 / % possible obs: 100 % / Redundancy: 20.9 % / Biso Wilson estimate: 107.38 Å2 / CC1/2: 0.9 / Net I/σ(I): 2.9 |
Reflection shell | Resolution: 3.4→3.58 Å / Redundancy: 21.8 % / Mean I/σ(I) obs: 0.5 / Num. unique obs: 2505 / CC1/2: 0.289 / Rpim(I) all: 1.356 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6XYX Resolution: 3.4→59.76 Å / SU ML: 0.66 / Cross valid method: THROUGHOUT / σ(F): 1.33 / Phase error: 34.91 / Stereochemistry target values: ML
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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 max: 357.18 Å2 / Biso mean: 127.6639 Å2 / Biso min: 57.24 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 3.4→59.76 Å
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 6
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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