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Yorodumi- PDB-3hfc: A trimeric form of the Kv7.1 A domain Tail, L602M/L606M mutant Semet -
+Open data
-Basic information
Entry | Database: PDB / ID: 3hfc | ||||||
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Title | A trimeric form of the Kv7.1 A domain Tail, L602M/L606M mutant Semet | ||||||
Components | Potassium voltage-gated channel subfamily KQT member 1 | ||||||
Keywords | TRANSPORT PROTEIN / coiled coil / trimer / Alternative splicing / Atrial fibrillation / Cell membrane / Cytoplasmic vesicle / Deafness / Disease mutation / Glycoprotein / Ion transport / Ionic channel / Long QT syndrome / Membrane / Phosphoprotein / Polymorphism / Potassium / Potassium channel / Potassium transport / Short QT syndrome / Transmembrane / Transport / Voltage-gated channel | ||||||
Function / homology | Function and homology information gastrin-induced gastric acid secretion / corticosterone secretion / voltage-gated potassium channel activity involved in atrial cardiac muscle cell action potential repolarization / basolateral part of cell / lumenal side of membrane / negative regulation of voltage-gated potassium channel activity / rhythmic behavior / regulation of gastric acid secretion / stomach development / membrane repolarization during atrial cardiac muscle cell action potential ...gastrin-induced gastric acid secretion / corticosterone secretion / voltage-gated potassium channel activity involved in atrial cardiac muscle cell action potential repolarization / basolateral part of cell / lumenal side of membrane / negative regulation of voltage-gated potassium channel activity / rhythmic behavior / regulation of gastric acid secretion / stomach development / membrane repolarization during atrial cardiac muscle cell action potential / Phase 3 - rapid repolarisation / voltage-gated potassium channel activity involved in cardiac muscle cell action potential repolarization / membrane repolarization during action potential / membrane repolarization during ventricular cardiac muscle cell action potential / regulation of atrial cardiac muscle cell membrane repolarization / iodide transport / Phase 2 - plateau phase / potassium ion export across plasma membrane / membrane repolarization during cardiac muscle cell action potential / intracellular chloride ion homeostasis / renal sodium ion absorption / negative regulation of delayed rectifier potassium channel activity / voltage-gated potassium channel activity involved in ventricular cardiac muscle cell action potential repolarization / atrial cardiac muscle cell action potential / auditory receptor cell development / detection of mechanical stimulus involved in sensory perception of sound / regulation of membrane repolarization / delayed rectifier potassium channel activity / protein phosphatase 1 binding / positive regulation of potassium ion transmembrane transport / Voltage gated Potassium channels / outward rectifier potassium channel activity / potassium ion homeostasis / ventricular cardiac muscle cell action potential / non-motile cilium assembly / regulation of ventricular cardiac muscle cell membrane repolarization / intestinal absorption / regulation of heart contraction / monoatomic ion channel complex / ciliary base / inner ear morphogenesis / positive regulation of heart rate / cochlea development / renal absorption / adrenergic receptor signaling pathway / potassium ion import across plasma membrane / protein kinase A regulatory subunit binding / regulation of heart rate by cardiac conduction / voltage-gated potassium channel activity / protein kinase A catalytic subunit binding / inner ear development / social behavior / voltage-gated potassium channel complex / cellular response to cAMP / transport vesicle / positive regulation of cardiac muscle contraction / potassium ion transmembrane transport / cardiac muscle contraction / cellular response to epinephrine stimulus / phosphatidylinositol-4,5-bisphosphate binding / erythrocyte differentiation / sensory perception of sound / response to insulin / cytoplasmic vesicle membrane / regulation of blood pressure / glucose metabolic process / cellular response to xenobiotic stimulus / late endosome / heart development / scaffold protein binding / basolateral plasma membrane / transmembrane transporter binding / lysosome / calmodulin binding / early endosome / neuron projection / membrane raft / apical plasma membrane / neuronal cell body / endoplasmic reticulum / membrane / plasma membrane / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.45 Å | ||||||
Authors | Xu, Q. / Minor, D.L. | ||||||
Citation | Journal: Protein Sci. / Year: 2009 Title: Crystal structure of a trimeric form of the K(V)7.1 (KCNQ1) A-domain tail coiled-coil reveals structural plasticity and context dependent changes in a putative coiled-coil trimerization motif. Authors: Xu, Q. / Minor, D.L. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3hfc.cif.gz | 23.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3hfc.ent.gz | 18.2 KB | Display | PDB format |
PDBx/mmJSON format | 3hfc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hf/3hfc ftp://data.pdbj.org/pub/pdb/validation_reports/hf/3hfc | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein/peptide | Mass: 3532.663 Da / Num. of mol.: 3 / Fragment: UNP residues 583-611 / Mutation: L602M Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: KCNQ1, KCNA8, KCNA9, KVLQT1 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(pLys)S / References: UniProt: P51787 #2: Water | ChemComp-HOH / | |
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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: 1.78 Å3/Da / Density % sol: 30.92 % |
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 1.6M sodium citrate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ALS / Beamline: 8.3.1 / Wavelength: 0.9796 Å |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9796 Å / Relative weight: 1 |
Reflection | Resolution: 2.45→40 Å / Num. all: 2822 / Num. obs: 2774 / % possible obs: 98.3 % / Redundancy: 6.6 % / Rsym value: 0.101 |
Reflection shell | Resolution: 2.45→2.54 Å / Redundancy: 4.6 % / Mean I/σ(I) obs: 5.4 / Num. unique all: 238 / Rsym value: 0.203 / % possible all: 93 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.45→32.48 Å / Cor.coef. Fo:Fc: 0.928 / Cor.coef. Fo:Fc free: 0.862 / Occupancy max: 1 / Occupancy min: 1 / SU B: 9.153 / SU ML: 0.199 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R Free: 0.344 Stereochemistry target values: MAXIMUM LIKELIHOOD WITH PHASES Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 66.33 Å2 / Biso mean: 30.472 Å2 / Biso min: 11.86 Å2
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Refinement step | Cycle: LAST / Resolution: 2.45→32.48 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.45→2.508 Å / Total num. of bins used: 20
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