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Yorodumi- PDB-4f8a: Cyclic nucleotide binding-homology domain from mouse EAG1 potassi... -
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-Basic information
Entry | Database: PDB / ID: 4f8a | ||||||
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Title | Cyclic nucleotide binding-homology domain from mouse EAG1 potassium channel | ||||||
Components | Potassium voltage-gated channel subfamily H member 1 | ||||||
Keywords | MEMBRANE PROTEIN / TRANSPORT PROTEIN / probable regulatory domain of potassium channel | ||||||
Function / homology | Function and homology information Voltage gated Potassium channels / potassium channel complex / regulation of presynaptic cytosolic calcium ion concentration / delayed rectifier potassium channel activity / voltage-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential / parallel fiber to Purkinje cell synapse / nuclear inner membrane / phosphatidylinositol bisphosphate binding / regulation of synaptic vesicle exocytosis / startle response ...Voltage gated Potassium channels / potassium channel complex / regulation of presynaptic cytosolic calcium ion concentration / delayed rectifier potassium channel activity / voltage-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential / parallel fiber to Purkinje cell synapse / nuclear inner membrane / phosphatidylinositol bisphosphate binding / regulation of synaptic vesicle exocytosis / startle response / axolemma / voltage-gated potassium channel complex / potassium ion transmembrane transport / cellular response to calcium ion / monoatomic ion transmembrane transport / regulation of membrane potential / 14-3-3 protein binding / postsynaptic density membrane / presynaptic membrane / regulation of cell population proliferation / perikaryon / early endosome membrane / transmembrane transporter binding / calmodulin binding / axon / intracellular membrane-bounded organelle / neuronal cell body / dendrite / protein-containing complex binding / protein kinase binding / perinuclear region of cytoplasm / cell surface / identical protein binding / plasma membrane Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | ||||||
Authors | Marques-Carvalho, M.J. / Sahoo, N. / Muskett, F.W. / Vieira-Pires, R.S. / Gabant, G. / Cadene, M. / Schonherr, R. / Morais-Cabral, J.H. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2012 Title: Structural, Biochemical, and Functional Characterization of the Cyclic Nucleotide Binding Homology Domain from the Mouse EAG1 Potassium Channel. Authors: Marques-Carvalho, M.J. / Sahoo, N. / Muskett, F.W. / Vieira-Pires, R.S. / Gabant, G. / Cadene, M. / Schonherr, R. / Morais-Cabral, J.H. #1: Journal: Acta Crystallogr.,Sect.F / Year: 2012 Title: Crystallization and preliminary X-ray crystallographic characterization of a cyclic nucleotide-binding homology domain from the mouse EAG potassium channel. Authors: Marques-Carvalho, M.J. / Morais-Cabral, J.H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4f8a.cif.gz | 74.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4f8a.ent.gz | 56.4 KB | Display | PDB format |
PDBx/mmJSON format | 4f8a.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/f8/4f8a ftp://data.pdbj.org/pub/pdb/validation_reports/f8/4f8a | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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Unit cell |
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-Components
#1: Protein | Mass: 18019.867 Da / Num. of mol.: 1 Fragment: Cyclic nucleotide binding-homology domain (unp residues 552-707) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Gene: Eag, Kcnh1 / Plasmid: pET-15b / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: Q60603 |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.49 Å3/Da / Density % sol: 50.63 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 7.8 Details: 0.2 M tri-sodium citrate di-hydrate, 20% (w/v) PEG 3350, pH 7.8, VAPOR DIFFUSION, SITTING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-4 / Wavelength: 0.9765 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Apr 14, 2010 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9765 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→52.3 Å / Num. all: 9566 / Num. obs: 9566 / % possible obs: 99.4 % / Observed criterion σ(F): 1.37 / Observed criterion σ(I): 2.2 / Biso Wilson estimate: 44.53 Å2 / Rmerge(I) obs: 0.089 |
Reflection shell | Resolution: 2.2→2.31 Å / Rmerge(I) obs: 0.251 / % possible all: 97.5 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.2→52.261 Å / Occupancy max: 1 / Occupancy min: 0 / FOM work R set: 0.8415 / SU ML: 0.45 / σ(F): 1.37 / Phase error: 22.04 / Stereochemistry target values: Engh & Huber
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Solvent computation | Shrinkage radii: 0.61 Å / VDW probe radii: 0.9 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 51.948 Å2 / ksol: 0.339 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 137.08 Å2 / Biso mean: 58.2904 Å2 / Biso min: 20 Å2
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Refinement step | Cycle: LAST / Resolution: 2.2→52.261 Å
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Refine LS restraints |
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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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