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- PDB-1qx7: Crystal structure of apoCaM bound to the gating domain of small c... -
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Basic information
Entry | Database: PDB / ID: 1qx7 | ||||||
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Title | Crystal structure of apoCaM bound to the gating domain of small conductance Ca2+-activated potassium channel | ||||||
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![]() | SIGNALING PROTEIN / apoCalmodulin / SK channel / small conductance Ca2+ activated K+ channel / CaMBD / gating domain / Ca2+-activated gating / functioanl bipartism | ||||||
Function / homology | ![]() Ca2+ activated K+ channels / regulation of store-operated calcium channel activity / small conductance calcium-activated potassium channel activity / : / regulation of high voltage-gated calcium channel activity / membrane repolarization during atrial cardiac muscle cell action potential / calcium-activated potassium channel activity / regulation of response to tumor cell / positive regulation of autophagic cell death / DAPK1-calmodulin complex ...Ca2+ activated K+ channels / regulation of store-operated calcium channel activity / small conductance calcium-activated potassium channel activity / : / regulation of high voltage-gated calcium channel activity / membrane repolarization during atrial cardiac muscle cell action potential / calcium-activated potassium channel activity / regulation of response to tumor cell / positive regulation of autophagic cell death / DAPK1-calmodulin complex / : / : / positive regulation of cyclic-nucleotide phosphodiesterase activity / : / establishment of protein localization to mitochondrial membrane / type 3 metabotropic glutamate receptor binding / positive regulation of potassium ion transport / inward rectifier potassium channel activity / establishment of protein localization to membrane / regulation of potassium ion transmembrane transport / positive regulation of DNA binding / negative regulation of high voltage-gated calcium channel activity / nitric-oxide synthase binding / negative regulation of calcium ion export across plasma membrane / organelle localization by membrane tethering / mitochondrion-endoplasmic reticulum membrane tethering / autophagosome membrane docking / regulation of synaptic vesicle exocytosis / presynaptic endocytosis / regulation of cardiac muscle cell action potential / positive regulation of ryanodine-sensitive calcium-release channel activity / negative regulation of ryanodine-sensitive calcium-release channel activity / alpha-actinin binding / calcineurin-mediated signaling / regulation of synaptic vesicle endocytosis / regulation of neuronal synaptic plasticity / protein phosphatase activator activity / postsynaptic cytosol / adenylate cyclase binding / regulation of ryanodine-sensitive calcium-release channel activity / catalytic complex / detection of calcium ion / regulation of cardiac muscle contraction / phosphatidylinositol 3-kinase binding / smooth endoplasmic reticulum / presynaptic cytosol / calcium channel inhibitor activity / cellular response to interferon-beta / activation of adenylate cyclase activity / regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum / enzyme regulator activity / regulation of calcium-mediated signaling / titin binding / voltage-gated potassium channel complex / calcium channel regulator activity / potassium ion transmembrane transport / T-tubule / sperm midpiece / calcium channel complex / calyx of Held / nitric-oxide synthase regulator activity / response to amphetamine / positive regulation of nitric-oxide synthase activity / adenylate cyclase activator activity / regulation of heart rate / protein serine/threonine kinase activator activity / sarcomere / regulation of cytokinesis / positive regulation of receptor signaling pathway via JAK-STAT / spindle microtubule / modulation of chemical synaptic transmission / calcium-mediated signaling / potassium ion transport / sarcolemma / Schaffer collateral - CA1 synapse / cellular response to type II interferon / Z disc / response to calcium ion / spindle pole / calcium-dependent protein binding / G2/M transition of mitotic cell cycle / disordered domain specific binding / myelin sheath / growth cone / protein autophosphorylation / vesicle / dendritic spine / transmembrane transporter binding / postsynaptic membrane / calmodulin binding / neuron projection / positive regulation of apoptotic process / protein domain specific binding / neuronal cell body / centrosome / calcium ion binding / protein kinase binding / glutamatergic synapse / cell surface / protein homodimerization activity Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Schumacher, M.A. / Crum, M. / Miller, M.C. | ||||||
![]() | ![]() Title: Crystal structures of apocalmodulin and an apocalmodulin/SK potassium channel gating domain complex. Authors: Schumacher, M.A. / Crum, M. / Miller, M.C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 149 KB | Display | ![]() |
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PDB format | ![]() | 120.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 1qx5SC S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Details | the apoCaM/CaMBD complex is monomeric, also in the crystal are two domain swapped dimers of apoCaM which "anchor" the flexible apoCaM/CaMBD complex |
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Components
#1: Protein | Mass: 17143.406 Da / Num. of mol.: 5 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: CALM1, CAM1, CALM, CAM, CALM2, CAM2, CAMB, CALM3, CAM3, CAMC Plasmid: pET23b / Species (production host): Escherichia coli / Production host: ![]() ![]() #2: Protein | | Mass: 10216.989 Da / Num. of mol.: 1 / Fragment: SK2 gating domain (residues 411-487) Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() Has protein modification | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.84 Å3/Da / Density % sol: 33.07 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: Citrate, NaCl, Hepes, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: May 14, 2002 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.05 Å / Relative weight: 1 |
Reflection | Resolution: 3.09→75.16 Å / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 |
Reflection shell | Resolution: 3.09→3.51 Å / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: molecular replacement combined with MAD Starting model: 1QX5 Resolution: 3.09→75.16 Å / Rfactor Rfree error: 0.007 / Data cutoff high absF: 3330198.36 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 83.9875 Å2 / ksol: 0.365198 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 69.3 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 3.09→75.16 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.09→3.51 Å / Rfactor Rfree error: 0.019 / Total num. of bins used: 6
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Xplor file |
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