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Yorodumi- EMDB-5257: Phosphorylated smooth muscle heavy meromyosin shows an open confo... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-5257 | |||||||||
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Title | Phosphorylated smooth muscle heavy meromyosin shows an open conformation linked to activation | |||||||||
Map data | This is an image of the 2D crystal looking from the top down | |||||||||
Sample |
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Keywords | smHMM / heavy meromyosin / S1 / phosphorylation / smooth muscle / activation | |||||||||
Function / homology | Function and homology information RHO GTPases activate PAKs / myosin II filament / Smooth Muscle Contraction / myofibril assembly / elastic fiber assembly / myosin light chain binding / skeletal muscle myosin thick filament assembly / muscle myosin complex / myosin II binding / actomyosin ...RHO GTPases activate PAKs / myosin II filament / Smooth Muscle Contraction / myofibril assembly / elastic fiber assembly / myosin light chain binding / skeletal muscle myosin thick filament assembly / muscle myosin complex / myosin II binding / actomyosin / myosin filament / actomyosin structure organization / myosin II complex / cardiac muscle cell development / structural constituent of muscle / microfilament motor activity / myofibril / myosin heavy chain binding / smooth muscle contraction / stress fiber / ADP binding / actin filament binding / actin binding / calmodulin binding / calcium ion binding / magnesium ion binding / ATP binding / cytosol / cytoplasm Similarity search - Function | |||||||||
Biological species | Gallus gallus (chicken) | |||||||||
Method | electron crystallography / cryo EM / Resolution: 20.0 Å | |||||||||
Authors | Baumann BAJ / Taylor D / Huang Z / Tama F / Fagnant PM / Trybus KM / Taylor K | |||||||||
Citation | Journal: J Cell Biol / Year: 1999 Title: Visualization of head-head interactions in the inhibited state of smooth muscle myosin. Authors: T Wendt / D Taylor / T Messier / K M Trybus / K A Taylor / Abstract: The structural basis for the phosphoryla- tion-dependent regulation of smooth muscle myosin ATPase activity was investigated by forming two- dimensional (2-D) crystalline arrays of expressed ...The structural basis for the phosphoryla- tion-dependent regulation of smooth muscle myosin ATPase activity was investigated by forming two- dimensional (2-D) crystalline arrays of expressed unphosphorylated and thiophosphorylated smooth muscle heavy meromyosin (HMM) on positively charged lipid monolayers. A comparison of averaged 2-D projections of both forms at 2.3-nm resolution reveals distinct structural differences. In the active, thiophosphorylated form, the two heads of HMM interact intermolecularly with adjacent molecules. In the unphosphorylated or inhibited state, intramolecular interactions position the actin-binding interface of one head onto the converter domain of the second head, thus providing a mechanism whereby the activity of both heads could be inhibited. | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_5257.map.gz | 1.1 MB | EMDB map data format | |
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Header (meta data) | emd-5257-v30.xml emd-5257.xml | 15 KB 15 KB | Display Display | EMDB header |
Images | emd_5257_1.png | 82.7 KB | ||
Filedesc structureFactors | emd_5257_sf.cif.gz | 5.8 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-5257 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-5257 | HTTPS FTP |
-Related structure data
Related structure data | 3j04MC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_5257.map.gz / Format: CCP4 / Size: 1.8 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | This is an image of the 2D crystal looking from the top down | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X: 2.4797 Å / Y: 2.4514 Å / Z: 2.4571 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Sample components
-Entire : Heavy meromyosin subfragment of chicken gizzard smooth muscle myo...
Entire | Name: Heavy meromyosin subfragment of chicken gizzard smooth muscle myosin with the regulatory light chain in the phosphoryated state |
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Components |
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-Supramolecule #1000: Heavy meromyosin subfragment of chicken gizzard smooth muscle myo...
Supramolecule | Name: Heavy meromyosin subfragment of chicken gizzard smooth muscle myosin with the regulatory light chain in the phosphoryated state type: sample / ID: 1000 Details: Chicken gizzard smooth muscle heavy meromyosin was expressed, isolated and thiophosphorylated as per Wendt et al. 1999. Number unique components: 1 |
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Molecular weight | Theoretical: 350 KDa |
-Supramolecule #1: heavy meromyosin
Supramolecule | Name: heavy meromyosin / type: organelle_or_cellular_component / ID: 1 / Name.synonym: heavy meromyosin / Number of copies: 2 / Oligomeric state: dimer / Recombinant expression: Yes |
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Source (natural) | Organism: Gallus gallus (chicken) / synonym: Chicken / Tissue: smooth muscle / Cell: Baculovirus / Location in cell: sarcomere |
Molecular weight | Theoretical: 350 KDa |
Recombinant expression | Organism: Spodoptera frugiperda (fall armyworm) / Recombinant plasmid: PVL1392 |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | electron crystallography |
Aggregation state | 2D array |
-Sample preparation
Concentration | 0.5 mg/mL |
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Buffer | pH: 7.8 Details: 1 mM Mg, 20 mM phosphate, 1 mM ATP, 1 mM EGTA, 7-10% polyethylene glycol 6000, 90-120 mM NaCl |
Grid | Details: 200 mesh carbon coated grid |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 90 % / Instrument: HOMEMADE PLUNGER Details: Vitrification instrument: homemade solenoid activated plunge freezer. Carried out in cold room at 4 degrees C Method: Blot for 4 sec before plunging |
Details | crystals grown on a lipid monolayer |
Crystal formation | Details: crystals grown on a lipid monolayer |
-Electron microscopy
Microscope | FEI/PHILIPS CM300FEG/T |
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Electron beam | Acceleration voltage: 300 kV / Electron source: TUNGSTEN HAIRPIN |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELDBright-field microscopy / Cs: 2 mm / Nominal defocus min: 4.0 µm / Nominal magnification: 24000 |
Sample stage | Specimen holder: eucentric / Specimen holder model: GATAN LIQUID NITROGEN / Tilt angle min: -60 / Tilt angle max: 60 / Tilt series - Axis1 - Min angle: -60 ° / Tilt series - Axis1 - Max angle: 60 ° |
Temperature | Average: 90 K |
Alignment procedure | Legacy - Astigmatism: objective lens astigmatism corrected at 250 times magnification |
Date | Oct 10, 2004 |
Image recording | Category: FILM / Film or detector model: KODAK SO-163 FILM / Digitization - Scanner: ZEISS SCAI / Digitization - Sampling interval: 7 µm / Number real images: 85 / Average electron dose: 40 e/Å2 / Bits/pixel: 16 |
-Image processing
Crystal parameters | Unit cell - A: 219.3 Å / Unit cell - B: 174.8 Å / Unit cell - C: 94.4 Å / Unit cell - γ: 94.4 ° / Unit cell - α: 90 ° / Unit cell - β: 90 ° / Plane group: P 2 |
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CTF correction | Details: determined using ICE and corrected with CTFAPPPLY |
Final reconstruction | Algorithm: OTHER / Resolution.type: BY AUTHOR / Resolution: 20.0 Å / Software - Name: CCP4 Details: A total of 85 unique averaged structure factors were obtained and had an average phase residual of 17.9 degrees with a resolution to approx 2.1 nm |
-Atomic model buiding 1
Initial model | PDB ID: |
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Software | Name: NMFF |
Details | Protocol: rigid body. The model was roughly fit into the density map using O the refined using NMFF. The entire structure was then minimized using minCHARMM.pl |
Refinement | Space: REAL / Protocol: RIGID BODY FIT |
Output model | PDB-3j04: |
-Atomic model buiding 2
Initial model | PDB ID: |
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Software | Name: NMFF |
Details | Protocol: rigid body. The model was roughly fit into the density map using O the refined using NMFF. The entire structure was then minimized using minCHARMM.pl |
Refinement | Space: REAL / Protocol: RIGID BODY FIT |
Output model | PDB-3j04: |