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Yorodumi- PDB-1br4: SMOOTH MUSCLE MYOSIN MOTOR DOMAIN-ESSENTIAL LIGHT CHAIN COMPLEX W... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1br4 | ||||||
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Title | SMOOTH MUSCLE MYOSIN MOTOR DOMAIN-ESSENTIAL LIGHT CHAIN COMPLEX WITH MGADP.BEF3 BOUND AT THE ACTIVE SITE | ||||||
Components | (MYOSIN) x 2 | ||||||
Keywords | MUSCLE PROTEIN | ||||||
Function / homology | Function and homology information myosin II filament / myofibril assembly / elastic fiber assembly / myosin light chain binding / skeletal muscle myosin thick filament assembly / myosin II binding / muscle myosin complex / actomyosin / myosin filament / actomyosin structure organization ...myosin II filament / myofibril assembly / elastic fiber assembly / myosin light chain binding / skeletal muscle myosin thick filament assembly / myosin II binding / muscle myosin complex / 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 / ADP binding / actin filament binding / actin binding / calmodulin binding / calcium ion binding / magnesium ion binding / ATP binding / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | Gallus gallus (chicken) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3.62 Å | ||||||
Authors | Dominguez, R. / Trybus, K.M. / Cohen, C. | ||||||
Citation | Journal: Cell(Cambridge,Mass.) / Year: 1998 Title: Crystal structure of a vertebrate smooth muscle myosin motor domain and its complex with the essential light chain: visualization of the pre-power stroke state. Authors: Dominguez, R. / Freyzon, Y. / Trybus, K.M. / Cohen, C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1br4.cif.gz | 671 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1br4.ent.gz | 544.7 KB | Display | PDB format |
PDBx/mmJSON format | 1br4.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1br4_validation.pdf.gz | 683.2 KB | Display | wwPDB validaton report |
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Full document | 1br4_full_validation.pdf.gz | 1.1 MB | Display | |
Data in XML | 1br4_validation.xml.gz | 130.2 KB | Display | |
Data in CIF | 1br4_validation.cif.gz | 185 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/br/1br4 ftp://data.pdbj.org/pub/pdb/validation_reports/br/1br4 | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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2 |
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3 |
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4 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper:
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-Components
-Protein , 2 types, 8 molecules ACEGBDFH
#1: Protein | Mass: 93697.180 Da / Num. of mol.: 4 Fragment: CHAINS A, C, E, G, MOTOR DOMAIN, CHAINS B, D, F, H, ESSENTIAL LIGHT Source method: isolated from a genetically manipulated source Details: MG, ADP, BEF(3) / Source: (gene. exp.) Gallus gallus (chicken) / Tissue: SMOOTH MUSCLE / Cell line: SF9 / Organ: GIZZARD / Cell line (production host): SF9 / Production host: Spodoptera frugiperda (fall armyworm) / References: UniProt: P10587, EC: 3.6.1.32 #2: Protein | Mass: 16873.025 Da / Num. of mol.: 4 Fragment: CHAINS A, C, E, G, MOTOR DOMAIN, CHAINS B, D, F, H, ESSENTIAL LIGHT Source method: isolated from a genetically manipulated source Details: MG, ADP, BEF(3) / Source: (gene. exp.) Gallus gallus (chicken) / Tissue: SMOOTH MUSCLE / Cell line: SF9 / Organ: GIZZARD / Cell line (production host): SF9 / Production host: Spodoptera frugiperda (fall armyworm) / References: UniProt: P02607, EC: 3.6.1.32 |
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-Non-polymers , 4 types, 20 molecules
#3: Chemical | ChemComp-MG / #4: Chemical | ChemComp-ADP / #5: Chemical | ChemComp-BEF / #6: 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: 4 Å3/Da / Density % sol: 70 % | |||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / pH: 7.2 Details: 1.8M AMMONIUM SULFATE 100MM HEPES PH 7.2 2MM MGADP 2MM AL(NO3)3 8MM NAF PROTEIN CONCENTRATION: 10MG/ML TEMPERATURE: 4 DEGREES CENTIGRADE, temperature 277K | |||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: CHESS / Beamline: A1 / Wavelength: 0.905 |
Detector | Detector: CCD / Date: Jul 1, 1997 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.905 Å / Relative weight: 1 |
Reflection | Resolution: 3.62→20 Å / Num. obs: 75979 / % possible obs: 95.6 % / Redundancy: 6.3 % / Rsym value: 0.111 / Net I/σ(I): 13.7 |
Reflection shell | Resolution: 3.62→3.9 Å / Redundancy: 4.1 % / Mean I/σ(I) obs: 6.9 / Rsym value: 0.331 / % possible all: 94.2 |
Reflection | *PLUS Num. measured all: 478668 / Rmerge(I) obs: 0.111 |
Reflection shell | *PLUS % possible obs: 94.2 % / Rmerge(I) obs: 0.331 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: SMOOTH MUSCLE MOTOR DOMAIN Resolution: 3.62→10 Å / Data cutoff high absF: 0 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0
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Displacement parameters | Biso mean: 48.9 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error free: 0.7 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.62→10 Å
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Refine LS restraints |
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Refine LS restraints NCS | NCS model details: RESTRAINTS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Xplor file |
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Software | *PLUS Name: X-PLOR / Version: 3.851 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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