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- PDB-5wlz: Crystal Structure of Amino Acids 1677-1758 of Human Beta Cardiac ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5wlz | ||||||
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Title | Crystal Structure of Amino Acids 1677-1758 of Human Beta Cardiac Myosin Fused to Xrcc4 | ||||||
![]() | DNA repair protein XRCC4,Myosin-7 | ||||||
![]() | MOTOR PROTEIN / Myosin / Xrcc4 / Coiled-Coil | ||||||
Function / homology | ![]() FHA domain binding / regulation of slow-twitch skeletal muscle fiber contraction / regulation of the force of skeletal muscle contraction / positive regulation of ligase activity / DNA ligase IV complex / DNA ligation involved in DNA repair / muscle myosin complex / muscle filament sliding / DNA-dependent protein kinase-DNA ligase 4 complex / transition between fast and slow fiber ...FHA domain binding / regulation of slow-twitch skeletal muscle fiber contraction / regulation of the force of skeletal muscle contraction / positive regulation of ligase activity / DNA ligase IV complex / DNA ligation involved in DNA repair / muscle myosin complex / muscle filament sliding / DNA-dependent protein kinase-DNA ligase 4 complex / transition between fast and slow fiber / immunoglobulin V(D)J recombination / nonhomologous end joining complex / regulation of the force of heart contraction / myosin filament / protein localization to site of double-strand break / adult heart development / cardiac muscle hypertrophy in response to stress / myosin complex / ventricular cardiac muscle tissue morphogenesis / myosin II complex / microfilament motor activity / myofibril / sarcomere organization / cellular response to lithium ion / 2-LTR circle formation / skeletal muscle contraction / response to X-ray / SUMOylation of DNA damage response and repair proteins / striated muscle contraction / cardiac muscle contraction / stress fiber / ATP metabolic process / regulation of heart rate / sarcomere / muscle contraction / Nonhomologous End-Joining (NHEJ) / Z disc / double-strand break repair via nonhomologous end joining / double-strand break repair / actin filament binding / site of double-strand break / calmodulin binding / nucleoplasm / ATP binding / identical protein binding / nucleus / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Andreas, M.P. / Ajay, G. / Gellings, J. / Rayment, I. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Design considerations in coiled-coil fusion constructs for the structural determination of a problematic region of the human cardiac myosin rod. Authors: Andreas, M.P. / Ajay, G. / Gellings, J.A. / Rayment, I. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 328.2 KB | Display | ![]() |
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PDB format | ![]() | 269.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 449.2 KB | Display | ![]() |
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Full document | ![]() | 455.2 KB | Display | |
Data in XML | ![]() | 27.5 KB | Display | |
Data in CIF | ![]() | 36.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5wj7C ![]() 5wjbC ![]() 5wlqC ![]() 5wmeC ![]() 1ik9S 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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Components
#1: Protein | Mass: 24504.676 Da / Num. of mol.: 4 Fragment: UNP Q13426 residues 2-132, UNP P12883 residues 1677-1758 Mutation: E29K, E51K, D57A, D58T, E62N, C93R, E98K,C128D, C132A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.1 Å3/Da / Density % sol: 60.1 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 8-10% methyl-ether polyethylene glycol (MEPEG) 5K, 300 mM glycine, bis-tris propane pH 7.0, 1.5-3.0% (w/v) jeffamine M-600 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Dec 7, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97934 Å / Relative weight: 1 |
Reflection | Resolution: 3.5→50 Å / Num. obs: 16299 / % possible obs: 100 % / Redundancy: 9.5 % / Rmerge(I) obs: 0.139 / Net I/σ(I): 17.1 |
Reflection shell | Resolution: 3.5→3.56 Å / Redundancy: 9.8 % / Rmerge(I) obs: 0.139 / Mean I/σ(I) obs: 3.2 / Num. unique obs: 808 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1IK9 Resolution: 3.5→44.068 Å / SU ML: 0.37 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 24.9
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.5→44.068 Å
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Refine LS restraints |
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LS refinement shell |
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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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