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Open data
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Basic information
Entry | Database: PDB / ID: 8ak2 | ||||||
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Title | Drosophila melanogaster UNC89 Protein Kinase Domain 1 (apo) | ||||||
![]() | Obscurin | ||||||
![]() | STRUCTURAL PROTEIN / Kinase / Muscle Protein | ||||||
Function / homology | ![]() adult somatic muscle development / protein localization to M-band / M band / sarcomere organization / tropomyosin binding / guanyl-nucleotide exchange factor activity / actin filament binding / kinase activity / non-specific serine/threonine protein kinase / protein phosphorylation ...adult somatic muscle development / protein localization to M-band / M band / sarcomere organization / tropomyosin binding / guanyl-nucleotide exchange factor activity / actin filament binding / kinase activity / non-specific serine/threonine protein kinase / protein phosphorylation / protein kinase binding / ATP binding / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Dorendorf, T. / Zacharchenko, T. / Mayans, O. | ||||||
Funding support | ![]()
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![]() | ![]() Title: PK1 from Drosophila obscurin is an inactive pseudokinase with scaffolding properties. Authors: Zacharchenko, T. / Dorendorf, T. / Locker, N. / Van Dijk, E. / Katzemich, A. / Diederichs, K. / Bullard, B. / Mayans, O. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 148.6 KB | Display | ![]() |
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PDB format | ![]() | 110.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 8ak3C ![]() 3gu4S S: Starting model for refinement C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 34810.285 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() References: UniProt: A8DYP0, non-specific serine/threonine protein kinase | ||||||
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#2: Chemical | ChemComp-GOL / #3: Chemical | #4: Water | ChemComp-HOH / | Has ligand of interest | N | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.2 Å3/Da / Density % sol: 61.56 % |
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Crystal grow | Temperature: 291.15 K / Method: vapor diffusion, sitting drop / pH: 9.5 Details: 1M potassium sodium tartrate, 100 mM CHES pH 9.5, 200 mM lithium sulfate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 2M / Detector: PIXEL / Date: Oct 12, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.92 Å / Relative weight: 1 |
Reflection | Resolution: 1.75→29.21 Å / Num. obs: 45374 / % possible obs: 99.9 % / Redundancy: 13.12 % / Biso Wilson estimate: 28.88 Å2 / CC1/2: 0.999 / Net I/σ(I): 17.89 |
Reflection shell | Resolution: 1.75→1.77 Å / Num. unique obs: 1485 / CC1/2: 0.342 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3GU4 Resolution: 1.75→29.21 Å / SU ML: 0.2852 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 19.5683 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 32.93 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.75→29.21 Å
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Refine LS restraints |
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LS refinement shell |
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