+Open data
-Basic information
Entry | Database: PDB / ID: 1zws | ||||||
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Title | Crystal structure of the catalytic domain of human DRP-1 kinase | ||||||
Components | DAP-kinase related protein 1 | ||||||
Keywords | TRANSFERASE / protein kinase / twinning | ||||||
Function / homology | Function and homology information autophagosome lumen / regulation of intrinsic apoptotic signaling pathway / positive regulation of eosinophil chemotaxis / Caspase activation via Dependence Receptors in the absence of ligand / positive regulation of neutrophil chemotaxis / anoikis / regulation of autophagy / cytoplasmic vesicle / regulation of apoptotic process / protein autophosphorylation ...autophagosome lumen / regulation of intrinsic apoptotic signaling pathway / positive regulation of eosinophil chemotaxis / Caspase activation via Dependence Receptors in the absence of ligand / positive regulation of neutrophil chemotaxis / anoikis / regulation of autophagy / cytoplasmic vesicle / regulation of apoptotic process / protein autophosphorylation / non-specific serine/threonine protein kinase / calmodulin binding / intracellular signal transduction / positive regulation of apoptotic process / protein phosphorylation / intracellular membrane-bounded organelle / protein serine kinase activity / protein serine/threonine kinase activity / apoptotic process / Golgi apparatus / ATP binding / identical protein binding / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.9 Å | ||||||
Authors | Kursula, P. / Schunck, H. / Wilmanns, M. | ||||||
Citation | Journal: To be Published Title: Crystal structure of the catalytic domain of human DRP-1 kinase Authors: Kursula, P. / Schunck, H. / Wilmanns, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1zws.cif.gz | 407.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1zws.ent.gz | 332.5 KB | Display | PDB format |
PDBx/mmJSON format | 1zws.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1zws_validation.pdf.gz | 496.7 KB | Display | wwPDB validaton report |
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Full document | 1zws_full_validation.pdf.gz | 615.5 KB | Display | |
Data in XML | 1zws_validation.xml.gz | 83.6 KB | Display | |
Data in CIF | 1zws_validation.cif.gz | 113.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/zw/1zws ftp://data.pdbj.org/pub/pdb/validation_reports/zw/1zws | HTTPS FTP |
-Related structure data
Related structure data | 1sxo S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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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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-Components
#1: Protein | Mass: 33096.770 Da / Num. of mol.: 8 / Fragment: catalytic domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Plasmid: pDEST-15 / Production host: Escherichia coli (E. coli) / Strain (production host): Rosetta(DE3)pLysS / References: UniProt: Q9UIK4 |
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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: 2.7 Å3/Da / Density % sol: 54.7 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: Tris, PEG, magnesium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: MAX II / Beamline: I711 / Wavelength: 1.095 Å |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Sep 27, 2004 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.095 Å / Relative weight: 1 |
Reflection | Resolution: 2.9→20 Å / Num. all: 55013 / Num. obs: 55013 / % possible obs: 90.5 % / Observed criterion σ(F): -3 / Observed criterion σ(I): -3 / Redundancy: 1.9 % / Biso Wilson estimate: 48 Å2 / Rsym value: 0.115 / Net I/σ(I): 6.1 |
Reflection shell | Resolution: 2.9→3 Å / Redundancy: 1.6 % / Mean I/σ(I) obs: 1.5 / Num. unique all: 4903 / Rsym value: 0.503 / % possible all: 84.2 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1sxo 1sxo Resolution: 2.9→20 Å / σ(F): -3 / Stereochemistry target values: Engh & Huber Details: The crystal form is perfectly twinned with the operator -h,-k,h+l, twinning fraction = 0.5
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Refinement step | Cycle: LAST / Resolution: 2.9→20 Å
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Refine LS restraints |
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