+Open data
-Basic information
Entry | Database: PDB / ID: 3el2 | ||||||
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Title | Crystal Structure of Monomeric Actin Bound to Ca-ATP | ||||||
Components | Actin-5C | ||||||
Keywords | CONTRACTILE PROTEIN / Motor protein / ATP-state / Acetylation / ATP-binding / Cytoplasm / Cytoskeleton / Nucleotide-binding | ||||||
Function / homology | Function and homology information Gap junction degradation / Formation of annular gap junctions / EPHB-mediated forward signaling / EPH-ephrin mediated repulsion of cells / VEGFA-VEGFR2 Pathway / Cell-extracellular matrix interactions / RHOBTB2 GTPase cycle / RHOF GTPase cycle / MAP2K and MAPK activation / Platelet degranulation ...Gap junction degradation / Formation of annular gap junctions / EPHB-mediated forward signaling / EPH-ephrin mediated repulsion of cells / VEGFA-VEGFR2 Pathway / Cell-extracellular matrix interactions / RHOBTB2 GTPase cycle / RHOF GTPase cycle / MAP2K and MAPK activation / Platelet degranulation / RHO GTPases Activate WASPs and WAVEs / Regulation of actin dynamics for phagocytic cup formation / DNA Damage Recognition in GG-NER / Clathrin-mediated endocytosis / UCH proteinases / sperm individualization / maintenance of protein location in cell / brahma complex / Ino80 complex / tube formation / mitotic cytokinesis / Hydrolases; Acting on acid anhydrides; Acting on acid anhydrides to facilitate cellular and subcellular movement / chromatin remodeling / cytoskeleton / hydrolase activity / ATP binding / cytoplasm Similarity search - Function | ||||||
Biological species | Drosophila melanogaster (fruit fly) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.5 Å | ||||||
Authors | Nair, U.B. / Joel, P.B. / Wan, Q. / Lowey, S. / Rould, M.A. / Trybus, K.M. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2008 Title: Crystal structures of monomeric actin bound to cytochalasin D. Authors: Nair, U.B. / Joel, P.B. / Wan, Q. / Lowey, S. / Rould, M.A. / Trybus, K.M. #1: Journal: J.Biol.Chem. / Year: 2006 Title: Crystal Structures of Expressed Non-polymerizable Monomeric Actin in the ADP and ATP states Authors: Rould, M.A. / Wan, Q. / Joel, P.B. / Lowey, S. / Trybus, K.M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3el2.cif.gz | 91.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3el2.ent.gz | 67.3 KB | Display | PDB format |
PDBx/mmJSON format | 3el2.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3el2_validation.pdf.gz | 734.8 KB | Display | wwPDB validaton report |
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Full document | 3el2_full_validation.pdf.gz | 744.7 KB | Display | |
Data in XML | 3el2_validation.xml.gz | 18.4 KB | Display | |
Data in CIF | 3el2_validation.cif.gz | 26.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/el/3el2 ftp://data.pdbj.org/pub/pdb/validation_reports/el/3el2 | HTTPS FTP |
-Related structure data
Related structure data | 3eksC 3ekuSC S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 41826.668 Da / Num. of mol.: 1 / Mutation: A204E, P243K Source method: isolated from a genetically manipulated source Source: (gene. exp.) Drosophila melanogaster (fruit fly) / Gene: Act5C, CG4027 / Production host: Spodoptera frugiperda (fall armyworm) / Strain (production host): SF9 / References: UniProt: P10987 | ||
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#2: Chemical | ChemComp-ATP / | ||
#3: Chemical | #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.44 Å3/Da / Density % sol: 49.63 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 5.2 Details: 20% MPD, 0.1M sodium acetate, 0.1M NaCl, 0.02M CaCl2, pH 5.2, VAPOR DIFFUSION, SITTING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RUH3R / Wavelength: 1.5418 Å |
Detector | Type: MAR scanner 345 mm plate / Detector: IMAGE PLATE / Date: Sep 21, 2004 |
Radiation | Monochromator: XENOCS MULTILAYER OPTICS / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→15 Å / Num. all: 13523 / Num. obs: 13523 / % possible obs: 95.8 % / Redundancy: 3.4 % / Rmerge(I) obs: 0.093 / Χ2: 1.033 / Net I/σ(I): 12.8 |
Reflection shell | Resolution: 2.5→2.59 Å / Rmerge(I) obs: 0.268 / Mean I/σ(I) obs: 3.2 / Num. unique all: 1088 / Χ2: 0.904 / % possible all: 77.7 |
-Processing
Software |
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Refinement | Starting model: Protein only from 3EKU Resolution: 2.5→15 Å / Occupancy max: 1 / Occupancy min: 1 / Isotropic thermal model: isotropic / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Solvent computation | Bsol: 31.069 Å2 | ||||||||||||||||||||||||||||
Displacement parameters | Biso max: 83.5 Å2 / Biso mean: 31.53 Å2 / Biso min: 1 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.5→15 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.5→2.54 Å /
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Xplor file |
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