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- PDB-5hzj: Crystal structure of photoinhibitable Intersectin1 containing wil... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5hzj | ||||||
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Title | Crystal structure of photoinhibitable Intersectin1 containing wildtype LOV2 domain | ||||||
![]() | Intersectin-1,NPH1-1,Intersectin-1 | ||||||
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Function / homology | ![]() clathrin-dependent synaptic vesicle endocytosis / blue light photoreceptor activity / proline-rich region binding / regulation of small GTPase mediated signal transduction / endosomal transport / positive regulation of Rho protein signal transduction / intracellular vesicle / NRAGE signals death through JNK / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Tarnawski, M. / Dagliyan, O. / Chu, P.H. / Shirvanyants, D. / Dokholyan, N.V. / Hahn, K.M. / Schlichting, I. | ||||||
![]() | ![]() Title: Engineering extrinsic disorder to control protein activity in living cells. Authors: Dagliyan, O. / Tarnawski, M. / Chu, P.H. / Shirvanyants, D. / Schlichting, I. / Dokholyan, N.V. / Hahn, K.M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 405.8 KB | Display | ![]() |
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PDB format | ![]() | 333.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 5hzhC ![]() 5hziC ![]() 5hzkC ![]() 1ki1S ![]() 2wkqS 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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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 58281.121 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() Gene: ITSN1, ITSN, SH3D1A, NPH1-1 / Production host: ![]() ![]() ![]() #2: Chemical | ![]() #3: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.59 Å3/Da / Density % sol: 52.56 % |
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Crystal grow![]() | Temperature: 293 K / Method: vapor diffusion Details: 0.1 M HEPES pH 7.5, 9% (w/v) PEG 8000, 9% (v/v) ethylene glycol |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Oct 27, 2014 |
Radiation | Monochromator: Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.6→50 Å / Num. obs: 35551 / % possible obs: 97 % / Redundancy: 3.4 % / Rmerge(I) obs: 0.059 / Net I/σ(I): 12.5 |
Reflection shell | Resolution: 2.6→2.7 Å / Redundancy: 3.5 % / Rmerge(I) obs: 0.453 / Mean I/σ(I) obs: 2.6 / % possible all: 97.2 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 1KI1, 2WKQ Resolution: 2.6→47.024 Å / SU ML: 0.46 / Cross valid method: FREE R-VALUE / σ(F): 1.36 / Phase error: 34.74
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.6→47.024 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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