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- PDB-6ihj: Crystal structure of Drosophila Nxf1 NTF2 domain in complex with ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6ihj | |||||||||
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Title | Crystal structure of Drosophila Nxf1 NTF2 domain in complex with Nxt1/p15 | |||||||||
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![]() | PROTEIN TRANSPORT / Nuclear Export Factor / Drosophila / Nxf2 / NTF2 domain / p15 / Nxt1 | |||||||||
Function / homology | ![]() Transport of Mature mRNA derived from an Intron-Containing Transcript / Transport of the SLBP independent Mature mRNA / Transport of the SLBP Dependant Mature mRNA / Transport of Mature mRNA Derived from an Intronless Transcript / positive regulation of RNA export from nucleus / nuclear pore central transport channel / : / nuclear export / nucleocytoplasmic transport / poly(A)+ mRNA export from nucleus ...Transport of Mature mRNA derived from an Intron-Containing Transcript / Transport of the SLBP independent Mature mRNA / Transport of the SLBP Dependant Mature mRNA / Transport of Mature mRNA Derived from an Intronless Transcript / positive regulation of RNA export from nucleus / nuclear pore central transport channel / : / nuclear export / nucleocytoplasmic transport / poly(A)+ mRNA export from nucleus / mRNA export from nucleus / negative regulation of innate immune response / transcription repressor complex / protein import into nucleus / nuclear envelope / nuclear membrane / defense response to Gram-negative bacterium / RNA binding / nucleoplasm / nucleus / cytoplasm Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Huang, Y. / Yuan, X. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: A Pandas complex adapted for piRNA-guided transcriptional silencing and heterochromatin formation. Authors: Zhao, K. / Cheng, S. / Miao, N. / Xu, P. / Lu, X. / Zhang, Y. / Wang, M. / Ouyang, X. / Yuan, X. / Liu, W. / Lu, X. / Zhou, P. / Gu, J. / Zhang, Y. / Qiu, D. / Jin, Z. / Su, C. / Peng, C. / ...Authors: Zhao, K. / Cheng, S. / Miao, N. / Xu, P. / Lu, X. / Zhang, Y. / Wang, M. / Ouyang, X. / Yuan, X. / Liu, W. / Lu, X. / Zhou, P. / Gu, J. / Zhang, Y. / Qiu, D. / Jin, Z. / Su, C. / Peng, C. / Wang, J.H. / Dong, M.Q. / Wan, Y. / Ma, J. / Cheng, H. / Huang, Y. / Yu, Y. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 126.2 KB | Display | ![]() |
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PDB format | ![]() | 94.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 463.9 KB | Display | ![]() |
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Full document | ![]() | 476.1 KB | Display | |
Data in XML | ![]() | 22.5 KB | Display | |
Data in CIF | ![]() | 30.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6iewC ![]() 1jkgS 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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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 22147.006 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Protein | Mass: 15340.127 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.22 Å3/Da / Density % sol: 44.65 % |
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Crystal grow | Temperature: 290 K / Method: vapor diffusion, hanging drop Details: 16%(w/v) PEG 8000, 40mM Potassium phosphate dibasic and 20%(v/v) Glycerol |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Jan 14, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97854 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→30 Å / Num. obs: 18389 / % possible obs: 99.8 % / Redundancy: 13.5 % / Rmerge(I) obs: 0.125 / Net I/σ(I): 22.1 |
Reflection shell | Resolution: 2.7→2.8 Å / Redundancy: 8.3 % / Rmerge(I) obs: 0.43 / Mean I/σ(I) obs: 2.33 / Num. unique obs: 1822 / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1JKG Resolution: 2.7→28.764 Å / SU ML: 0.35 / Cross valid method: FREE R-VALUE / σ(F): 1.46 / Phase error: 24.71
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.7→28.764 Å
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Refine LS restraints |
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LS refinement shell |
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