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Open data
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Basic information
Entry | Database: PDB / ID: 8gxm | ||||||
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Title | HUMAN SUGP1 433-586 | ||||||
![]() | SURP and G-patch domain-containing protein 1 | ||||||
![]() | RNA BINDING PROTEIN / pre-mRNA splicing. | ||||||
Function / homology | ![]() mRNA Splicing - Major Pathway / RNA splicing / spliceosomal complex / mRNA processing / RNA binding / nucleoplasm Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Xu, K. / Tong, L. | ||||||
Funding support | ![]()
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![]() | ![]() Title: DHX15 is involved in SUGP1-mediated RNA missplicing by mutant SF3B1 in cancer. Authors: Zhang, J. / Huang, J. / Xu, K. / Xing, P. / Huang, Y. / Liu, Z. / Tong, L. / Manley, J.L. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 76.4 KB | Display | ![]() |
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PDB format | ![]() | 45.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 432.7 KB | Display | ![]() |
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Full document | ![]() | 436.5 KB | Display | |
Data in XML | ![]() | 10.8 KB | Display | |
Data in CIF | ![]() | 13.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8ejmC ![]() 8gxlSC 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
#1: Protein | Mass: 18384.746 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.53 Å3/Da / Density % sol: 51.3 % |
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Crystal grow | Temperature: 293.15 K / Method: vapor diffusion, sitting drop Details: 0.1 M Bis-Tris (pH 7.5), 25% (w/v) polyethylene glycol 3350. |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Nov 2, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9792 Å / Relative weight: 1 |
Reflection | Resolution: 2.8→50 Å / Num. obs: 8896 / % possible obs: 99.8 % / Redundancy: 7.8 % / CC1/2: 0.999 / Net I/σ(I): 27.5 |
Reflection shell | Resolution: 2.8→2.91 Å / Num. unique obs: 887 / CC1/2: 0.87 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 8GXL Resolution: 2.81→44.95 Å / SU ML: 0.3656 / Cross valid method: FREE R-VALUE / σ(F): 1.39 / Phase error: 32.9018 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: 84.9 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.81→44.95 Å
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Refine LS restraints |
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LS refinement shell |
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