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- PDB-6b4i: Crystal structure of human Gle1 CTD-Nup42 GBM-DDX19B(ADP) complex -
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Open data
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Basic information
Entry | Database: PDB / ID: 6b4i | ||||||
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Title | Crystal structure of human Gle1 CTD-Nup42 GBM-DDX19B(ADP) complex | ||||||
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![]() | TRANSPORT PROTEIN / Complex / Nuclear Pore Complex / mRNA export / DEAD-box helicase | ||||||
Function / homology | ![]() nuclear export signal receptor activity / inositol hexakisphosphate binding / nuclear pore cytoplasmic filaments / Nuclear Pore Complex (NPC) Disassembly / Transport of Ribonucleoproteins into the Host Nucleus / Regulation of Glucokinase by Glucokinase Regulatory Protein / Defective TPR may confer susceptibility towards thyroid papillary carcinoma (TPC) / Transport of the SLBP independent Mature mRNA / Transport of the SLBP Dependant Mature mRNA / NS1 Mediated Effects on Host Pathways ...nuclear export signal receptor activity / inositol hexakisphosphate binding / nuclear pore cytoplasmic filaments / Nuclear Pore Complex (NPC) Disassembly / Transport of Ribonucleoproteins into the Host Nucleus / Regulation of Glucokinase by Glucokinase Regulatory Protein / Defective TPR may confer susceptibility towards thyroid papillary carcinoma (TPC) / Transport of the SLBP independent Mature mRNA / Transport of the SLBP Dependant Mature mRNA / NS1 Mediated Effects on Host Pathways / SUMOylation of SUMOylation proteins / Transport of Mature mRNA Derived from an Intronless Transcript / Rev-mediated nuclear export of HIV RNA / SUMOylation of RNA binding proteins / Nuclear import of Rev protein / Transport of Mature mRNA derived from an Intron-Containing Transcript / NEP/NS2 Interacts with the Cellular Export Machinery / tRNA processing in the nucleus / nucleocytoplasmic transport / Viral Messenger RNA Synthesis / poly(A)+ mRNA export from nucleus / SUMOylation of ubiquitinylation proteins / Vpr-mediated nuclear import of PICs / SUMOylation of DNA replication proteins / Regulation of HSF1-mediated heat shock response / mRNA transport / mRNA export from nucleus / SUMOylation of DNA damage response and repair proteins / nuclear pore / translation initiation factor binding / centriole / protein export from nucleus / SUMOylation of chromatin organization proteins / helicase activity / ciliary basal body / HCMV Late Events / Transcriptional regulation by small RNAs / phospholipid binding / ISG15 antiviral mechanism / cytoplasmic stress granule / HCMV Early Events / protein transport / nuclear envelope / snRNP Assembly / nuclear membrane / RNA helicase activity / RNA helicase / centrosome / mRNA binding / nucleolus / SARS-CoV-2 activates/modulates innate and adaptive immune responses / ATP hydrolysis activity / RNA binding / extracellular space / extracellular exosome / nucleoplasm / ATP binding / identical protein binding / membrane / nucleus / metal ion binding / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lin, D.H. / Correia, A.R. / Cai, S.W. / Huber, F.M. / Jette, C.A. / Hoelz, A. | ||||||
![]() | ![]() Title: Structural and functional analysis of mRNA export regulation by the nuclear pore complex. Authors: Lin, D.H. / Correia, A.R. / Cai, S.W. / Huber, F.M. / Jette, C.A. / Hoelz, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 596.6 KB | Display | ![]() |
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PDB format | ![]() | 497.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
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-Validation report
Summary document | ![]() | 892.7 KB | Display | ![]() |
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Full document | ![]() | 908.9 KB | Display | |
Data in XML | ![]() | 53.7 KB | Display | |
Data in CIF | ![]() | 72.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6b4eC ![]() 6b4fC ![]() 6b4gC ![]() 6b4hC ![]() 6b4jC ![]() 6b4kC 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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Unit cell |
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Components
#1: Protein | Mass: 36375.141 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Protein/peptide | Mass: 5526.420 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #3: Protein | Mass: 48658.000 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #4: Chemical | ChemComp-PO4 / #5: Chemical | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.65 Å3/Da / Density % sol: 53.5 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop Details: 13 % (w/v) PEG 3350, 0.2 M sodium potassium phosphate |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Nov 12, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.0333 Å / Relative weight: 1 |
Reflection | Resolution: 3.6→50 Å / Num. obs: 21685 / % possible obs: 98.6 % / Redundancy: 6.9 % / CC1/2: 0.997 / Rpim(I) all: 0.061 / Rsym value: 0.159 / Net I/σ(I): 8.5 |
Reflection shell | Resolution: 3.6→3.9 Å / Redundancy: 7 % / Mean I/σ(I) obs: 1 / Num. unique obs: 2157 / CC1/2: 0.48 / Rpim(I) all: 0.833 / Rsym value: 2.232 / % possible all: 98.9 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.619→46.091 Å
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Refine LS restraints |
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LS refinement shell |
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