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Yorodumi- PDB-2osz: Structure of Nup58/45 suggests flexible nuclear pore diameter by ... -
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-Basic information
Entry | Database: PDB / ID: 2osz | ||||||
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Title | Structure of Nup58/45 suggests flexible nuclear pore diameter by intermolecular sliding | ||||||
Components | Nucleoporin p58/p45 | ||||||
Keywords | STRUCTURAL PROTEIN / NPC / nucleoporin | ||||||
Function / homology | Function and homology information Transport of the SLBP independent Mature mRNA / Transport of the SLBP Dependant Mature mRNA / Transport of Mature mRNA Derived from an Intronless Transcript / Transport of Mature mRNA derived from an Intron-Containing Transcript / snRNP Assembly / SUMOylation of ubiquitinylation proteins / Nuclear Pore Complex (NPC) Disassembly / SUMOylation of SUMOylation proteins / SUMOylation of chromatin organization proteins / SUMOylation of RNA binding proteins ...Transport of the SLBP independent Mature mRNA / Transport of the SLBP Dependant Mature mRNA / Transport of Mature mRNA Derived from an Intronless Transcript / Transport of Mature mRNA derived from an Intron-Containing Transcript / snRNP Assembly / SUMOylation of ubiquitinylation proteins / Nuclear Pore Complex (NPC) Disassembly / SUMOylation of SUMOylation proteins / SUMOylation of chromatin organization proteins / SUMOylation of RNA binding proteins / SUMOylation of DNA replication proteins / Transcriptional regulation by small RNAs / Regulation of Glucokinase by Glucokinase Regulatory Protein / SUMOylation of DNA damage response and repair proteins / regulation of protein import into nucleus / Regulation of HSF1-mediated heat shock response / structural constituent of nuclear pore / nucleocytoplasmic transport / nuclear localization sequence binding / mRNA transport / nuclear pore / protein transport / nuclear envelope / nuclear membrane / protein-containing complex binding / protein-containing complex / identical protein binding Similarity search - Function | ||||||
Biological species | Rattus norvegicus (Norway rat) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.85 Å | ||||||
Authors | Melcak, I. / Hoelz, A. / Blobel, G. | ||||||
Citation | Journal: Science / Year: 2007 Title: Structure of Nup58/45 suggests flexible nuclear pore diameter by intermolecular sliding. Authors: Melcak, I. / Hoelz, A. / Blobel, G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2osz.cif.gz | 80.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2osz.ent.gz | 63.4 KB | Display | PDB format |
PDBx/mmJSON format | 2osz.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/os/2osz ftp://data.pdbj.org/pub/pdb/validation_reports/os/2osz | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 10781.189 Da / Num. of mol.: 4 / Fragment: residues 327-411 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Rattus norvegicus (Norway rat) / Gene: Nupl1 / Plasmid: pET28 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) RIL / References: UniProt: P70581 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 4.49 Å3/Da / Density % sol: 72.61 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 6.1 Details: 100 mM Bis-Tris, 600 mM CaCl2, 2.7% (w/v) Benzamidine-HCl, pH 6.1, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K |
-Data collection
Diffraction | Mean temperature: 100 K | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: ALS / Beamline: 8.2.2 / Wavelength: 1.00813 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Jul 15, 2004 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 1.00813 Å / Relative weight: 1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Resolution: 2.85→20 Å / Num. obs: 17216 / % possible obs: 95.7 % / Redundancy: 4.2 % / Rmerge(I) obs: 0.098 / Χ2: 1.005 / Net I/σ(I): 8.8 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell |
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-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.85→20 Å / Isotropic thermal model: Isotropic / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber / Details: Used weighted full matrix least squares procedure.
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Displacement parameters | Biso mean: 41.299 Å2 | ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.85→20 Å
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