+Open data
-Basic information
Entry | Database: PDB / ID: 1oai | ||||||
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Title | Complex between Tap UBA domain and FxFG nucleoporin peptide | ||||||
Components |
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Keywords | NUCLEAR TRANSPORT / NUCLEAR TRANSPORT FACTOR / NUCLEOPORIN | ||||||
Function / homology | Function and homology information nuclear RNA export factor complex / nuclear inclusion body / 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 / poly(A)+ mRNA export from nucleus / mRNA export from nucleus / nuclear pore / cytoplasmic stress granule ...nuclear RNA export factor complex / nuclear inclusion body / 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 / poly(A)+ mRNA export from nucleus / mRNA export from nucleus / nuclear pore / cytoplasmic stress granule / protein transport / nuclear speck / mRNA binding / RNA binding / nucleoplasm / nucleus / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | HOMO SAPIENS (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MIRAS / Resolution: 1 Å | ||||||
Authors | Grant, R.P. / Neuhaus, D. / Stewart, M. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2003 Title: Structural Basis for the Interaction between the Tap/Nxf1 Uba Domain and Fg Nucleoporins at 1 A Resolution Authors: Grant, R.P. / Neuhaus, D. / Stewart, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1oai.cif.gz | 44.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1oai.ent.gz | 32 KB | Display | PDB format |
PDBx/mmJSON format | 1oai.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/oa/1oai ftp://data.pdbj.org/pub/pdb/validation_reports/oa/1oai | 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: 6797.592 Da / Num. of mol.: 1 / Fragment: UBA DOMAIN, RESIDUES 561-619 Source method: isolated from a genetically manipulated source Source: (gene. exp.) HOMO SAPIENS (human) / Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: Q9UBU9 |
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#2: Protein/peptide | Mass: 931.967 Da / Num. of mol.: 1 / Fragment: NUCLEOPORIN PEPTIDE, RESIDUES 10-18 Source method: isolated from a genetically manipulated source Source: (gene. exp.) HOMO SAPIENS (human) / Production host: ESCHERICHIA COLI (E. coli) |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.31 Å3/Da / Density % sol: 37.5 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 6.5 / Details: AS DESCRIBED IN MANUSCRIPT, pH 6.50 | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 18 ℃ / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: BM14 / Wavelength: 0.9393 |
Detector | Type: ASCD / Detector: CCD / Date: Apr 15, 2002 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9393 Å / Relative weight: 1 |
Reflection | Resolution: 1→24.85 Å / Num. obs: 38728 / % possible obs: 100 % / Redundancy: 5.56 % / Rmerge(I) obs: 0.065 / Net I/σ(I): 5.334 |
Reflection shell | Resolution: 1→1.05 Å / Redundancy: 4.77 % / Rmerge(I) obs: 0.36 / Mean I/σ(I) obs: 1.92 / % possible all: 100 |
Reflection | *PLUS Highest resolution: 1 Å / Lowest resolution: 25 Å / Num. obs: 39136 / % possible obs: 100 % / Redundancy: 5.6 % / Num. measured all: 217401 |
Reflection shell | *PLUS Highest resolution: 1 Å / % possible obs: 100 % / Redundancy: 4.8 % / Rmerge(I) obs: 0.357 / Mean I/σ(I) obs: 1.9 |
-Processing
Software |
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Refinement | Method to determine structure: MIRAS / Resolution: 1→6 Å / Cor.coef. Fo:Fc: 0.973 / Cor.coef. Fo:Fc free: 0.967 / SU B: 0.256 / SU ML: 0.014 / Cross valid method: THROUGHOUT / ESU R: 0.022 / ESU R Free: 0.022 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL PLUS MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 10.96 Å2
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Refinement step | Cycle: LAST / Resolution: 1→6 Å
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Refine LS restraints |
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