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- PDB-1koo: THE CRYSTAL STRUCTURE AND MUTATIONAL ANALYSIS OF A NOVEL RNA-BIND... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1koo | ||||||
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Title | THE CRYSTAL STRUCTURE AND MUTATIONAL ANALYSIS OF A NOVEL RNA-BINDING DOMAIN FOUND IN THE HUMAN TAP NUCLEAR MRNA EXPORT FACTOR | ||||||
![]() | TIP ASSOCIATING PROTEIN | ||||||
![]() | RNA BINDING PROTEIN / mRNA export factor / Constitutive transport element (CTE) / Ribonucleoprotein (RNP) and Leucine Rich Repeat (LRR) domains | ||||||
Function / homology | ![]() 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 / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Ho, D.N. / Coburn, G.A. / Kang, Y. / Cullen, B.R. / Georgiadis, M.M. | ||||||
![]() | ![]() Title: The crystal structure and mutational analysis of a novel RNA-binding domain found in the human Tap nuclear mRNA export factor. Authors: Ho, D.N. / Coburn, G.A. / Kang, Y. / Cullen, B.R. / Georgiadis, M.M. #1: ![]() Title: Using viral species specificity to define a critical protein/RNA interaction surface Authors: Coburn, G.A. / Wiegand, H.L. / Kang, Y. / Ho, D.N. / Georgiadis, M.M. / Cullen, B.R. #2: ![]() Title: THE STRUCTURE OF THE MRNA EXPORT FACTOR TAP REVEALS A CIS ARRANGEMENT OF A NON-CANONICAL RNP DOMAIN AND AN LRR DOMAIN Authors: Liker, E. / Fernandez, E. / Izaurralde, E. / Conti, E. | ||||||
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 177 KB | Display | ![]() |
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PDB format | ![]() | 140.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 460.6 KB | Display | ![]() |
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Full document | ![]() | 571.9 KB | Display | |
Data in XML | ![]() | 45.1 KB | Display | |
Data in CIF | ![]() | 60.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1kohC ![]() 1ft8S 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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Unit cell |
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Components
#1: Protein | Mass: 31514.977 Da / Num. of mol.: 4 / Fragment: RESIDUES 96-372 / Mutation: C252S 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: 3.88 Å3/Da / Density % sol: 68.32 % | ||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 5.6 Details: sodium potassium tartrate, sodium citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ | ||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 108 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: BRANDEIS - B4 / Detector: CCD / Date: Oct 13, 2000 / Details: mirrors |
Radiation | Monochromator: Si (111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9789 Å / Relative weight: 1 |
Reflection | Resolution: 3.8→50 Å / Num. all: 33824 / Num. obs: 32000 / % possible obs: 84.9 % / Observed criterion σ(F): -3 / Observed criterion σ(I): -3 / Rmerge(I) obs: 0.132 / Rsym value: 0.132 / Net I/σ(I): 9.8 |
Reflection shell | Resolution: 3.8→3.94 Å / Rmerge(I) obs: 0.468 / Mean I/σ(I) obs: 2 / Rsym value: 0.468 / % possible all: 92.5 |
Reflection | *PLUS Lowest resolution: 50 Å / % possible obs: 95.5 % |
Reflection shell | *PLUS % possible obs: 92.5 % |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1FT8 Resolution: 3.8→8 Å / Isotropic thermal model: Isotropic / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 3.8→8 Å
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Software | *PLUS Name: CNS / Version: 1 / Classification: refinement | |||||||||||||||||||||||||
Refinement | *PLUS σ(F): 0 / % reflection Rfree: 3 % / Rfactor obs: 0.317 | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||
Refine LS restraints | *PLUS
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