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Open data
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Basic information
Entry | Database: PDB / ID: 1hl6 | ||||||
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Title | A novel mode of RBD-protein recognition in the Y14-mago complex | ||||||
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![]() | SIGNAL PROTEIN / RDB / EXON-EXON JUNCTION / OSKAR / RNP / NMD | ||||||
Function / homology | ![]() establishment of pole plasm mRNA localization / oocyte nucleus localization involved in oocyte dorsal/ventral axis specification / maintenance of pole plasm mRNA location / Transport of Mature mRNA derived from an Intron-Containing Transcript / mRNA 3'-end processing / RNA Polymerase II Transcription Termination / Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) / mRNA Splicing - Major Pathway / oocyte microtubule cytoskeleton polarization / oocyte anterior/posterior axis specification ...establishment of pole plasm mRNA localization / oocyte nucleus localization involved in oocyte dorsal/ventral axis specification / maintenance of pole plasm mRNA location / Transport of Mature mRNA derived from an Intron-Containing Transcript / mRNA 3'-end processing / RNA Polymerase II Transcription Termination / Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) / mRNA Splicing - Major Pathway / oocyte microtubule cytoskeleton polarization / oocyte anterior/posterior axis specification / oocyte microtubule cytoskeleton organization / pole plasm / germarium-derived oocyte fate determination / regulation of pole plasm oskar mRNA localization / pole plasm oskar mRNA localization / oocyte dorsal/ventral axis specification / pole plasm assembly / exon-exon junction complex / import into nucleus / NLS-dependent protein nuclear import complex / oogenesis / precatalytic spliceosome / mRNA transport / catalytic step 2 spliceosome / RNA splicing / protein localization / mRNA splicing, via spliceosome / microtubule cytoskeleton organization / mRNA binding / positive regulation of gene expression / RNA binding / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Fribourg, S. / Gatfield, D. / Yao, W. / Izaurralde, E. / Conti, E. | ||||||
![]() | ![]() Title: A Novel Mode of Rbd-Protein Recognition in the Y14-Mago Complex Authors: Fribourg, S. / Gatfield, D. / Izaurralde, E. / Conti, E. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 113.6 KB | Display | ![]() |
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PDB format | ![]() | 90.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 447.7 KB | Display | ![]() |
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Full document | ![]() | 463.9 KB | Display | |
Data in XML | ![]() | 22.6 KB | Display | |
Data in CIF | ![]() | 30.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-0.02464, 0.98232, -0.18559), Vector: |
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Components
#1: Protein | Mass: 19042.127 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Protein | Mass: 17590.105 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 55 % | ||||||||||||||||||
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Crystal grow | pH: 5.5 / Details: SODIUM CITRATE PH5.25 PEG 3000 12-20%, pH 5.50 | ||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / Method: vapor diffusion | ||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: May 15, 2002 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.933 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→30 Å / Num. obs: 23227 / % possible obs: 99.4 % / Observed criterion σ(I): 2 / Redundancy: 4.1 % / Rmerge(I) obs: 0.05 / Net I/σ(I): 10.7 |
Reflection shell | Resolution: 2.5→2.6 Å / Redundancy: 4.2 % / Rmerge(I) obs: 0.325 / Mean I/σ(I) obs: 2.3 / % possible all: 99.4 |
Reflection | *PLUS Lowest resolution: 30 Å / Rmerge(I) obs: 0.055 |
Reflection shell | *PLUS Lowest resolution: 2.64 Å / % possible obs: 99.4 % |
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Processing
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Refinement | Method to determine structure: ![]()
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Displacement parameters | Biso mean: 31.3477 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.5→30 Å
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Refine LS restraints |
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Refinement | *PLUS Lowest resolution: 30 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |