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- PDB-6f8d: Crystal structure of Human ARS2 residues 171-270 + 408-763 (P65 form) -
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Open data
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Basic information
Entry | Database: PDB / ID: 6f8d | ||||||
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Title | Crystal structure of Human ARS2 residues 171-270 + 408-763 (P65 form) | ||||||
![]() | (Serrate RNA effector molecule homolog) x 2 | ||||||
![]() | RNA BINDING PROTEIN | ||||||
Function / homology | ![]() mRNA cap binding complex binding / neuronal stem cell population maintenance / primary miRNA processing / response to arsenic-containing substance / positive regulation of neurogenesis / RNA polymerase II transcribes snRNA genes / mRNA Splicing - Major Pathway / mRNA processing / protein-macromolecule adaptor activity / nuclear body ...mRNA cap binding complex binding / neuronal stem cell population maintenance / primary miRNA processing / response to arsenic-containing substance / positive regulation of neurogenesis / RNA polymerase II transcribes snRNA genes / mRNA Splicing - Major Pathway / mRNA processing / protein-macromolecule adaptor activity / nuclear body / ribonucleoprotein complex / regulation of DNA-templated transcription / protein-containing complex / DNA binding / RNA binding / nucleoplasm / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Cusack, S. / Schulze, W.M. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Structural analysis of human ARS2 as a platform for co-transcriptional RNA sorting. Authors: Schulze, W.M. / Stein, F. / Rettel, M. / Nanao, M. / Cusack, S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 173.1 KB | Display | ![]() |
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PDB format | ![]() | 137.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 458.2 KB | Display | ![]() |
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Full document | ![]() | 467.5 KB | Display | |
Data in XML | ![]() | 26.6 KB | Display | |
Data in CIF | ![]() | 35.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6f7jSC ![]() 6f7pC ![]() 6f7sC 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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1 | ![]()
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2 | ![]()
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
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Components
#1: Protein | Mass: 12027.658 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Details: Residues 271-407 were deleted.Residues 171-270 and 408-763 were co-expressed as separate pieces. Source: (gene. exp.) ![]() ![]() ![]() #2: Protein | Mass: 41169.176 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Details: Residues 271-407 were deleted.Residues 171-270 and 408-763 were co-expressed as separate pieces. Source: (gene. exp.) ![]() ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.01 Å3/Da / Density % sol: 69.34 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 10.5 Details: Crystals of ARS2 were obtained at 4 C in 2 microlitre hanging drops with a 1:1 ratio of protein solution (6 mg/ml in 20 mM HEPES, 300 mM NaCl, 2 mM tris(2-carboxyethyl)phosphine pH 7.8) to ...Details: Crystals of ARS2 were obtained at 4 C in 2 microlitre hanging drops with a 1:1 ratio of protein solution (6 mg/ml in 20 mM HEPES, 300 mM NaCl, 2 mM tris(2-carboxyethyl)phosphine pH 7.8) to crystallisation solution. The crystallisation solution was 1.2 M sodium dihydrogen phosphate, 0.8 M dipotassium hydrogen phosphate, 0.2 M lithium sulphate, 0.1 M CAPS pH 10.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M-F / Detector: PIXEL / Date: Feb 14, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.984 Å / Relative weight: 1 |
Reflection | Resolution: 3.48→91.11 Å / Num. obs: 20970 / % possible obs: 97.9 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.12 % / CC1/2: 0.997 / Rsym value: 0.114 / Net I/σ(I): 8.71 |
Reflection shell | Resolution: 3.48→3.57 Å / Redundancy: 2.98 % / Mean I/σ(I) obs: 0.8 / CC1/2: 0.253 / Rsym value: 1.617 / % possible all: 86.6 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6F7J Resolution: 3.48→91.11 Å / Cor.coef. Fo:Fc: 0.916 / Cor.coef. Fo:Fc free: 0.897 / SU B: 44.876 / SU ML: 0.614 / Cross valid method: THROUGHOUT / ESU R Free: 0.592 / 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: 1.2 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 160.658 Å2
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Refinement step | Cycle: 1 / Resolution: 3.48→91.11 Å
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Refine LS restraints |
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