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- PDB-1oys: Crystal Structure of the Phosphorolytic Exoribonuclease RNase PH ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1oys | ||||||
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Title | Crystal Structure of the Phosphorolytic Exoribonuclease RNase PH from Bacillus subtilis | ||||||
![]() | Ribonuclease PH | ||||||
![]() | TRANSFERASE / tRNA processing | ||||||
Function / homology | ![]() tRNA nucleotidyltransferase / tRNA nucleotidyltransferase activity / rRNA 3'-end processing / cytoplasmic exosome (RNase complex) / poly(A)-dependent snoRNA 3'-end processing / U4 snRNA 3'-end processing / : / rRNA catabolic process / tRNA processing / 3'-5'-RNA exonuclease activity / tRNA binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Harlow, L.S. / Kadziola, A. / Jensen, K.F. / Larsen, S. | ||||||
![]() | ![]() Title: Crystal structure of the phosphorolytic exoribonuclease RNase PH from Bacillus subtilis and implications for its quaternary structure and tRNA binding. Authors: Harlow, L.S. / Kadziola, A. / Jensen, K.F. / Larsen, 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 | ![]() | 49.8 KB | Display | ![]() |
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PDB format | ![]() | 36.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 423.1 KB | Display | ![]() |
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Full document | ![]() | 426.6 KB | Display | |
Data in XML | ![]() | 9.7 KB | Display | |
Data in CIF | ![]() | 12 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 26626.244 Da / Num. of mol.: 1 / Mutation: R68Q,R73Q,R76Q 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: 4.47 Å3/Da / Density % sol: 72.29 % | ||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 20 ℃ / pH: 6.2 / Method: vapor diffusion, sitting drop | ||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 2.4→20 Å / Num. obs: 16768 |
Reflection | *PLUS Lowest resolution: 20 Å / % possible obs: 98.8 % / Redundancy: 4.4 % / Rmerge(I) obs: 0.047 |
Reflection shell | *PLUS Highest resolution: 2.4 Å / Lowest resolution: 2.44 Å / % possible obs: 100 % / Redundancy: 5.5 % / Num. unique obs: 817 / Rmerge(I) obs: 0.206 / Mean I/σ(I) obs: 7 |
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Processing
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Refinement | Method to determine structure: ![]()
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Refinement step | Cycle: LAST / Resolution: 2.4→20 Å
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Refine LS restraints |
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Refinement | *PLUS Lowest resolution: 20 Å / % reflection Rfree: 5 % / Rfactor Rfree: 0.284 / Rfactor Rwork: 0.258 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS |