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Open data
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Basic information
Entry | Database: PDB / ID: 1s0v | ||||||
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Title | Structural basis for substrate selection by T7 RNA polymerase | ||||||
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![]() | Transferase/DNA-RNA HYBRID / T7 RNA polymerase / DNA / RNA / RIKEN Structural Genomics/Proteomics Initiative / RSGI / Structural Genomics / Transferase-DNA-RNA COMPLEX / Transferase-DNA-RNA HYBRID complex | ||||||
Function / homology | ![]() DNA-templated viral transcription / mitochondrial promoter sequence-specific DNA binding / DNA-directed RNA polymerase complex / DNA-directed 5'-3' RNA polymerase activity / DNA-directed RNA polymerase / DNA-templated transcription Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Temiakov, D. / Patlan, V. / Anikin, M. / McAllister, W.T. / Yokoyama, S. / Vassylyev, D.G. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
![]() | ![]() Title: Structural basis for substrate selection by t7 RNA polymerase. Authors: Temiakov, D. / Patlan, V. / Anikin, M. / McAllister, W.T. / Yokoyama, S. / Vassylyev, D.G. #1: ![]() Title: Structure of a T7 RNA polymerase elongation complex at 2.9 A resolution. Authors: Tahirov, T.H. / Temiakov, D. / Anikin, M. / Patlan, V. / G Vassylyev, D. / McAllister, W.T. / Yokoyama, S. #2: ![]() Title: Crystallization and preliminary crystallographic analysis of T7 RNA polymerase elongation complex Authors: Temiakov, D. / Tahirov, T.H. / Anikin, M. / McAllister, W.T. / Vassylyev, D.G. / Yokoyama, S. | ||||||
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 783.6 KB | Display | ![]() |
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PDB format | ![]() | 622.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.7 MB | Display | ![]() |
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Full document | ![]() | 2.1 MB | Display | |
Data in XML | ![]() | 197.5 KB | Display | |
Data in CIF | ![]() | 268.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1h83S S: Starting model for refinement |
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Similar structure data | |
Other databases |
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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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3 | ![]()
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4 | ![]()
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Unit cell |
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Components
-DNA chain , 2 types, 8 molecules EHKNGJMP
#1: DNA chain | Mass: 5541.591 Da / Num. of mol.: 4 / Source method: obtained synthetically / Details: DNA Template strand #3: DNA chain | Mass: 2995.967 Da / Num. of mol.: 4 / Source method: obtained synthetically / Details: DNA Non-template strand |
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-RNA chain / Protein , 2 types, 8 molecules FILOABCD
#2: RNA chain | Mass: 3851.360 Da / Num. of mol.: 4 / Source method: obtained synthetically / Details: RNA transcript #4: Protein | Mass: 98984.227 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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-Non-polymers , 3 types, 1011 molecules ![](data/chem/img/MG.gif)
![](data/chem/img/APC.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/APC.gif)
![](data/chem/img/HOH.gif)
#5: Chemical | ChemComp-MG / #6: Chemical | ChemComp-APC / #7: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.28 Å3/Da / Density % sol: 62.22 % | ||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 293 K / Method: vapor diffusion, sitting dropDetails: Temiakov, D., (2003) Acta Crystallogr.,Sect.D, 59, 185. | ||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Source: ![]() ![]() ![]() ![]() ![]() |
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Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 3→40 Å / Num. all: 106154 / Num. obs: 94902 / % possible obs: 89.4 % / Observed criterion σ(F): -1 / Observed criterion σ(I): -1 |
Reflection shell | Resolution: 3→3.11 Å / % possible all: 83.9 |
Reflection | *PLUS Lowest resolution: 40 Å / Num. measured all: 229915 / Rmerge(I) obs: 0.084 |
Reflection shell | *PLUS % possible obs: 83.9 % / Rmerge(I) obs: 0.461 / Mean I/σ(I) obs: 2.3 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1H83 Resolution: 3.2→40 Å / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 3.2→40 Å
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Refinement | *PLUS Lowest resolution: 40 Å / % reflection Rfree: 4 % | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS
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