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- PDB-1i6k: 1.7 HIGH RESOLUTION EXPERIMENTAL PHASES FOR TRYPTOPHANYL-TRNA SYN... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1i6k | ||||||
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Title | 1.7 HIGH RESOLUTION EXPERIMENTAL PHASES FOR TRYPTOPHANYL-TRNA SYNTHETASE COMPLEXED WITH TRYPTOPHANYL-5'AMP | ||||||
![]() | TRYPTOPHANYL- ... | ||||||
![]() | LIGASE / CLASS I TRNA SYNTHETASE / AARS / INDUCED FIT / TRPRS | ||||||
Function / homology | ![]() tryptophan-tRNA ligase / tryptophan-tRNA ligase activity / tryptophanyl-tRNA aminoacylation / ATP binding / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Retailleau, P. / Carter, C.W. | ||||||
![]() | ![]() Title: High-resolution experimental phases for tryptophanyl-tRNA synthetase (TrpRS) complexed with tryptophanyl-5'AMP. Authors: Retailleau, P. / Yin, Y. / Hu, M. / Roach, J. / Bricogne, G. / Vonrhein, C. / Roversi, P. / Blanc, E. / Sweet, R.M. / Carter, C.W. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 84.2 KB | Display | ![]() |
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PDB format | ![]() | 69.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 794.1 KB | Display | ![]() |
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Full document | ![]() | 804.2 KB | Display | |
Data in XML | ![]() | 19.8 KB | Display | |
Data in CIF | ![]() | 29.8 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
-TRYPTOPHANYL- ... , 1 types, 1 molecules A
#1: Protein | Mass: 37694.621 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() |
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-Non-polymers , 5 types, 380 molecules ![](data/chem/img/SO4.gif)
![](data/chem/img/NH4.gif)
![](data/chem/img/TYM.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/NH4.gif)
![](data/chem/img/TYM.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-SO4 / #3: Chemical | ChemComp-NH4 / | #4: Chemical | ChemComp-TYM / | #5: Chemical | ChemComp-GOL / #6: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.42 Å3/Da / Density % sol: 48.87 % | |||||||||||||||||||||||||
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Crystal grow | Temperature: 310 K / Method: microdialysis / pH: 7.6 Details: POTASSIUM PHOSPHATE, AMMONIUM SULFATE, MAGNESIUM CHLORIDE, PEG 400, pH 7.60, MICRODIALYSIS, temperature 310K | |||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7.6 | |||||||||||||||||||||||||
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: BRANDEIS - B4 / Detector: CCD / Date: Jun 1, 1998 | ||||||||||||
Radiation | Protocol: MULTIPLE WAVELENGTHS / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 1.72→25 Å / Num. obs: 546675 / % possible obs: 94.5 % / Redundancy: 4.8 % / Rsym value: 0.083 / Net I/σ(I): 6.1 | ||||||||||||
Reflection | *PLUS Num. obs: 46732 / Redundancy: 2.43 % / Num. measured all: 546675 / Rmerge(I) obs: 0.083 | ||||||||||||
Reflection shell | *PLUS % possible obs: 80.9 % / Rmerge(I) obs: 0.354 |
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Processing
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Refinement | Method to determine structure: MULTIPLE ANOMALOUS Dispersion Resolution: 1.72→19.94 Å / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 1.72→19.94 Å
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Refine LS restraints |
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Software | *PLUS Name: BUSTER/TNT / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Num. reflection obs: 32467 / σ(I): 3 / % reflection Rfree: 10 % / Rfactor all: 0.233 / Rfactor obs: 0.211 | |||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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