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- PDB-1ybh: Crystal structure of Arabidopsis thaliana Acetohydroxyacid syntha... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1ybh | ||||||
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Title | Crystal structure of Arabidopsis thaliana Acetohydroxyacid synthase In Complex With A Sulfonylurea Herbicide Chlorimuron Ethyl | ||||||
![]() | Acetolactate synthase, chloroplast | ||||||
![]() | TRANSFERASE / Acetohydroxyacid synthase / acetolactate synthase / herbicide / sulfonylurea / thiamin diphosphate / FAD / inhibitor / cysteine-s-dioxide / CHES | ||||||
Function / homology | ![]() acetolactate synthase / acetolactate synthase complex / acetolactate synthase activity / valine biosynthetic process / isoleucine biosynthetic process / response to herbicide / thiamine pyrophosphate binding / chloroplast stroma / amino acid biosynthetic process / chloroplast ...acetolactate synthase / acetolactate synthase complex / acetolactate synthase activity / valine biosynthetic process / isoleucine biosynthetic process / response to herbicide / thiamine pyrophosphate binding / chloroplast stroma / amino acid biosynthetic process / chloroplast / flavin adenine dinucleotide binding / magnesium ion binding / mitochondrion Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | McCourt, J.A. / Pang, S.S. / King-Scott, J. / Guddat, L.W. / Duggleby, R.G. | ||||||
![]() | ![]() Title: Herbicide-binding sites revealed in the structure of plant acetohydroxyacid synthase Authors: McCourt, J.A. / Pang, S.S. / King-Scott, J. / Guddat, L.W. / Duggleby, R.G. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 138.5 KB | Display | ![]() |
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PDB format | ![]() | 102.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.1 MB | Display | ![]() |
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Full document | ![]() | 1.1 MB | Display | |
Data in XML | ![]() | 28.1 KB | Display | |
Data in CIF | ![]() | 39.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1yhyC ![]() 1yhzC ![]() 1yi0C ![]() 1yi1C ![]() 1z8nC ![]() 1n0hS 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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Details | The biological unit is a tetramer |
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Components
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 64591.664 Da / Num. of mol.: 1 / Fragment: Residues 86-670 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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-Non-polymers , 6 types, 290 molecules ![](data/chem/img/MG.gif)
![](data/chem/img/CIE.gif)
![](data/chem/img/NHE.gif)
![](data/chem/img/FAD.gif)
![](data/chem/img/P22.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/CIE.gif)
![](data/chem/img/NHE.gif)
![](data/chem/img/FAD.gif)
![](data/chem/img/P22.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-MG / |
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#3: Chemical | ChemComp-CIE / |
#4: Chemical | ChemComp-NHE / |
#5: Chemical | ChemComp-FAD / |
#6: Chemical | ChemComp-P22 / |
#7: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 6.6 Å3/Da / Density % sol: 80.6 % |
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Crystal grow | Temperature: 290 K / Method: vapor diffusion, hanging drop Details: Tris, FAD, DTT, ThDP, magnesium chloride, chlorimuron ethyl, CHES, lithium sulfate, potassium sodium tartrate, pH 9.0-9.8, VAPOR DIFFUSION, HANGING DROP, temperature 290K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Dec 12, 2003 / Details: mirrors |
Radiation | Monochromator: GE(III) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→50 Å / Num. obs: 59390 / % possible obs: 98.9 % / Observed criterion σ(F): 0 / Observed criterion σ(I): -3 / Redundancy: 8.3 % / Rmerge(I) obs: 0.056 / Rsym value: 0.056 / Net I/σ(I): 24.3 |
Reflection shell | Resolution: 2.5→2.59 Å / Redundancy: 4.4 % / Mean I/σ(I) obs: 4.1 / Num. unique all: 5770 / % possible all: 97.2 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: pdb entry 1N0H Resolution: 2.5→50 Å / Isotropic thermal model: Isotropic / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 51.045 Å2 | |||||||||||||||||||||||||
Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.5→50 Å
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LS refinement shell | Resolution: 2.5→2.59 Å
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