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- PDB-6l2z: IlvC, a ketol-acid reductoisomerase, from Streptococcus pnuemonia... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6l2z | |||||||||||||||
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Title | IlvC, a ketol-acid reductoisomerase, from Streptococcus pnuemoniae_D191G | |||||||||||||||
![]() | Ketol-acid reductoisomerase (NADP(+)) | |||||||||||||||
![]() | ISOMERASE / IlvC / Stereptococcus pneumoniae / BCAA pathway / ketol-acid reductoisomerase / D191G | |||||||||||||||
Function / homology | ![]() ketol-acid reductoisomerase (NADP+) / ketol-acid reductoisomerase activity / valine biosynthetic process / isoleucine biosynthetic process / amino acid biosynthetic process / NADP binding / magnesium ion binding / cytosol Similarity search - Function | |||||||||||||||
Biological species | ![]() | |||||||||||||||
Method | ![]() ![]() ![]() | |||||||||||||||
![]() | Gyuhee, K. / Donghyuk, S. / Sumin, L. / Jaesook, Y. / Sangho, L. | |||||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Crystal Structure of IlvC, a Ketol-Acid Reductoisomerase, from Streptococcus Pneumoniae. Authors: Kim, G.H. / Shin, D.H. / Lee, S.M. / Yoon, J.S. / Lee, S.H. | |||||||||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 188.4 KB | Display | ![]() |
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PDB format | ![]() | 119.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 2.6 MB | Display | ![]() |
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Full document | ![]() | 2.6 MB | Display | |
Data in XML | ![]() | 32.1 KB | Display | |
Data in CIF | ![]() | 47.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6l2iSC ![]() 6l2kC ![]() 6l2rC ![]() 6l2sC 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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Unit cell |
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Components
-Protein , 1 types, 2 molecules AB
#1: Protein | Mass: 37334.195 Da / Num. of mol.: 2 / Mutation: D191G Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: D39 / NCTC 7466 / Gene: ilvC, SPD_0406 / Production host: ![]() ![]() References: UniProt: Q04M32, ketol-acid reductoisomerase (NADP+) |
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-Non-polymers , 5 types, 559 molecules ![](data/chem/img/NAP.gif)
![](data/chem/img/SO4.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/NH4.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/SO4.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/NH4.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | #3: Chemical | #4: Chemical | #5: Chemical | ChemComp-NH4 / | #6: Water | ChemComp-HOH / | |
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-Details
Has ligand of interest | Y |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.71 Å3/Da / Density % sol: 54.63 % |
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Crystal grow | Temperature: 288 K / Method: vapor diffusion, hanging drop Details: 0.1M HEPES pH 7.5, 0.1 M NaCl, 1.5 M ammonium sulfate, 15% glycerol |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: ADSC QUANTUM 270 / Detector: CCD / Date: Nov 7, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.02→23.87 Å / Num. obs: 52903 / % possible obs: 98.1 % / Redundancy: 13.2 % / Biso Wilson estimate: 28.86 Å2 / CC1/2: 0.996 / Net I/σ(I): 54.6 |
Reflection shell | Resolution: 2.02→2.09 Å / Num. unique obs: 2650 / CC1/2: 0.993 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6L2I Resolution: 2.02→23.87 Å / SU ML: 0.2029 / Cross valid method: FREE R-VALUE / σ(F): 1.35 / Phase error: 28.7558
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 33.85 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.02→23.87 Å
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Refine LS restraints |
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LS refinement shell |
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