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- PDB-8btm: Structural and functional studies of geldanamycin amide synthase ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 8btm | ||||||
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Title | Structural and functional studies of geldanamycin amide synthase ShGdmF | ||||||
![]() | GdmF | ||||||
![]() | BIOSYNTHETIC PROTEIN / amide synthase / geldanamycin / amidase / alpha-beta | ||||||
Function / homology | Arylamine N-acetyltransferase / N-acetyltransferase / arylamine N-acetyltransferase activity / Papain-like cysteine peptidase superfamily / ACETATE ION / GdmF![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Ewert, W. / Zeilinger, C. / Kirschning, A. / Preller, M. | ||||||
Funding support | 1items
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![]() | ![]() Title: Structural and functional studies of geldanamycin amide synthase ShGdmF Authors: Ewert, W. / Bartens, C. / Heutling, A. / Ongouta, J. / Vogt, M. / Kishore, A. / Zeilinger, C. / Preller, M. / Kirschning, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 114.2 KB | Display | ![]() |
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PDB format | ![]() | 87.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 445.5 KB | Display | ![]() |
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Full document | ![]() | 445.7 KB | Display | |
Data in XML | ![]() | 12.4 KB | Display | |
Data in CIF | ![]() | 17.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8oomC ![]() 8osvC ![]() 8oszC ![]() 8ot2C C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 29931.533 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() | ||||||
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#2: Chemical | #3: Chemical | ChemComp-ACT / | #4: Water | ChemComp-HOH / | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.53 Å3/Da / Density % sol: 51.48 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 100 mM HEPES, pH 7.5, 25% PEG4000, 150 mM sodium acetate, 200 mM lithium sulfate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 9M / Detector: PIXEL / Date: Sep 28, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 1.4→48.28 Å / Num. obs: 60070 / % possible obs: 99.94 % / Redundancy: 13.3 % / Biso Wilson estimate: 17.47 Å2 / CC1/2: 1 / Rmerge(I) obs: 0.0546 / Net I/σ(I): 25.56 |
Reflection shell | Resolution: 1.4→1.45 Å / Rmerge(I) obs: 1.139 / Mean I/σ(I) obs: 2 / Num. unique obs: 5911 / CC1/2: 0.825 / % possible all: 99.88 |
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Processing
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Refinement | Method to determine structure: ![]() Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 23.94 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.4→48.28 Å
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Refine LS restraints |
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LS refinement shell |
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