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- PDB-7c7m: The structure of SAM-bound CntL, an aminobutyrate transferase in ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7c7m | ||||||
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Title | The structure of SAM-bound CntL, an aminobutyrate transferase in staphylopine biosysnthesis | ||||||
![]() | Staphylopine biosynthesis enzyme CntL | ||||||
![]() | TRANSFERASE / Metallophore / Biosynthesis / Substrate / Aminobutyrate | ||||||
Function / homology | nicotianamine synthase activity / nicotianamine biosynthetic process / Nicotianamine synthase / S-adenosyl-L-methionine-dependent methyltransferase superfamily / S-ADENOSYLMETHIONINE / D-histidine (S)-2-aminobutanoyltransferase CntL![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Luo, Z. / Luo, S. / Zhou, H. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Structural insights into the ligand recognition and catalysis of the key aminobutanoyltransferase CntL in staphylopine biosynthesis. Authors: Luo, Z. / Luo, S. / Ju, Y. / Ding, P. / Xu, J. / Gu, Q. / Zhou, 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 | ![]() | 67.5 KB | Display | ![]() |
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PDB format | ![]() | 51.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.2 MB | Display | ![]() |
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Full document | ![]() | 1.2 MB | Display | |
Data in XML | ![]() | 13 KB | Display | |
Data in CIF | ![]() | 18.5 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 on special symmetry positions |
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Components
#1: Protein | Mass: 32582.947 Da / Num. of mol.: 1 / Mutation: A119T Source method: isolated from a genetically manipulated source Details: M(INITIATING METHIONINE)GSSHHHHHHSS G(EXPRESSION TAG) Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() References: UniProt: A0A391FC11 | ||||||
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#2: Chemical | #3: Chemical | ChemComp-SAM / | #4: Water | ChemComp-HOH / | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.82 Å3/Da / Density % sol: 32.45 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop / Details: 0.1 M Bis-Tris pH 5.5, 2.0 M Ammonium sulfate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Dec 10, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.81→48.27 Å / Num. obs: 22386 / % possible obs: 99.8 % / Redundancy: 12.8 % / CC1/2: 0.999 / Rmerge(I) obs: 0.088 / Net I/σ(I): 21.4 |
Reflection shell | Resolution: 1.81→1.85 Å / Rmerge(I) obs: 0.56 / Num. unique obs: 1292 / CC1/2: 0.958 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 20.593 Å2
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Refinement step | Cycle: 1 / Resolution: 1.81→48.27 Å
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Refine LS restraints |
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