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- PDB-6kfm: Amino-transferase (AMT) Domain of Hybrid Polyketide/Non-Ribosomal... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6kfm | ||||||
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Title | Amino-transferase (AMT) Domain of Hybrid Polyketide/Non-Ribosomal Peptide Synthetase | ||||||
![]() | Mycosubtilin synthase subunit A | ||||||
![]() | TRANSFERASE / Amino-transferase / Hybrid Polyketide/Non-Ribosomal Peptide Synthetase | ||||||
Function / homology | ![]() amino acid activation for nonribosomal peptide biosynthetic process / transaminase activity / secondary metabolite biosynthetic process / ligase activity / phosphopantetheine binding / 3-oxoacyl-[acyl-carrier-protein] synthase activity / antibiotic biosynthetic process / Transferases; Acyltransferases; Transferring groups other than aminoacyl groups / fatty acid biosynthetic process / pyridoxal phosphate binding / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Tian, Q.W. / Jiang, T. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Structure Insights into the Molecular Mechanism of Two Tailoring Domains of Hybrid Polyketide/Non-Ribosomal Peptide Synthetase Authors: Tian, Q.W. / Jiang, T. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 203.5 KB | Display | ![]() |
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PDB format | ![]() | 157.7 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 | ![]() | 39.4 KB | Display | |
Data in CIF | ![]() | 59.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6ketC ![]() 6kfrC ![]() 6kfuC ![]() 5hdmS C: citing same article ( S: Starting model for refinement |
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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
#1: Protein | Mass: 51454.594 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() References: UniProt: Q9R9J1, Transferases; Acyltransferases; Transferring groups other than aminoacyl groups #2: Chemical | #3: Chemical | #4: Water | ChemComp-HOH / | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.43 Å3/Da / Density % sol: 49.31 % |
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Crystal grow | Temperature: 312 K / Method: vapor diffusion, hanging drop / pH: 6.7 Details: 10 mM MgCl2, 5 mM NiCl, 0.1 M HEPES, pH 6.7, 18% (v/v) PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: Oct 23, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9789 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→50 Å / Num. obs: 110351 / % possible obs: 99.9 % / Redundancy: 13 % / Biso Wilson estimate: 20.88 Å2 / CC1/2: 0.993 / Rpim(I) all: 0.03 / Rrim(I) all: 0.111 / Χ2: 0.928 / Net I/σ(I): 27.2 |
Reflection shell | Resolution: 1.7→1.73 Å / Redundancy: 11.4 % / Mean I/σ(I) obs: 3 / Num. unique obs: 5395 / CC1/2: 0.87 / Rpim(I) all: 0.231 / Rrim(I) all: 0.811 / Χ2: 0.808 / % possible all: 98.8 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5HDM Resolution: 1.7→45.23 Å / Cross valid method: FREE R-VALUE
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Displacement parameters | Biso mean: 14.73 Å2 | ||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.7→45.23 Å
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LS refinement shell | Resolution: 1.7→1.761 Å
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