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- PDB-5b0l: Structure of MoeN5-Sso7d fusion protein in complex with beta-nony... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5b0l | ||||||
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Title | Structure of MoeN5-Sso7d fusion protein in complex with beta-nonyl glucoside | ||||||
![]() | MoeN5,DNA-binding protein 7d | ||||||
![]() | TRANSFERASE / DNA BINDING PROTEIN / prenyltransferase / alpha-helical fold / complex / fusion tag | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Ko, T.-P. / Zhang, L. / Chen, C.-C. / Guo, R.-T. / Oldfield, E.O. | ||||||
![]() | ![]() Title: Moenomycin Biosynthesis: Structure and Mechanism of Action of the Prenyltransferase MoeN5. Authors: Zhang, L. / Chen, C.C. / Ko, T.P. / Huang, J.W. / Zheng, Y. / Liu, W. / Wang, I. / Malwal, S.R. / Feng, X. / Wang, K. / Huang, C.H. / Hsu, S.T. / Wang, A.H. / Oldfield, E. / Guo, R.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 | ![]() | 483.9 KB | Display | ![]() |
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PDB format | ![]() | 396.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 2.8 MB | Display | ![]() |
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Full document | ![]() | 2.9 MB | Display | |
Data in XML | ![]() | 105.3 KB | Display | |
Data in CIF | ![]() | 145.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5b00C ![]() 5b02SC ![]() 5b03C ![]() 5b0iC ![]() 5b0jC ![]() 5b0kC ![]() 5b0mC 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 on special symmetry positions |
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Components
#1: Protein | Mass: 37581.781 Da / Num. of mol.: 8 Source method: isolated from a genetically manipulated source Details: The fusion protein of prenyltransferase (RESIDUES 1-260), linker AGAGA (RESIDUES 261-265) and Sso7d (RESIDUES 266-329) Source: (gene. exp.) ![]() ![]() ![]() Gene: moeN5, sso7d, sso7d-1, SSO10610 / Strain: ATCC 35092 / DSM 1617 / JCM 11322 / P2 / Production host: ![]() ![]() #2: Sugar | ChemComp-BNG / #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.68 Å3/Da / Density % sol: 54.06 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 8.1 Details: 0.2M Li3-citrate, 0.3M NaCl, 25% PEG 3350, 1% beta-nonyl-D-glucoside |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Jul 14, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.8→25 Å / Num. obs: 79481 / % possible obs: 100 % / Redundancy: 7.1 % / Rmerge(I) obs: 0.081 / Net I/σ(I): 20.6 |
Reflection shell | Resolution: 2.8→2.9 Å / Redundancy: 7.3 % / Rmerge(I) obs: 0.415 / Mean I/σ(I) obs: 3.5 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5B02 Resolution: 2.8→25 Å / Cross valid method: THROUGHOUT
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Refine analyze | Luzzati coordinate error obs: 0.27 Å / Luzzati d res low obs: 5 Å / Luzzati sigma a obs: 0.34 Å | ||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.8→25 Å
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LS refinement shell | Resolution: 2.8→2.9 Å / Rfactor Rfree: 0.322 / Rfactor Rwork: 0.247 |