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Open data
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Basic information
Entry | Database: PDB / ID: 7nsw | ||||||
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Title | The structure of the SBP TarP_Csal in complex with coumarate | ||||||
![]() | TRAP dicarboxylate transporter-DctP subunit | ||||||
![]() | TRANSPORT PROTEIN / TRAP transporter / solute binding protein / periplasmic / hydroxycinnamate / lignin | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Bisson, C. / Salmon, R.C. / West, L. / Rafferty, J.B. / Hitchcock, A. / Thomas, G.H. / Kelly, D.J. | ||||||
Funding support | 1items
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![]() | ![]() Title: The structural basis for high-affinity uptake of lignin-derived aromatic compounds by proteobacterial TRAP transporters. Authors: Bisson, C. / Salmon, R.C. / West, L. / Rafferty, J.B. / Hitchcock, A. / Thomas, G.H. / Kelly, D.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 149.9 KB | Display | ![]() |
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PDB format | ![]() | Display | ![]() | |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 7nqgC ![]() 7nr2C ![]() 7nraC ![]() 7nrrSC ![]() 7ntdC ![]() 7nteC 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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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 37303.809 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Details: C-terminal 6xHis tag and linker region. Source: (gene. exp.) ![]() Strain: ATCC BAA-138 / DSM 3043 / CIP 106854 / NCIMB 13768 / 1H11 Gene: Csal_0280 / Production host: ![]() ![]() #2: Chemical | ChemComp-EDO / | #3: Chemical | #4: Chemical | #5: 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: 2.05 Å3/Da / Density % sol: 39.97 % |
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Crystal grow | Temperature: 290 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 0.2 M MgCl2, 0.1 M Hepes pH 7.0 and 25 % (w/v) PEG 6000 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: May 2, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.91731 Å / Relative weight: 1 |
Reflection | Resolution: 1.67→34.25 Å / Num. obs: 71530 / % possible obs: 99.6 % / Redundancy: 7.1 % / Rmerge(I) obs: 0.114 / Rpim(I) all: 0.049 / Net I/σ(I): 9.8 |
Reflection shell | Resolution: 1.67→1.71 Å / Redundancy: 6.1 % / Rmerge(I) obs: 1.145 / Mean I/σ(I) obs: 1.4 / Num. unique obs: 5218 / Rpim(I) all: 0.56 / % possible all: 99.4 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 7NRR Resolution: 1.67→34.25 Å / Cor.coef. Fo:Fc: 0.965 / Cor.coef. Fo:Fc free: 0.943 / SU B: 3.778 / SU ML: 0.114 / Cross valid method: FREE R-VALUE / ESU R: 0.114 / ESU R Free: 0.12 Details: Hydrogens have been added in their riding positions
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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 BULK SOLVENT | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 25.282 Å2
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Refinement step | Cycle: LAST / Resolution: 1.67→34.25 Å
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Refine LS restraints |
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LS refinement shell |
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