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- PDB-5mbu: CeuE (H227A, Y288F variant) a periplasmic protein from Campylobac... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5mbu | ||||||
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Title | CeuE (H227A, Y288F variant) a periplasmic protein from Campylobacter jejuni | ||||||
![]() | (Enterochelin uptake periplasmic binding protein) x 2 | ||||||
![]() | METAL TRANSPORT / Periplasmic / Iron-Uptake / Tetradentate / Siderophore / mutation | ||||||
Function / homology | ![]() outer membrane-bounded periplasmic space / iron ion transport / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Wilde, E.J. / Blagova, E.V. / Hughes, A. / Raines, D.J. / Moroz, O.V. / Turkenburg, J.P. / Duhme-Klair, A.-K. / Wilson, K.S. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Interactions of the periplasmic binding protein CeuE with Fe(III) n-LICAM(4-) siderophore analogues of varied linker length. Authors: Wilde, E.J. / Hughes, A. / Blagova, E.V. / Moroz, O.V. / Thomas, R.P. / Turkenburg, J.P. / Raines, D.J. / Duhme-Klair, A.K. / Wilson, K.S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 171.6 KB | Display | ![]() |
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PDB format | ![]() | 132.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 5a5dC ![]() 5a5vC ![]() 5ad1C ![]() 5lwhC ![]() 5lwqC ![]() 5mbqC ![]() 5mbtC ![]() 5tcyC ![]() 3zkwS 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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1 | ![]()
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2 | ![]()
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3 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 31998.920 Da / Num. of mol.: 2 / Mutation: H227A Y288F Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Protein | | Mass: 31998.920 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.4 Å3/Da / Density % sol: 48.8 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 9 / Details: =0.1M SPG, pH 9.0; 25% Peg1500. |
-Data collection
Diffraction | Mean temperature: 110 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Apr 30, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 1.81→65.8 Å / Num. obs: 77003 / % possible obs: 95.9 % / Redundancy: 3.4 % / CC1/2: 0.996 / Rmerge(I) obs: 0.074 / Net I/σ(I): 8.8 |
Reflection shell | Resolution: 1.81→1.85 Å / Redundancy: 3.3 % / Rmerge(I) obs: 0.779 / Mean I/σ(I) obs: 1.6 / CC1/2: 0.599 / % possible all: 96.2 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3zkw Resolution: 1.81→65.8 Å / Cor.coef. Fo:Fc: 0.96 / Cor.coef. Fo:Fc free: 0.942 / SU B: 4.096 / SU ML: 0.119 / Cross valid method: THROUGHOUT / ESU R: 0.137 / ESU R Free: 0.132 / Details: HYDROGENS HAVE BEEN ADDED IN THE 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 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 34.448 Å2
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Refinement step | Cycle: 1 / Resolution: 1.81→65.8 Å
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Refine LS restraints |
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