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Yorodumi- PDB-3osr: Maltose-bound maltose sensor engineered by insertion of circularl... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3osr | |||||||||
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Title | Maltose-bound maltose sensor engineered by insertion of circularly permuted green fluorescent protein into E. coli maltose binding protein at position 311 | |||||||||
Components | Maltose-binding periplasmic protein,Green fluorescent protein | |||||||||
Keywords | FLUORESCENT PROTEIN / Transport Protein / Engineered Protein / Sensor Protein / MBP / GFP / Maltose Sensor | |||||||||
Function / homology | Function and homology information carbohydrate transmembrane transporter activity / bioluminescence / generation of precursor metabolites and energy / outer membrane-bounded periplasmic space Similarity search - Function | |||||||||
Biological species | Escherichia coli O157:H7 (bacteria) Aequorea victoria (jellyfish) | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2 Å | |||||||||
Authors | Echevarria, I.M. / Marvin, J.S. / Looger, L.L. / Schreiter, E.R. | |||||||||
Citation | Journal: Proteins / Year: 2011 Title: A genetically encoded, high-signal-to-noise maltose sensor. Authors: Marvin, J.S. / Schreiter, E.R. / Echevarria, I.M. / Looger, L.L. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3osr.cif.gz | 484.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3osr.ent.gz | 396.8 KB | Display | PDB format |
PDBx/mmJSON format | 3osr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/os/3osr ftp://data.pdbj.org/pub/pdb/validation_reports/os/3osr | HTTPS FTP |
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-Related structure data
Related structure data | 3osqC 1anfS 3ek4S C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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Unit cell |
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-Components
#1: Protein | Mass: 72675.812 Da / Num. of mol.: 2 Fragment: GFP P42212 residues 2-146, 147-238, MBP P0AEX9 residues 27-199, 201-396 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli O157:H7 (bacteria), (gene. exp.) Aequorea victoria (jellyfish) Gene: malE, Z5632, ECs5017, GFP / Plasmid: pRSET / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P0AEY0, UniProt: P42212 #2: Polysaccharide | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.49 Å3/Da / Density % sol: 50.53 % |
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Crystal grow | Temperature: 296 K / Method: vapor diffusion / pH: 4.6 Details: 0.1 M Sodium acetate pH 4.6, 8% w/v polyethylene glycol 4000, VAPOR DIFFUSION, temperature 296K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 31-ID / Wavelength: 0.9793 Å |
Detector | Type: RAYONIX MX225HE / Detector: CCD / Date: Jul 2, 2010 |
Radiation | Monochromator: Diamond (111) double crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 |
Reflection | Resolution: 2→34.24 Å / Num. obs: 96467 / % possible obs: 100 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 5.7 % / Biso Wilson estimate: 19.5 Å2 / Rmerge(I) obs: 0.118 / Net I/σ(I): 11.4 |
Reflection shell | Resolution: 2→2.11 Å / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB entries 3EK4, 1ANF Resolution: 2→34.24 Å / Cor.coef. Fo:Fc: 0.945 / Cor.coef. Fo:Fc free: 0.919 / SU B: 8.508 / SU ML: 0.11 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R Free: 0.153 / Stereochemistry target values: Engh & Huber / 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: 1.4 Å / Solvent model: MASK | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 23.638 Å2
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Refinement step | Cycle: LAST / Resolution: 2→34.24 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.052 Å / Total num. of bins used: 20
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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