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- PDB-5mlt: Structural characterization of a carbohydrate substrate binding p... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5mlt | ||||||
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Title | Structural characterization of a carbohydrate substrate binding protein from Streptococcus pneumoniae | ||||||
![]() | ABC transporter, substrate-binding protein![]() | ||||||
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Function / homology | ![]() external side of cell wall / carbohydrate import across plasma membrane / protein homotrimerization / ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing / protein homotetramerization / protein homodimerization activity / zinc ion binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Culurgioni, S. / Tang, M. / Walsh, M.A. | ||||||
![]() | ![]() Title: Structural characterization of the Streptococcus pneumoniae carbohydrate substrate-binding protein SP0092. Authors: Culurgioni, S. / Tang, M. / Walsh, M.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 108.9 KB | Display | ![]() |
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PDB format | ![]() | 86.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Components
#1: Protein | ![]() Mass: 51269.492 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: SP_0092 / Production host: ![]() ![]() ![]() | ||
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#2: Chemical | #3: Water | ChemComp-HOH / | ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.27 Å3/Da / Density % sol: 45.91 % |
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Crystal grow![]() | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 0.02 M Mes pH 6.5, 0.2 M NaCl, 2.5% glycerol and 0.5 mM TCEP |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Sep 21, 2016 / Details: KB mirrors |
Radiation | Monochromator: Si (111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.61→49.64 Å / Num. obs: 62913 / % possible obs: 99.9 % / Redundancy: 6.6 % / Biso Wilson estimate: 20.01 Å2 / CC1/2: 0.999 / Rmerge(I) obs: 0.023 / Rsym value: 0.028 / Net I/av σ(I): 6.7 / Net I/σ(I): 16.4 |
Reflection shell | Resolution: 1.61→1.65 Å / Redundancy: 6.9 % / Rmerge(I) obs: 0.443 / Mean I/σ(I) obs: 4 / CC1/2: 0.578 / % possible all: 99.6 |
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Processing
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Refinement | Method to determine structure![]() ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.3 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 25.227 Å2
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Refinement step | Cycle: 1 / Resolution: 1.61→49.64 Å
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Refine LS restraints |
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