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- PDB-3czc: The Crystal Structure of a putative PTS IIB(PtxB) from Streptococ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3czc | ||||||
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Title | The Crystal Structure of a putative PTS IIB(PtxB) from Streptococcus mutans | ||||||
![]() | RmpB | ||||||
![]() | TRANSFERASE / alpha/beta sandwich / Phosphotransferase system / Transport | ||||||
Function / homology | ![]() protein-N(PI)-phosphohistidine-sugar phosphotransferase activity / phosphoenolpyruvate-dependent sugar phosphotransferase system Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lei, J. / Su, X.D. | ||||||
![]() | ![]() Title: Crystal structures of phosphotransferase system enzymes PtxB (IIB(Asc)) and PtxA (IIA(Asc)) from Streptococcus mutans Authors: Lei, J. / Li, L.F. / Su, X.D. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 27.6 KB | Display | ![]() |
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PDB format | ![]() | 20.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 420.1 KB | Display | ![]() |
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Full document | ![]() | 421.4 KB | Display | |
Data in XML | ![]() | 6.4 KB | Display | |
Data in CIF | ![]() | 7.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related 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
#1: Protein | Mass: 11908.539 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() References: UniProt: Q93DB0, protein-Npi-phosphohistidine-sugar phosphotransferase |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.717724 Å3/Da / Density % sol: 28.393608 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion / pH: 6.5 Details: 0.1M MES, 1.5-1.8M (NH4)2SO4, pH 6.5, Vapor diffusion, temperature 289K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: MAR CCD 165 mm / Detector: CCD / Date: Jul 25, 2007 |
Radiation | Protocol: SINGLE WAVELENGTH / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.981 Å / Relative weight: 1 |
Reflection | Resolution: 2→19.4 Å / Num. obs: 5665 / % possible obs: 96 % / Observed criterion σ(I): -3 / Redundancy: 7 % / Biso Wilson estimate: 21.478 Å2 / Rmerge(I) obs: 0.025 / Rsym value: 0.028 / Net I/σ(I): 58.33 |
Reflection shell | Resolution: 2→2.3 Å / Redundancy: 7 % / Rmerge(I) obs: 0.04 / Mean I/σ(I) obs: 42.2 / Num. measured obs: 23150 / Num. unique all: 3265 / Num. unique obs: 3265 / Rsym value: 0.038 / % possible all: 89 |
-Phasing
Phasing | Method: ![]() |
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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: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 15.32 Å2
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Refinement step | Cycle: LAST / Resolution: 2.02→19.37 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.024→2.076 Å / Total num. of bins used: 20
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