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- PDB-2x61: Crystal structure of the sialyltransferase CST-II in complex with... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2x61 | |||||||||
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Title | Crystal structure of the sialyltransferase CST-II in complex with trisaccharide acceptor and CMP | |||||||||
![]() | ALPHA-2,3-/2,8-SIALYLTRANSFERASE | |||||||||
![]() | TRANSFERASE / GTA / GLYCOSYLTRANSFERASE | |||||||||
Function / homology | ![]() | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Lee, H.J. / Lairson, L.L. / Rich, J.R. / Wakarchuk, W.W. / Withers, S.G. / Strynadka, N.C.J. | |||||||||
![]() | ![]() Title: Structural and Kinetic Analysis of Substrate Binding to the Sialyltransferase Cst-II from Campylobacter Jejuni. Authors: Lee, H.J. / Lairson, L.L. / Rich, J.R. / Lameignere, E. / Wakarchuk, W.W. / Withers, S.G. / Strynadka, N.C. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 223.6 KB | Display | ![]() |
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PDB format | ![]() | 179.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.8 MB | Display | ![]() |
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Full document | ![]() | 1.8 MB | Display | |
Data in XML | ![]() | 24.7 KB | Display | |
Data in CIF | ![]() | 34 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2x62C ![]() 2x63C ![]() 1ro8S 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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Unit cell |
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Components
-Protein / Sugars , 2 types, 4 molecules AB
#1: Protein | Mass: 30403.531 Da / Num. of mol.: 2 / Fragment: RESIDUES 1-258 / Mutation: YES Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Polysaccharide | Source method: isolated from a genetically manipulated source |
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-Non-polymers , 5 types, 271 molecules ![](data/chem/img/ACT.gif)
![](data/chem/img/MPD.gif)
![](data/chem/img/CH.gif)
![](data/chem/img/EDO.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/MPD.gif)
![](data/chem/img/CH.gif)
![](data/chem/img/EDO.gif)
![](data/chem/img/HOH.gif)
#3: Chemical | #4: Chemical | ChemComp-MPD / ( | #5: Chemical | #6: Chemical | #7: Water | ChemComp-HOH / | |
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-Details
Compound details | ENGINEERED RESIDUE IN CHAIN A, ILE 53 TO SER ENGINEERED RESIDUE IN CHAIN A, GLU 222 TO GLY ...ENGINEERED |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.52 Å3/Da / Density % sol: 51 % / Description: NONE |
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Crystal grow | pH: 7.5 Details: 100 MM HEPES5, PH 7.5, 8% (W/V) POLYETHYLENE GLYCOL 6000, AND 5% (V/V) 2-METHYL-2, 4-PENTANEDIOL |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Dec 10, 2008 / Details: VERTICALLY FOCUSSING MIRROR |
Radiation | Monochromator: DOUBLE CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979 Å / Relative weight: 1 |
Reflection | Resolution: 1.95→40 Å / Num. obs: 46782 / % possible obs: 99.6 % / Observed criterion σ(I): 5 / Redundancy: 6.3 % / Rmerge(I) obs: 0.08 / Net I/σ(I): 38.3 |
Reflection shell | Resolution: 1.95→2.02 Å / Redundancy: 5.6 % / Rmerge(I) obs: 0.37 / Mean I/σ(I) obs: 5 / % possible all: 96.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1RO8 Resolution: 1.95→40 Å / Cor.coef. Fo:Fc: 0.967 / Cor.coef. Fo:Fc free: 0.951 / SU B: 6.39 / SU ML: 0.085 / Cross valid method: THROUGHOUT / ESU R: 0.135 / ESU R Free: 0.125 / Stereochemistry target values: MAXIMUM LIKELIHOOD / 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: 36.496 Å2
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Refinement step | Cycle: LAST / Resolution: 1.95→40 Å
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Refine LS restraints |
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