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Yorodumi- PDB-2a8u: Crystal Structure of Human Galactosyltransferase (GTB) Complexed ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2a8u | |||||||||
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Title | Crystal Structure of Human Galactosyltransferase (GTB) Complexed with Beta-Methyl Lactoside | |||||||||
Components | ABO blood group (transferase A, alpha 1-3-N-acetylgalactosaminyltransferase; transferase B, alpha 1-3-galactosyltransferase) | |||||||||
Keywords | TRANSFERASE / GTB / Blood group / ABO(H) / glycosyltransferase / retaining | |||||||||
Function / homology | Function and homology information fucosylgalactoside 3-alpha-galactosyltransferase / glycoprotein-fucosylgalactoside alpha-N-acetylgalactosaminyltransferase / glycoprotein-fucosylgalactoside alpha-N-acetylgalactosaminyltransferase activity / fucosylgalactoside 3-alpha-galactosyltransferase activity / ABO blood group biosynthesis / lipid glycosylation / Golgi cisterna membrane / protein glycosylation / antigen binding / manganese ion binding ...fucosylgalactoside 3-alpha-galactosyltransferase / glycoprotein-fucosylgalactoside alpha-N-acetylgalactosaminyltransferase / glycoprotein-fucosylgalactoside alpha-N-acetylgalactosaminyltransferase activity / fucosylgalactoside 3-alpha-galactosyltransferase activity / ABO blood group biosynthesis / lipid glycosylation / Golgi cisterna membrane / protein glycosylation / antigen binding / manganese ion binding / vesicle / carbohydrate metabolic process / Golgi membrane / nucleotide binding / Golgi apparatus / extracellular region Similarity search - Function | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 1.69 Å | |||||||||
Authors | Letts, J.A. / Rose, N.L. / Fang, Y.R. / Barry, C.H. / Borisova, S.N. / Seto, N.O. / Palcic, M.M. / Evans, S.V. | |||||||||
Citation | Journal: J.Biol.Chem. / Year: 2006 Title: Differential Recognition of the Type I and II H Antigen Acceptors by the Human ABO(H) Blood Group A and B Glycosyltransferases. Authors: Letts, J.A. / Rose, N.L. / Fang, Y.R. / Barry, C.H. / Borisova, S.N. / Seto, N.O. / Palcic, M.M. / Evans, S.V. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2a8u.cif.gz | 76.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2a8u.ent.gz | 53.7 KB | Display | PDB format |
PDBx/mmJSON format | 2a8u.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/a8/2a8u ftp://data.pdbj.org/pub/pdb/validation_reports/a8/2a8u | HTTPS FTP |
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-Related structure data
Related structure data | 1zhjC 1zi1C 1zi3C 1zi4C 1zi5C 1zizC 1zj0C 1zj1C 1zj2C 1zj3C 1zjoC 1zjpC 2a8wC 1lz7S 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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1 |
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2 |
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Unit cell |
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-Components
-Protein / Sugars , 2 types, 2 molecules A
#1: Protein | Mass: 34156.445 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Plasmid: PCW DELTA 1AC (E-H) / Production host: Escherichia coli (E. coli) / Strain (production host): BL21Gold / References: UniProt: P16442 |
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#2: Polysaccharide | beta-D-galactopyranose-(1-4)-methyl beta-D-glucopyranoside / Beta-Methyl Lactoside |
-Non-polymers , 5 types, 185 molecules
#3: Chemical | ChemComp-UDP / | ||||||
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#4: Chemical | ChemComp-HG / #5: Chemical | ChemComp-CL / | #6: Chemical | ChemComp-MN / | #7: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.29 Å3/Da / Density % sol: 46.37 % |
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-Data collection
Diffraction | Mean temperature: 113 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU MICROMAX-002 / Wavelength: 1.5418 / Wavelength: 1.5418 Å |
Detector | Type: RIGAKU RAXIS IV++ / Detector: IMAGE PLATE / Date: Apr 12, 2005 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.69→20 Å / Num. all: 35620 / Num. obs: 35513 / % possible obs: 99.7 % / Observed criterion σ(I): 16.6 |
Reflection shell | Resolution: 1.69→1.75 Å / % possible all: 99.5 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1LZ7 Resolution: 1.69→20 Å
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Refinement step | Cycle: LAST / Resolution: 1.69→20 Å
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Refine LS restraints |
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