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Yorodumi- PDB-1tcm: CYCLODEXTRIN GLYCOSYLTRANSFERASE W616A MUTANT FROM BACILLUS CIRCU... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1tcm | ||||||
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Title | CYCLODEXTRIN GLYCOSYLTRANSFERASE W616A MUTANT FROM BACILLUS CIRCULANS STRAIN 251 | ||||||
Components | CYCLODEXTRIN GLYCOSYLTRANSFERASE | ||||||
Keywords | GLYCOSYLTRANSFERASE / TRANSFERASE / CALCIUM | ||||||
Function / homology | Function and homology information cyclomaltodextrin glucanotransferase / cyclomaltodextrin glucanotransferase activity / starch binding / alpha-amylase activity / carbohydrate metabolic process / extracellular region / metal ion binding Similarity search - Function | ||||||
Biological species | Bacillus circulans (bacteria) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.2 Å | ||||||
Authors | Knegtel, R.M.A. / Dijkstra, B.W. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 1996 Title: The raw starch binding domain of cyclodextrin glycosyltransferase from Bacillus circulans strain 251. Authors: Penninga, D. / van der Veen, B.A. / Knegtel, R.M. / van Hijum, S.A. / Rozeboom, H.J. / Kalk, K.H. / Dijkstra, B.W. / Dijkhuizen, L. #1: Journal: J.Mol.Biol. / Year: 1994 Title: Nucleotide Sequence and X-Ray Structure of Cyclodextrin Glycosyltransferase from Bacillus Circulans Strain 251 in a Maltose-Dependent Crystal Form Authors: Lawson, C.L. / Van Montfort, R. / Strokopytov, B. / Rozeboom, H.J. / Kalk, K.H. / De Vries, G.E. / Penninga, D. / Dijkhuizen, L. / Dijkstra, B.W. #2: Journal: J.Mol.Biol. / Year: 1990 Title: Maltodextrin-Dependent Crystallization of Cyclomaltodextrin Glucanotransferase from Bacillus Circulans Authors: Lawson, C.L. / Bergsma, J. / Bruinenberg, P.M. / De Vries, G. / Dijkhuizen, L. / Dijkstra, B.W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1tcm.cif.gz | 266 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1tcm.ent.gz | 222.2 KB | Display | PDB format |
PDBx/mmJSON format | 1tcm.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tc/1tcm ftp://data.pdbj.org/pub/pdb/validation_reports/tc/1tcm | HTTPS FTP |
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-Related structure data
Similar structure data |
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-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
#1: Protein | Mass: 74460.352 Da / Num. of mol.: 2 / Mutation: W616A Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bacillus circulans (bacteria) / Strain: 251 / Plasmid: PDP66S / Production host: Bacillus circulans (bacteria) / Strain (production host): DB104A References: UniProt: P43379, cyclomaltodextrin glucanotransferase #2: Chemical | ChemComp-CA / #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.37 Å3/Da / Density % sol: 59 % | ||||||||||||||||||||
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Crystal grow | *PLUS Method: vapor diffusion, hanging drop / PH range low: 7.2 / PH range high: 6.8 | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Wavelength: 1.5418 |
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Detector | Type: MAC Science DIP-2000 / Detector: IMAGE PLATE / Date: Feb 10, 1995 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Num. obs: 50563 / Observed criterion σ(I): 2.2 / Redundancy: 2.64 % / Rmerge(I) obs: 0.083 |
Reflection | *PLUS Highest resolution: 2.2 Å / Lowest resolution: 45.1 Å / % possible obs: 71.3 % / Num. measured all: 133691 |
Reflection shell | *PLUS Highest resolution: 2.2 Å / Lowest resolution: 2.24 Å / % possible obs: 51.5 % |
-Processing
Software |
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Refinement | Resolution: 2.2→6.5 Å / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 2.2→6.5 Å
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Refine LS restraints |
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Software | *PLUS Name: TNT / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.193 / Rfactor Rfree: 0.25 | ||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 20 Å2 | ||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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