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Yorodumi- PDB-1trk: REFINED STRUCTURE OF TRANSKETOLASE FROM SACCHAROMYCES CEREVISIAE ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1trk | ||||||
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Title | REFINED STRUCTURE OF TRANSKETOLASE FROM SACCHAROMYCES CEREVISIAE AT 2.0 ANGSTROMS RESOLUTION | ||||||
Components | TRANSKETOLASE | ||||||
Keywords | TRANSFERASE(KETONE RESIDUES) | ||||||
Function / homology | Function and homology information transketolase / transketolase activity / pentose-phosphate shunt / nucleus / metal ion binding / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2 Å | ||||||
Authors | Lindqvist, Y. / Schneider, G. / Nikkola, M. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1994 Title: Refined structure of transketolase from Saccharomyces cerevisiae at 2.0 A resolution. Authors: Nikkola, M. / Lindqvist, Y. / Schneider, G. #1: Journal: J.Biol.Chem. / Year: 1993 Title: Yeast Tkl1 Gene Encodes a Transketolase that is Required for Efficient Glycolysis and Biosynthesis of Aromatic Amino Acids Authors: Sundstrom, M. / Lindqvist, Y. / Schneider, G. / Hellman, U. / Ronne, H. #2: Journal: Embo J. / Year: 1992 Title: Three-Dimensional Structure of Transketolase, a Thiamine Diphosphate Dependent Enzyme at 2.5 Angstroms Resolution Authors: Lindqvist, Y. / Schneider, G. / Ermler, U. / Sundstrom, M. #3: Journal: J.Biol.Chem. / Year: 1989 Title: Preliminary Crystallographic Data for Transketolase from Yeast Authors: Schneider, G. / Sundstrom, M. / Lindqvist, Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1trk.cif.gz | 292.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1trk.ent.gz | 231.9 KB | Display | PDB format |
PDBx/mmJSON format | 1trk.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1trk_validation.pdf.gz | 503.1 KB | Display | wwPDB validaton report |
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Full document | 1trk_full_validation.pdf.gz | 531 KB | Display | |
Data in XML | 1trk_validation.xml.gz | 29.7 KB | Display | |
Data in CIF | 1trk_validation.cif.gz | 50.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tr/1trk ftp://data.pdbj.org/pub/pdb/validation_reports/tr/1trk | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-0.784, 0.001, -0.621), Vector: Details | THE TRANSFORMATION PRESENTED ON *MTRIX* RECORDS BELOW WILL YIELD APPROXIMATE COORDINATES FOR CHAIN B WHEN APPLIED TO CHAIN A. | |
-Components
#1: Protein | Mass: 73887.391 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) References: UniProt: P23254, transketolase #2: Chemical | #3: Chemical | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.35 Å3/Da / Density % sol: 47.7 % | ||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Method: vapor diffusionDetails: taken from Konarvera, N.V. et al (1983). Biochem. Int., 6, 799-803. | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Reflection | *PLUS Highest resolution: 2 Å / Num. obs: 84080 / % possible obs: 88.5 % / Num. measured all: 192885 / Rmerge(I) obs: 0.1 |
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-Processing
Software |
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Refinement | Rfactor Rwork: 0.157 / Rfactor obs: 0.157 / Highest resolution: 2 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Highest resolution: 2 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Lowest resolution: 7 Å / Num. reflection obs: 84080 / Rfactor obs: 0.157 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 3.1 |