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Yorodumi- PDB-7qx0: Transaminase Structure of Plurienzyme (Tr2E2) in complex with PLP -
+Open data
-Basic information
Entry | Database: PDB / ID: 7qx0 | ||||||
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Title | Transaminase Structure of Plurienzyme (Tr2E2) in complex with PLP | ||||||
Components | Aminotransferase TR2 | ||||||
Keywords | HYDROLASE / transaminase | ||||||
Function / homology | Function and homology information beta-alanine-pyruvate transaminase / beta-alanine-pyruvate transaminase activity / organonitrogen compound metabolic process / pyridoxal phosphate binding Similarity search - Function | ||||||
Biological species | Acidihalobacter (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3.5 Å | ||||||
Authors | Roda, S. / Fernandez-Lopez, L. / Benedens, M. / Bollinger, A. / Thies, S. / Schumacher, J. / Coscolin, C. / Kazemi, M. / Santiago, G. / Gertzen, C.G. ...Roda, S. / Fernandez-Lopez, L. / Benedens, M. / Bollinger, A. / Thies, S. / Schumacher, J. / Coscolin, C. / Kazemi, M. / Santiago, G. / Gertzen, C.G. / Gonzalez-Alfonso, J. / Plou, F.J. / Jaeger, K.E. / Smits, S.H. / Ferrer, M. / Guallar, V. | ||||||
Funding support | Germany, 1items
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Citation | Journal: Angew Chem Int Ed Engl / Year: 2022 Title: A Plurizyme with Transaminase and Hydrolase Activity Catalyzes Cascade Reactions. Authors: Roda, S. / Fernandez-Lopez, L. / Benedens, M. / Bollinger, A. / Thies, S. / Schumacher, J. / Coscolin, C. / Kazemi, M. / Santiago, G. / Gertzen, C.G.W. / Gonzalez-Alfonso, J.L. / Plou, F.J. ...Authors: Roda, S. / Fernandez-Lopez, L. / Benedens, M. / Bollinger, A. / Thies, S. / Schumacher, J. / Coscolin, C. / Kazemi, M. / Santiago, G. / Gertzen, C.G.W. / Gonzalez-Alfonso, J.L. / Plou, F.J. / Jaeger, K.E. / Smits, S.H.J. / Ferrer, M. / Guallar, V. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7qx0.cif.gz | 628.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7qx0.ent.gz | 519.5 KB | Display | PDB format |
PDBx/mmJSON format | 7qx0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/qx/7qx0 ftp://data.pdbj.org/pub/pdb/validation_reports/qx/7qx0 | HTTPS FTP |
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-Related structure data
Related structure data | 7qx3C 7qyfC 7qygC C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-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: 51658.668 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Acidihalobacter (bacteria) / Production host: Escherichia coli (E. coli) References: UniProt: A0A3G5BC54, beta-alanine-pyruvate transaminase #2: Chemical | ChemComp-PLP / Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.75 Å3/Da / Density % sol: 55.33 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion / Details: Tf 4% (w/v) PEG 6000 100 mM citric acid pH 4 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: PETRA III, EMBL c/o DESY / Beamline: P13 (MX1) / Wavelength: 0.9762 Å |
Detector | Type: DECTRIS EIGER R 4M / Detector: PIXEL / Date: May 5, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9762 Å / Relative weight: 1 |
Reflection | Resolution: 3.5→48.62 Å / Num. obs: 29483 / % possible obs: 99.8 % / Redundancy: 6.4 % / CC1/2: 1 / Net I/σ(I): 15.4 |
Reflection shell | Resolution: 3.5→3.625 Å / Num. unique obs: 2892 / CC1/2: 0.978 / % possible all: 99.93 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: own model Resolution: 3.5→48.62 Å / Cross valid method: FREE R-VALUE Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Displacement parameters | Biso mean: 99.61 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.5→48.62 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.5→3.625 Å
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