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Yorodumi- PDB-1ubs: TRYPTOPHAN SYNTHASE (E.C.4.2.1.20) WITH A MUTATION OF LYS 87->THR... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1ubs | ||||||
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Title | TRYPTOPHAN SYNTHASE (E.C.4.2.1.20) WITH A MUTATION OF LYS 87->THR IN THE B SUBUNIT AND IN THE PRESENCE OF LIGAND L-SERINE | ||||||
Components | (TRYPTOPHAN SYNTHASE) x 2 | ||||||
Keywords | LYASE/PEPTIDE / LYASE-PEPTIDE complex | ||||||
Function / homology | Function and homology information tryptophan synthase / tryptophan synthase activity / tryptophan biosynthetic process / identical protein binding / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Salmonella typhimurium (bacteria) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.9 Å | ||||||
Authors | Rhee, S. / Parris, K. / Ahmed, S.A. / Miles, E.W. / Davies, D.R. | ||||||
Citation | Journal: Biochemistry / Year: 1997 Title: Crystal structures of a mutant (betaK87T) tryptophan synthase alpha2beta2 complex with ligands bound to the active sites of the alpha- and beta-subunits reveal ligand-induced conformational changes. Authors: Rhee, S. / Parris, K.D. / Hyde, C.C. / Ahmed, S.A. / Miles, E.W. / Davies, D.R. #1: Journal: J.Biol.Chem. / Year: 1993 Title: Lysine87 in the B Subunit of Tryptophan Synthase that Forms an Internal Aldimine with Pyridoxal Phosphate Serves Critical Roles in Transimination, Catalysis, and Product Release Authors: Lu, Z. / Nagata, S. / Mcphie, P. / Miles, E.W. #2: Journal: Bio/Technology / Year: 1990 Title: The Tryptophan Synthase Multienzyme Complex: Exploring Structure-Function Relationships with X-Ray Crystallography and Mutagenesis Authors: Hyde, C.C. / Miles, E.W. #3: Journal: J.Biol.Chem. / Year: 1988 Title: Three-Dimensional Structure of the Tryptophan Synthase Alpha2Beta2 Multienzyme Complex from Salmonella Typhimurium Authors: Hyde, C.C. / Ahmed, S.A. / Padlan, E.A. / Miles, E.W. / Davies, D.R. #4: Journal: J.Biol.Chem. / Year: 1985 Title: Crystallization and Preliminary X-Ray Crystallographic Data of the Tryptophan Synthase Alpha2Beta2 Complex from Salmonella Typhimurium Authors: Ahmed, S.A. / Miles, E.W. / Davies, D.R. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ubs.cif.gz | 141.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ubs.ent.gz | 109.1 KB | Display | PDB format |
PDBx/mmJSON format | 1ubs.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ub/1ubs ftp://data.pdbj.org/pub/pdb/validation_reports/ub/1ubs | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: CIS PROLINE - PRO A 28 / 2: CIS PROLINE - PRO B 56 / 3: CIS PROLINE - PRO B 196 |
-Components
-Protein , 2 types, 2 molecules AB
#1: Protein | Mass: 28698.797 Da / Num. of mol.: 1 / Mutation: CHAIN B, K87T Source method: isolated from a genetically manipulated source Source: (gene. exp.) Salmonella typhimurium (bacteria) / Gene: TRPA/TRPB / Plasmid: PSTB7 / Gene (production host): TRPA/TRPB / Production host: Escherichia coli (E. coli) / Strain (production host): CB149 / References: UniProt: P00929, tryptophan synthase |
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#2: Protein | Mass: 42944.965 Da / Num. of mol.: 1 / Mutation: CHAIN B, K87T Source method: isolated from a genetically manipulated source Source: (gene. exp.) Salmonella typhimurium (bacteria) / Gene: TRPA/TRPB / Plasmid: PSTB7 / Gene (production host): TRPA/TRPB / Production host: Escherichia coli (E. coli) / Strain (production host): CB149 References: UniProt: P00933, UniProt: P0A2K1*PLUS, tryptophan synthase |
-Non-polymers , 4 types, 257 molecules
#3: Chemical | ChemComp-NA / |
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#4: Chemical | ChemComp-SER / |
#5: Chemical | ChemComp-PLP / |
#6: Water | ChemComp-HOH / |
-Details
Nonpolymer details | PLP FORMS THE EXTERNAL ALDIMINE WITH THE AMINO GROUP OF BOUND L-SERINE IN THE BETA SUBUNIT. |
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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: 2.68 Å3/Da / Density % sol: 54.15 % |
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Crystal grow | pH: 7.8 / Details: pH 7.8 |
Crystal | *PLUS Density % sol: 48 % |
Crystal grow | *PLUS Temperature: 295 K / Method: unknown |
-Data collection
Diffraction | Mean temperature: 295 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU200 / Wavelength: 1.5418 Å |
Detector | Type: RIGAKU RAXIS IIC / Detector: IMAGE PLATE / Date: May 19, 1993 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→20 Å / Num. obs: 56520 / % possible obs: 89.8 % / Observed criterion σ(I): 0 / Redundancy: 2.5 % / Rmerge(I) obs: 0.079 |
Reflection | *PLUS Rmerge(I) obs: 0.079 |
-Processing
Software |
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Refinement | Resolution: 1.9→8 Å / σ(F): 2 /
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Refinement step | Cycle: LAST / Resolution: 1.9→8 Å
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Refine LS restraints |
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