+Open data
-Basic information
Entry | Database: PDB / ID: 1bsv | ||||||
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Title | GDP-FUCOSE SYNTHETASE FROM ESCHERICHIA COLI COMPLEX WITH NADPH | ||||||
Components | PROTEIN (GDP-FUCOSE SYNTHETASE) | ||||||
Keywords | OXIDOREDUCTASE / EPIMERASE-REDUCTASE / NADPH / GDP-FUCOSE | ||||||
Function / homology | Function and homology information GDP-L-fucose synthase / GDP-L-fucose synthase activity / colanic acid biosynthetic process / 'de novo' GDP-L-fucose biosynthetic process / NADP+ binding / isomerase activity / protein homodimerization activity / cytoplasm Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | ||||||
Authors | Somers, W.S. / Stahl, M.L. / Sullivan, F.X. | ||||||
Citation | Journal: Structure / Year: 1998 Title: GDP-fucose synthetase from Escherichia coli: structure of a unique member of the short-chain dehydrogenase/reductase family that catalyzes two distinct reactions at the same active site. Authors: Somers, W.S. / Stahl, M.L. / Sullivan, F.X. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1bsv.cif.gz | 77.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1bsv.ent.gz | 57.2 KB | Display | PDB format |
PDBx/mmJSON format | 1bsv.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1bsv_validation.pdf.gz | 751.1 KB | Display | wwPDB validaton report |
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Full document | 1bsv_full_validation.pdf.gz | 754.7 KB | Display | |
Data in XML | 1bsv_validation.xml.gz | 14.7 KB | Display | |
Data in CIF | 1bsv_validation.cif.gz | 20.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bs/1bsv ftp://data.pdbj.org/pub/pdb/validation_reports/bs/1bsv | HTTPS FTP |
-Related structure data
Related structure data | 1fxsC 1gfsSC S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 36187.102 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Strain: K12 / Cellular location: CYTOPLASM / Gene: WCAG / Plasmid: PSEWCAG / Species (production host): Escherichia coli / Cellular location (production host): CYTOPLASM / Gene (production host): WCAG / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL-21 / References: UniProt: P32055 |
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#2: Chemical | ChemComp-NDP / |
#3: 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: 3.25 Å3/Da / Density % sol: 62.14 % | |||||||||||||||||||||||||
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Crystal grow | pH: 7 / Details: 4.0 M SODIUM FORMATE, pH 7 | |||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7.4 / Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 291 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU200 / Wavelength: 1.5418 |
Detector | Type: RIGAKU RAXIS II / Detector: IMAGE PLATE / Date: Jul 15, 1997 / Details: MIRRORS |
Radiation | Monochromator: NI FILTER / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→14 Å / Num. obs: 24049 / % possible obs: 99.6 % / Observed criterion σ(I): 0 / Redundancy: 6.9 % / Rmerge(I) obs: 0.056 / Net I/σ(I): 26.4 |
Reflection shell | Resolution: 2.2→2.28 Å / Mean I/σ(I) obs: 4.4 / % possible all: 96.7 |
Reflection shell | *PLUS % possible obs: 96.7 % |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1GFS Resolution: 2.2→14 Å / σ(F): 2 /
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Refinement step | Cycle: LAST / Resolution: 2.2→14 Å
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Refine LS restraints |
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Xplor file | Serial no: 1 / Param file: PARHCSDX.PRO / Topol file: TOPHCSDX.PRO | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Software | *PLUS Name: X-PLOR / Version: 3.843 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor Rfree: 0.2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |