+Open data
-Basic information
Entry | Database: PDB / ID: 4z17 | ||||||||||||
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Title | Thermostable enolase from Chloroflexus aurantiacus | ||||||||||||
Components | Enolase | ||||||||||||
Keywords | LYASE / enolase / thermostability / thermophilic origin / phylogeny | ||||||||||||
Function / homology | Function and homology information phosphopyruvate hydratase / phosphopyruvate hydratase complex / phosphopyruvate hydratase activity / glycolytic process / magnesium ion binding / cell surface / extracellular region Similarity search - Function | ||||||||||||
Biological species | Chloroflexus aurantiacus (bacteria) | ||||||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.65 Å | ||||||||||||
Authors | Zadvornyy, O.A. / Peters, J.W. | ||||||||||||
Funding support | United States, 3items
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Citation | Journal: Front Bioeng Biotechnol / Year: 2015 Title: Biochemical and Structural Characterization of Enolase from Chloroflexus aurantiacus: Evidence for a Thermophilic Origin. Authors: Zadvornyy, O.A. / Boyd, E.S. / Posewitz, M.C. / Zorin, N.A. / Peters, J.W. | ||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4z17.cif.gz | 171.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4z17.ent.gz | 135 KB | Display | PDB format |
PDBx/mmJSON format | 4z17.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/z1/4z17 ftp://data.pdbj.org/pub/pdb/validation_reports/z1/4z17 | HTTPS FTP |
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-Related structure data
Related structure data | 4ywsC 4z1yC 1iyxS C: citing same article (ref.) S: Starting model for refinement |
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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: 45945.863 Da / Num. of mol.: 2 / Source method: isolated from a natural source Source: (natural) Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl) (bacteria) Strain: ATCC 29366 / DSM 635 / J-10-fl / References: UniProt: A9WCM4, phosphopyruvate hydratase #2: Chemical | ChemComp-MG / #3: Chemical | #4: Water | ChemComp-HOH / | |
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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: 2.96 Å3/Da / Density % sol: 58.48 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion / pH: 9 Details: Bis-Tris propane buffer (0.1 M, pH 9.0), 0.21 M NaCl and 28% PEG 1500, 20% (v/v) glycerol |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL9-2 / Wavelength: 0.95369 Å |
Detector | Type: MARMOSAIC 325 mm CCD / Detector: CCD / Date: Apr 16, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.95369 Å / Relative weight: 1 |
Reflection | Resolution: 2.65→37.68 Å / Num. obs: 31118 / % possible obs: 99.6 % / Redundancy: 4.4 % / Biso Wilson estimate: 64.47 Å2 / Rmerge(I) obs: 0.073 / Net I/σ(I): 3.2 |
Reflection shell | Resolution: 2.65→2.79 Å / Redundancy: 4.3 % / Rmerge(I) obs: 0.561 / Mean I/σ(I) obs: 3.2 / % possible all: 99.4 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1IYX Resolution: 2.65→37.68 Å / Cor.coef. Fo:Fc: 0.9233 / Cor.coef. Fo:Fc free: 0.9012 / SU R Cruickshank DPI: 0.556 / Cross valid method: THROUGHOUT / σ(F): 0 / SU R Blow DPI: 0.485 / SU Rfree Blow DPI: 0.275 / SU Rfree Cruickshank DPI: 0.286
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Displacement parameters | Biso mean: 66.07 Å2
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Refine analyze | Luzzati coordinate error obs: 0.331 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: 1 / Resolution: 2.65→37.68 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.65→2.74 Å / Total num. of bins used: 16
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