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Yorodumi- PDB-5guy: Structural and functional study of chuY from E. coli CFT073 strain -
+Open data
-Basic information
Entry | Database: PDB / ID: 5guy | ||||||
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Title | Structural and functional study of chuY from E. coli CFT073 strain | ||||||
Components | Uncharacterized protein chuY | ||||||
Keywords | OXIDOREDUCTASE / chuY / flavin reductase | ||||||
Function / homology | NAD(P)H-binding / NAD(P)-binding domain / NAD(P)-binding domain superfamily / NAD(P)-binding domain-containing protein Function and homology information | ||||||
Biological species | Escherichia coli strain CFT073 (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.399 Å | ||||||
Authors | Kim, H. / Choi, J. / HA, S.C. / Chaurasia, A.K. / Kim, D. / Kim, K.K. | ||||||
Citation | Journal: Biochem. Biophys. Res. Commun. / Year: 2017 Title: Structural and functional study of ChuY from Escherichia coli strain CFT073 Authors: Kim, H. / Chaurasia, A.K. / Kim, T. / Choi, J. / Ha, S.C. / Kim, D. / Kim, K.K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5guy.cif.gz | 76.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5guy.ent.gz | 62.1 KB | Display | PDB format |
PDBx/mmJSON format | 5guy.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 5guy_validation.pdf.gz | 440.3 KB | Display | wwPDB validaton report |
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Full document | 5guy_full_validation.pdf.gz | 443.4 KB | Display | |
Data in XML | 5guy_validation.xml.gz | 15 KB | Display | |
Data in CIF | 5guy_validation.cif.gz | 20.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/gu/5guy ftp://data.pdbj.org/pub/pdb/validation_reports/gu/5guy | 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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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 23032.668 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli strain CFT073 (bacteria) Strain: CFT073 / Gene: chuY, c4316 / Plasmid: pET21a Production host: Escherichia coli 'BL21-Gold(DE3)pLysS AG' (bacteria) Strain (production host): BL21-Gold(DE3)pLysS AG / References: UniProt: A0A0H2VDD2 #2: 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: 1.99 Å3/Da / Density % sol: 34.62 % / Description: rectangular prism |
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Crystal grow | Temperature: 295 K / Method: microbatch / pH: 6.5 / Details: 0.1M Bis-Tris pH 6.5, 50mM CaCl2, 30% PEG MME 550 |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: PAL/PLS / Beamline: 7A (6B, 6C1) / Wavelength: 0.97941, 0.97955, 0.97243 | ||||||||||||
Detector | Type: ADSC QUANTUM 270 / Detector: CCD / Date: Jul 22, 2002 | ||||||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.4→50 Å / Num. obs: 13433 / % possible obs: 99.9 % / Redundancy: 7.6 % / Rmerge(I) obs: 0.088 / Net I/σ(I): 27.1 | ||||||||||||
Reflection shell | Resolution: 2.4→2.44 Å / Redundancy: 7.5 % / Rmerge(I) obs: 0.619 / Mean I/σ(I) obs: 2.9 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 2.399→34.254 Å / SU ML: 0.31 / Cross valid method: FREE R-VALUE / σ(F): 1.7 / Phase error: 25.02 / Stereochemistry target values: MLHL
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.399→34.254 Å
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Refine LS restraints |
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LS refinement shell |
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