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Yorodumi- PDB-1mzg: X-Ray Structure of SufE from E.coli Northeast Structural Genomics... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1mzg | ||||||
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Title | X-Ray Structure of SufE from E.coli Northeast Structural Genomics (NESG) Consortium Target ER30 | ||||||
Components | SufE Protein | ||||||
Keywords | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / PSI / Protein Structure Initiative / Northeast Structural Genomics Consortium / NESG | ||||||
Function / homology | Function and homology information sulfur incorporation into metallo-sulfur cluster / sulfur carrier activity / iron-sulfur cluster assembly / positive regulation of catalytic activity / enzyme activator activity / response to oxidative stress / cytoplasm Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2 Å | ||||||
Authors | Kuzin, A. / Edstrom, W.C. / Xiao, R. / Acton, T.B. / Rost, B. / Tong, L. / Montelione, G.T. / Hunt, J.F. / Northeast Structural Genomics Consortium (NESG) | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2004 Title: The SufE sulfur-acceptor protein contains a conserved core structure that mediates interdomain interactions in a variety of redox protein complexes Authors: Goldsmith-Fischman, S. / Kuzin, A. / Edstrom, W.C. / Benach, J. / Shastry, R. / Xiao, R. / Acton, T.B. / Honig, B. / Montelione, G.T. / Hunt, J.F. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1mzg.cif.gz | 68.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1mzg.ent.gz | 56.4 KB | Display | PDB format |
PDBx/mmJSON format | 1mzg.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1mzg_validation.pdf.gz | 433.3 KB | Display | wwPDB validaton report |
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Full document | 1mzg_full_validation.pdf.gz | 441.3 KB | Display | |
Data in XML | 1mzg_validation.xml.gz | 15.2 KB | Display | |
Data in CIF | 1mzg_validation.cif.gz | 21.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mz/1mzg ftp://data.pdbj.org/pub/pdb/validation_reports/mz/1mzg | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 17122.912 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Details: HYPOTHETICAL TARGET ER30 / Source: (gene. exp.) Escherichia coli (E. coli) / Plasmid: pET21 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P76194 #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: 2.02 Å3/Da / Density % sol: 39.17 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 302 K / Method: vapor diffusion, hanging drop / pH: 8.9 Details: 34% PEG3350, 3% Methanol, 0.1M Tris pH 8.9, 0.2M Sodium acetate, VAPOR DIFFUSION, HANGING DROP, temperature 302.0K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 30 ℃ | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X4A / Wavelength: 0.9792 |
Detector | Date: Aug 23, 2002 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9792 Å / Relative weight: 1 |
Reflection | Resolution: 2→27.2 Å / Num. obs: 17893 / Observed criterion σ(I): -3 / Biso Wilson estimate: 20.3 Å2 |
Reflection | *PLUS Highest resolution: 2 Å / Lowest resolution: 19.9 Å / % possible obs: 98.6 % / Redundancy: 3.1 % / Rmerge(I) obs: 0.054 |
Reflection shell | *PLUS % possible obs: 89.3 % |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2→19.91 Å / Rfactor Rfree error: 0.009 / Data cutoff high absF: 1252026.31 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 1
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 41.9236 Å2 / ksol: 0.350805 e/Å3 | |||||||||||||||||||||||||
Displacement parameters | Biso mean: 26.8 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2→19.91 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.13 Å / Rfactor Rfree error: 0.023 / Total num. of bins used: 6
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Xplor file |
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Refinement | *PLUS Highest resolution: 2 Å / Lowest resolution: 19.9 Å / % reflection Rfree: 4.9 % | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||
Refine LS restraints | *PLUS
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