+Open data
-Basic information
Entry | Database: PDB / ID: 3lgc | ||||||
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Title | Crystal Structure of Glutaredoxin 1 from Francisella tularensis | ||||||
Components | Glutaredoxin 1 | ||||||
Keywords | UNKNOWN FUNCTION / alpha-beta sandwich / Structural Genomics / structural genomics of infectious diseases / Center for Structural Genomics of Infectious Diseases / CSGID | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Francisella tularensis subsp. tularensis (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.77 Å | ||||||
Authors | Maltseva, N. / Kim, Y. / Papazisi, L. / Anderson, W.F. / Joachimiak, A. / Center for Structural Genomics of Infectious Diseases (CSGID) | ||||||
Citation | Journal: To be Published Title: Crystal Structure of Glutaredoxin 1 from Francisella tularensis Authors: Maltseva, N. / Kim, Y. / Papazisi, L. / Anderson, W.F. / Joachimiak, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3lgc.cif.gz | 48.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3lgc.ent.gz | 38 KB | Display | PDB format |
PDBx/mmJSON format | 3lgc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lg/3lgc ftp://data.pdbj.org/pub/pdb/validation_reports/lg/3lgc | HTTPS FTP |
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-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: 10448.485 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Francisella tularensis subsp. tularensis (bacteria) Strain: SCHU S4 / Gene: FTT0533c, FTT_0533c, grxA / Plasmid: pMCSG7 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21magic / References: UniProt: Q5NHD0 | ||||
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#2: Chemical | #3: Chemical | ChemComp-GOL / | #4: 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: 3.85 Å3/Da / Density % sol: 68.04 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop / pH: 8.5 Details: 0.2 M magnesium chloride, 0.1 M Tris pH 8.5, 20 % PEG 8000, VAPOR DIFFUSION, SITTING DROP, temperature 291K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 19-ID / Wavelength: 0.97931 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Nov 4, 2009 / Details: mirrors |
Radiation | Monochromator: double crystal monochromator / Protocol: SAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97931 Å / Relative weight: 1 |
Reflection | Resolution: 2.77→33.2 Å / Num. all: 4103 / Num. obs: 4103 / % possible obs: 100 % / Observed criterion σ(I): 0 / Redundancy: 12.1 % / Biso Wilson estimate: 45.6 Å2 / Rsym value: 0.175 / Net I/σ(I): 7.2 |
Reflection shell | Resolution: 2.77→2.82 Å / Redundancy: 12.2 % / Mean I/σ(I) obs: 6 / Num. unique all: 189 / Rsym value: 0.847 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.77→33.2 Å / SU ML: 0.31 / Isotropic thermal model: mixed / Cross valid method: THROUGHOUT / σ(F): 0 / 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 / Bsol: 8.077 Å2 / ksol: 0.256 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 51.7 Å2
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Refinement step | Cycle: LAST / Resolution: 2.77→33.2 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.7682→33.2209 Å
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Refinement TLS params. | Method: refined / Origin x: 38.1741 Å / Origin y: 7.7438 Å / Origin z: 6.5028 Å
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Refinement TLS group | Selection details: Chain A |