+Open data
-Basic information
Entry | Database: PDB / ID: 2i1u | ||||||
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Title | Mycobacterium tuberculosis thioredoxin C | ||||||
Components | Thioredoxin | ||||||
Keywords | ELECTRON TRANSPORT / Thioredoxin / Redox Protein | ||||||
Function / homology | Function and homology information Cysteine synthesis from O-acetylserine / Cell redox homeostasis / Tolerance by Mtb to nitric oxide produced by macrophages / glutathione disulfide oxidoreductase activity / disulfide oxidoreductase activity / protein-disulfide reductase activity / cell redox homeostasis / peptidoglycan-based cell wall / electron transfer activity / extracellular region ...Cysteine synthesis from O-acetylserine / Cell redox homeostasis / Tolerance by Mtb to nitric oxide produced by macrophages / glutathione disulfide oxidoreductase activity / disulfide oxidoreductase activity / protein-disulfide reductase activity / cell redox homeostasis / peptidoglycan-based cell wall / electron transfer activity / extracellular region / plasma membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Mycobacterium tuberculosis (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.3 Å | ||||||
Authors | Hall, G. / McEwan, P.A. / Emsley, J. | ||||||
Citation | Journal: ACTA CRYSTALLOGR.,SECT.D / Year: 2006 Title: Structure of Mycobacterium tuberculosisthioredoxin C. Authors: Hall, G. / Shah, M. / McEwan, P.A. / Laughton, C. / Stevens, M. / Westwell, A. / Emsley, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2i1u.cif.gz | 60.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2i1u.ent.gz | 43.8 KB | Display | PDB format |
PDBx/mmJSON format | 2i1u.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/i1/2i1u ftp://data.pdbj.org/pub/pdb/validation_reports/i1/2i1u | HTTPS FTP |
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-Related structure data
Related structure data | 2trxS 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: 13160.054 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mycobacterium tuberculosis (bacteria) / Gene: trxA, trx, trxC / Plasmid: pTrcHisA / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P0A616, UniProt: P9WG67*PLUS |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 1.67 Å3/Da / Density % sol: 26.36 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 10% iso-propanol, 0.1M Na HEPES, 20% PEG 4K, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction |
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Detector |
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Radiation |
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Radiation wavelength |
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Reflection | Resolution: 1.3→30 Å / Num. all: 19858 / Num. obs: 19858 / % possible obs: 94.7 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 | ||||||||||||||||||
Reflection shell | Resolution: 1.3→1.37 Å / % possible all: 92.3 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 2trx Resolution: 1.3→18.9 Å / Cor.coef. Fo:Fc: 0.93 / Cor.coef. Fo:Fc free: 0.908 / SU B: 2.45 / SU ML: 0.048 / Cross valid method: THROUGHOUT / ESU R: 0.096 / ESU R Free: 0.077 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 10.392 Å2
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Refinement step | Cycle: LAST / Resolution: 1.3→18.9 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.3→1.334 Å / Total num. of bins used: 20
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