+Open data
-Basic information
Entry | Database: PDB / ID: 2ovs | ||||||
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Title | Crystal structure of a Type Three secretion System protein | ||||||
Components | L0044 | ||||||
Keywords | GENE REGULATION / LIGAND BINDING PROTEIN / Global Regulator protein Type three Secretion System | ||||||
Function / homology | T3SS negative regulator GrlR / T3SS negative regulator GrlR domain superfamily / Lipocalin / Beta Barrel / Mainly Beta / L0044 Function and homology information | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 1.9 Å | ||||||
Authors | Jobichen, C. / Li, M. / Sivaraman, J. | ||||||
Citation | Journal: Plos Pathog. / Year: 2007 Title: Structure of GrlR and the implication of its EDED motif in mediating the regulation of type III secretion system in EHEC. Authors: Jobichen, C. / Li, M. / Yerushalmi, G. / Tan, Y.W. / Mok, Y.K. / Rosenshine, I. / Leung, K.Y. / Sivaraman, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2ovs.cif.gz | 63.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2ovs.ent.gz | 50.2 KB | Display | PDB format |
PDBx/mmJSON format | 2ovs.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ov/2ovs ftp://data.pdbj.org/pub/pdb/validation_reports/ov/2ovs | HTTPS FTP |
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-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: 13375.815 Da / Num. of mol.: 2 / Fragment: residues (-6)-111 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Strain: EHEC / Gene: Orf10 / Plasmid: pETM / Species (production host): Escherichia coli / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: O85638 #2: Chemical | #3: 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: 2.26 Å3/Da / Density % sol: 45.63 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 25% ethylene Glycol, 4% Tertiary Butanol, 4% triflouroethanol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 130 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X12C / Wavelength: 0.9798 Å |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Nov 11, 2005 / Details: Mirrors |
Radiation | Monochromator: Selenium / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9798 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→20 Å / Num. obs: 19580 / % possible obs: 98.7 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 10.6 % / Biso Wilson estimate: 15.2 Å2 / Rmerge(I) obs: 0.148 / Rsym value: 0.07 / Net I/σ(I): 14.8 |
Reflection shell | Resolution: 1.9→1.97 Å / Redundancy: 4.7 % / Rmerge(I) obs: 0.148 / Mean I/σ(I) obs: 14.8 / Num. unique all: 4134 / Rsym value: 0.354 / % possible all: 90.3 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 1.9→19.69 Å / Isotropic thermal model: Isotropic / Cross valid method: THROUGHOUT / σ(F): 2 / σ(I): 2 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 4.84 Å2 | |||||||||||||||||||||||||
Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.9→19.69 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.9→2.02 Å / Rfactor Rfree error: 0.023
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