+Open data
-Basic information
Entry | Database: PDB / ID: 5xmg | ||||||
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Title | Crystal structure of PA3488 from Pseudomonas aeruginosa | ||||||
Components | Uncharacterized protein | ||||||
Keywords | IMMUNE SYSTEM / immunity protein | ||||||
Function / homology | Tle cognate immunity protein 4, C-terminal domain / Tle cognate immunity protein 4 C-terminal domain / : / Tle cognate immunity protein 4 C-terminal domain-containing protein Function and homology information | ||||||
Biological species | Pseudomonas aeruginosa (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.8 Å | ||||||
Authors | She, Z. / Gao, Z.Q. | ||||||
Citation | Journal: Protein Sci. / Year: 2017 Title: Structural and SAXS analysis of Tle5-Tli5 complex reveals a novel inhibition mechanism of H2-T6SS in Pseudomonas aeruginosa. Authors: Yang, X.Y. / Li, Z.Q. / Gao, Z.Q. / Wang, W.J. / Geng, Z. / Xu, J.H. / She, Z. / Dong, Y.H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5xmg.cif.gz | 80.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5xmg.ent.gz | 62.6 KB | Display | PDB format |
PDBx/mmJSON format | 5xmg.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xm/5xmg ftp://data.pdbj.org/pub/pdb/validation_reports/xm/5xmg | 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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Unit cell |
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-Components
#1: Protein | Mass: 43370.004 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pseudomonas aeruginosa (bacteria) / Gene: BZY57_06770, BZY58_00015 / Plasmid: pGEX-6p-1 / Production host: Escherichia coli (E. coli) / References: UniProt: A0A1T2VI60, UniProt: A0A232D7B1*PLUS |
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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: 2.81 Å3/Da / Density % sol: 56.26 % Description: the entry contains Friedel pairs in F_Plus/Minus columns |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 0.05 M Ammonium sulfate , 0.05 M BIS-TRIS pH 6.5, 30% v/v Pentaerythritol ethoxylate (15/4 EO/OH) |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL19U1 / Wavelength: 0.9788 Å |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: May 25, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9788 Å / Relative weight: 1 |
Reflection | Resolution: 2.8→50 Å / Num. obs: 22110 / % possible obs: 100 % / Redundancy: 11.1 % / CC1/2: 0.99 / Rmerge(I) obs: 0.07 / Net I/σ(I): 24.2 |
Reflection shell | Resolution: 2.8→2.87 Å / Rmerge(I) obs: 0.588 / Mean I/σ(I) obs: 3.71 / Num. unique obs: 1661 / CC1/2: 0.87 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.8→41.722 Å / SU ML: 0.48 / Cross valid method: FREE R-VALUE / σ(F): 1.94 / Phase error: 26.74 Details: the entry contains Friedel pairs in F_Plus/Minus columns
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.8→41.722 Å
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Refine LS restraints |
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LS refinement shell |
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