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- PDB-4j6w: Crystal structure of HFQ from Pseudomonas aeruginosa in complex w... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4j6w | |||||||||
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Title | Crystal structure of HFQ from Pseudomonas aeruginosa in complex with CTP | |||||||||
![]() | Protein hfq | |||||||||
![]() | RNA BINDING PROTEIN / LSM / RNA chaperone / sRNA / mRNA | |||||||||
Function / homology | ![]() regulation of carbon utilization / regulation of translation, ncRNA-mediated / regulation of RNA stability / quorum sensing / regulation of translation / regulation of DNA-templated transcription / RNA binding / cytosol Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Nikulin, A.D. / Murina, V. / Lekontseva, N. | |||||||||
![]() | ![]() Title: Hfq binds ribonucleotides in three different RNA-binding sites. Authors: Murina, V. / Lekontseva, N. / Nikulin, A. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 113.4 KB | Display | ![]() |
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PDB format | ![]() | 88.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 4.3 MB | Display | ![]() |
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Full document | ![]() | 4.4 MB | Display | |
Data in XML | ![]() | 22.9 KB | Display | |
Data in CIF | ![]() | 32.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3quiC ![]() 4j5yC ![]() 4j6xC ![]() 4j6yC ![]() 1u1tS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
-Protein , 1 types, 6 molecules ABCDEF
#1: Protein | Mass: 9114.487 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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-Non-polymers , 8 types, 323 molecules ![](data/chem/img/CTP.gif)
![](data/chem/img/C5P.gif)
![](data/chem/img/MG.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/P6G.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/CDP.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/C5P.gif)
![](data/chem/img/MG.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/P6G.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/CDP.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-CTP / #3: Chemical | ChemComp-C5P / #4: Chemical | ChemComp-MG / #5: Chemical | #6: Chemical | ChemComp-P6G / | #7: Chemical | #8: Chemical | ChemComp-CDP / | #9: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.29 Å3/Da / Density % sol: 46.27 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, hanging drop / pH: 8 Details: 200 mm ammonium sulphate, 200 mm NaCl, 50 mm TRIS-HCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: May 10, 2012 |
Radiation | Monochromator: SI-111 CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.91841 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→50 Å / Num. all: 54468 / Num. obs: 54468 / % possible obs: 97.78 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.5 % / Biso Wilson estimate: 19.1 Å2 / Rmerge(I) obs: 0.058 / Rsym value: 0.058 / Net I/σ(I): 11.56 |
Reflection shell | Resolution: 1.7→1.79 Å / Redundancy: 2.6 % / Rmerge(I) obs: 0.379 / Mean I/σ(I) obs: 2.77 / Num. unique all: 6883 / % possible all: 81.93 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1U1T Resolution: 1.8→50 Å / SU ML: 0.25 / Cross valid method: THROUGHOUT / σ(F): 0 / Phase error: 23.15 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.8→50 Å
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Refine LS restraints |
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LS refinement shell |
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