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Open data
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Basic information
Entry | Database: PDB / ID: 8p9m | ||||||
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Title | Hexameric Hfq from Chromobacterium haemolyticum | ||||||
![]() | RNA-binding protein Hfq | ||||||
![]() | RNA BINDING PROTEIN / Hfq / RNA-chaperon | ||||||
Function / homology | RNA-binding protein Hfq / Hfq protein / : / Sm domain profile. / LSM domain superfamily / regulation of DNA-templated transcription / RNA binding / RNA-binding protein Hfq![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Nikulin, A.D. / Lekontseva, N.V. | ||||||
Funding support | ![]()
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![]() | ![]() Title: The Structure of the Hfq Protein from Chromobacterium haemolyticum Revealed a New Variant of Regulation of RNA Binding with the Protein Authors: Lekontseva, N.V. / Nikulin, A.D. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 98.9 KB | Display | ![]() |
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PDB format | ![]() | 75.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 483.6 KB | Display | ![]() |
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Full document | ![]() | 489.6 KB | Display | |
Data in XML | ![]() | 19 KB | Display | |
Data in CIF | ![]() | 27.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 9690.183 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: hfq, B0T39_13335, B0T45_12055, CH06BL_33310, DBB33_18715 Production host: ![]() ![]() #2: Chemical | ChemComp-GOL / | #3: Water | ChemComp-HOH / | Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8 Details: 15% PEG4000, 50 mM Tris-HCl, pH 7.5, 150 mM KCl, 20 mM MgCl2 |
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-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU HyPix-6000HE / Detector: PIXEL / Date: Nov 30, 2022 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2→22.33 Å / Num. obs: 27718 / % possible obs: 98.38 % / Redundancy: 1.9 % / Biso Wilson estimate: 27.49 Å2 / CC1/2: 0.997 / Rmerge(I) obs: 0.068 / Rpim(I) all: 0.068 / Rrim(I) all: 0.096 / Net I/σ(I): 8.19 |
Reflection shell | Resolution: 2→2.07 Å / Redundancy: 1.9 % / Rmerge(I) obs: 0.76 / Mean I/σ(I) obs: 0.92 / Num. unique obs: 5300 / CC1/2: 0.579 / Rpim(I) all: 0.76 / Rrim(I) all: 1.07 / % possible all: 99.71 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→22.33 Å
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Refine LS restraints |
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LS refinement shell |
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