+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-42602 | |||||||||
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Title | Campylobacter jejuni CosR apo form | |||||||||
Map data | ||||||||||
Sample |
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Keywords | Campylobacter jejuni / CosR / transcriptional regulator / DNA BINDING PROTEIN | |||||||||
Function / homology | Function and homology information phosphorelay response regulator activity / protein-DNA complex / transcription cis-regulatory region binding / regulation of DNA-templated transcription / cytosol Similarity search - Function | |||||||||
Biological species | Campylobacter jejuni (Campylobacter) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.77 Å | |||||||||
Authors | Zhang Z | |||||||||
Funding support | United States, 1 items
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Citation | Journal: mBio / Year: 2024 Title: Structural basis of DNA recognition of the CosR regulator. Authors: Zhemin Zhang / Yuqi Yan / Jinji Pang / Lei Dai / Qijing Zhang / Edward W Yu / Abstract: is a foodborne pathogen commonly found in the intestinal tracts of animals. This pathogen is a leading cause of gastroenteritis in humans. Besides its highly infectious nature, is increasingly ... is a foodborne pathogen commonly found in the intestinal tracts of animals. This pathogen is a leading cause of gastroenteritis in humans. Besides its highly infectious nature, is increasingly resistant to a number of clinically administrated antibiotics. As a consequence, the Centers for Disease Control and Prevention has designated antibiotic-resistant as a serious antibiotic resistance threat in the United States. The CosR regulator is essential to the viability of this bacterium and is responsible for regulating the expression of a number of oxidative stress defense enzymes. Importantly, it also modulates the expression of the CmeABC multidrug efflux system, the most predominant and clinically important system in that mediates resistance to multiple antimicrobials. Here, we report structures of apo-CosR and CosR bound with a 21 bp DNA sequence located at the promotor region using both single-particle cryo-electron microscopy and X-ray crystallography. These structures allow us to propose a novel mechanism for CosR regulation that involves a long-distance conformational coupling and rearrangement of the secondary structural elements of the regulator to bind target DNA. IMPORTANCE: has emerged as an antibiotic-resistant threat worldwide. CosR is an essential regulator for this bacterium and is important for adaptation to various stresses. Here, we describe the ...IMPORTANCE: has emerged as an antibiotic-resistant threat worldwide. CosR is an essential regulator for this bacterium and is important for adaptation to various stresses. Here, we describe the structural basis of CosR binding to target DNA as determined by cryo-electron microscopy and X-ray crystallography. Since CosR is a potential target for intervention, our studies may facilitate the development of novel therapeutics to combat infection. | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_42602.map.gz | 87.8 MB | EMDB map data format | |
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Header (meta data) | emd-42602-v30.xml emd-42602.xml | 13 KB 13 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_42602_fsc.xml | 13.3 KB | Display | FSC data file |
Images | emd_42602.png | 80.9 KB | ||
Filedesc metadata | emd-42602.cif.gz | 5.1 KB | ||
Others | emd_42602_half_map_1.map.gz emd_42602_half_map_2.map.gz | 164.7 MB 164.7 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-42602 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-42602 | HTTPS FTP |
-Validation report
Summary document | emd_42602_validation.pdf.gz | 845.8 KB | Display | EMDB validaton report |
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Full document | emd_42602_full_validation.pdf.gz | 845.4 KB | Display | |
Data in XML | emd_42602_validation.xml.gz | 20.5 KB | Display | |
Data in CIF | emd_42602_validation.cif.gz | 26.4 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-42602 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-42602 | HTTPS FTP |
-Related structure data
Related structure data | 8uuzMC 8uvkC 8uvxC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_42602.map.gz / Format: CCP4 / Size: 178 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.666 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_42602_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_42602_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : CosR
Entire | Name: CosR |
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Components |
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-Supramolecule #1: CosR
Supramolecule | Name: CosR / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Campylobacter jejuni (Campylobacter) |
-Macromolecule #1: DNA-binding response regulator
Macromolecule | Name: DNA-binding response regulator / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: Campylobacter jejuni (Campylobacter) |
Molecular weight | Theoretical: 25.56127 KDa |
Recombinant expression | Organism: Escherichia coli (E. coli) |
Sequence | String: MGRILVIEDE ISLNKTIIDN LNEFGYQTDS SENFKDGEYF IGIRHYDLVL ASWNLPDGDG AELVNTIKHK SPRTSVMIMS AKADKDTEI KALKAGADDF VKKPLDFDIL LARIEARLRL GGTNVIKIED LVIDPDEEKI TYKGQDIELK GKPFEVLTHL A RHSDQIVS ...String: MGRILVIEDE ISLNKTIIDN LNEFGYQTDS SENFKDGEYF IGIRHYDLVL ASWNLPDGDG AELVNTIKHK SPRTSVMIMS AKADKDTEI KALKAGADDF VKKPLDFDIL LARIEARLRL GGTNVIKIED LVIDPDEEKI TYKGQDIELK GKPFEVLTHL A RHSDQIVS KEQLLDAIWE EPELVTPNVI EVAINQIRQK MDKPLNISTI ETVRRRGYRF CFPKKS UniProtKB: Homeostatic response regulator transcription factor HsrA |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 54.6 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.5 µm / Nominal defocus min: 0.8 µm / Nominal magnification: 165000 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |