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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-9397 | |||||||||
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Title | F-pilus/MS2 Maturation protein complex | |||||||||
![]() | Focused refinement of Escherichia coli F-pilus and Enterobacteria phage MS2 maturation protein. | |||||||||
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![]() | MS2 maturation protein / F-pilus / adsorption complex / PROTEIN BINDING | |||||||||
Function / homology | ![]() viral genome circularization / : / virion attachment to host cell pilus / virion component / membrane => GO:0016020 / RNA binding / extracellular region Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 6.2 Å | |||||||||
![]() | Meng R / Jiang M / Zhang J | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structural basis for the adsorption of a single-stranded RNA bacteriophage. Authors: Ran Meng / Mengqiu Jiang / Zhicheng Cui / Jeng-Yih Chang / Kailu Yang / Joanita Jakana / Xinzhe Yu / Zhao Wang / Bo Hu / Junjie Zhang / ![]() Abstract: Single-stranded RNA bacteriophages (ssRNA phages) infect Gram-negative bacteria via a single maturation protein (Mat), which attaches to a retractile pilus of the host. Here we present structures of ...Single-stranded RNA bacteriophages (ssRNA phages) infect Gram-negative bacteria via a single maturation protein (Mat), which attaches to a retractile pilus of the host. Here we present structures of the ssRNA phage MS2 in complex with the Escherichia coli F-pilus, showing a network of hydrophobic and electrostatic interactions at the Mat-pilus interface. Moreover, binding of the pilus induces slight orientational variations of the Mat relative to the rest of the phage capsid, priming the Mat-connected genomic RNA (gRNA) for its release from the virions. The exposed tip of the attached Mat points opposite to the direction of the pilus retraction, which may facilitate the translocation of the gRNA from the capsid into the host cytosol. In addition, our structures determine the orientation of the assembled F-pilin subunits relative to the cell envelope, providing insights into the F-like type IV secretion systems. | |||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 1.5 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 13.4 KB 13.4 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 7.7 KB | Display | ![]() |
Images | ![]() | 237.3 KB | ||
Filedesc metadata | ![]() | 5.7 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6nm5MC ![]() 0338C ![]() 0448C ![]() 0450C ![]() 0451C ![]() 0453C ![]() 9399C C: citing same article ( M: atomic model generated by this map |
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Similar structure data |
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | Focused refinement of Escherichia coli F-pilus and Enterobacteria phage MS2 maturation protein. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 2.46 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
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Sample components
-Entire : F-pilus/MS2 maturation protein complex
Entire | Name: F-pilus/MS2 maturation protein complex |
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Components |
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-Supramolecule #1: F-pilus/MS2 maturation protein complex
Supramolecule | Name: F-pilus/MS2 maturation protein complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#2 / Details: F-pilus/MS2 Maturation protein complex |
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-Supramolecule #2: Enterobacteria phage MS2 maturation protein
Supramolecule | Name: Enterobacteria phage MS2 maturation protein / type: complex / ID: 2 / Parent: 1 / Macromolecule list: #2 |
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Source (natural) | Organism: ![]() ![]() |
-Supramolecule #3: F-pilus
Supramolecule | Name: F-pilus / type: complex / ID: 3 / Parent: 1 / Macromolecule list: #1 |
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Source (natural) | Organism: ![]() |
-Macromolecule #1: Type IV conjugative transfer system pilin TraA
Macromolecule | Name: Type IV conjugative transfer system pilin TraA / type: protein_or_peptide / ID: 1 / Number of copies: 75 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 6.831216 KDa |
Sequence | String: QDLMASGNTT VKATFGKDSS VVKWVVLAEV LVGAVMYMMT KNVKFLAGFA IISVFIAVGM AVVGL UniProtKB: Type IV conjugative transfer system pilin TraA |
-Macromolecule #2: Maturation protein
Macromolecule | Name: Maturation protein / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 44.030934 KDa |
Sequence | String: MRAFSTLDRE NETFVPSVRV YADGETEDNS FSLKYRSNWT PGRFNSTGAK TKQWHYPSPY SRGALSVTSI DQGAYKRSGS SWGRPYEEK AGFGFSLDAR SCYSLFPVSQ NLTYIEVPQN VANRASTEVL QKVTQGNFNL GVALAEARST ASQLATQTIA L VKAYTAAR ...String: MRAFSTLDRE NETFVPSVRV YADGETEDNS FSLKYRSNWT PGRFNSTGAK TKQWHYPSPY SRGALSVTSI DQGAYKRSGS SWGRPYEEK AGFGFSLDAR SCYSLFPVSQ NLTYIEVPQN VANRASTEVL QKVTQGNFNL GVALAEARST ASQLATQTIA L VKAYTAAR RGNWRQALRY LALNEDRKFR SKHVAGRWLE LQFGWLPLMS DIQGAYEMLT KVHLQEFLPM RAVRQVGTNI KL DGRLSYP AANFQTTCNI SRRIVIWFYI NDARLAWLSS LGILNPLGIV WEKVPFSFVV DWLLPVGNML EGLTAPVGCS YMS GTVTDV ITGESIISVD APYGWTVERQ GTAKAQISAM HRGVQSVWPT TGAYVKSPFS MVHTLDALAL IRQRLSR UniProtKB: Maturation protein A |
-Macromolecule #3: (2R)-2,3-dihydroxypropyl ethyl hydrogen (S)-phosphate
Macromolecule | Name: (2R)-2,3-dihydroxypropyl ethyl hydrogen (S)-phosphate / type: ligand / ID: 3 / Number of copies: 70 / Formula: KSV |
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Molecular weight | Theoretical: 200.127 Da |
Chemical component information | ![]() ChemComp-KSV: |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 8 |
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Grid | Model: C-flat-1.2/1.3 / Material: COPPER / Mesh: 400 |
Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | JEOL 3200FSC |
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Specialist optics | Energy filter - Slit width: 30 eV |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average exposure time: 8.0 sec. / Average electron dose: 37.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |