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- EMDB-42136: PhiCb5 maturation protein with Caulobacter crescentus bNY30a pili -
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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | PhiCb5 maturation protein with Caulobacter crescentus bNY30a pili | |||||||||
![]() | Caulobacter pilus binds to phiCb5 | |||||||||
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![]() | RNA phage / protein fibril / RECOMBINATION | |||||||||
Function / homology | Flp/Fap pilin component / Flp/Fap pilin component / Assembly protein / Phage maturation protein / virion attachment to host cell pilus / virion component / membrane / Flp family type IVb pilin / Maturation protein![]() | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 6.45 Å | |||||||||
![]() | Wang Y / Zhang J | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structural mechanisms of Tad pilus assembly and its interaction with an RNA virus. Authors: Yuhang Wang / Matthew Theodore / Zhongliang Xing / Utkarsh Narsaria / Zihao Yu / Lanying Zeng / Junjie Zhang / ![]() Abstract: Tad (tight adherence) pili, part of the type IV pili family, are crucial for mechanosensing, surface adherence, bacteriophage (phage) adsorption, and cell-cycle regulation. Unlike other type IV ... Tad (tight adherence) pili, part of the type IV pili family, are crucial for mechanosensing, surface adherence, bacteriophage (phage) adsorption, and cell-cycle regulation. Unlike other type IV pilins, Tad pilins lack the typical globular β sheet domain responsible for pilus assembly and phage binding. The mechanisms of Tad pilus assembly and its interaction with phage ΦCb5 have been elusive. Using cryo-electron microscopy, we unveiled the Tad pilus assembly mechanism, featuring a unique network of hydrogen bonds at its core. We then identified the Tad pilus binding to the ΦCb5 maturation protein (Mat) through its β region. Notably, the amino terminus of ΦCb5 Mat is exposed outside the capsid and phage/pilus interface, enabling the attachment of fluorescent and affinity tags. These engineered ΦCb5 virions can be efficiently assembled and purified in , maintaining infectivity against , which presents promising applications, including RNA delivery and phage display. | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 658.2 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 15.4 KB 15.4 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 27.5 KB | Display | ![]() |
Images | ![]() | 45.3 KB | ||
Filedesc metadata | ![]() | 5.3 KB | ||
Others | ![]() ![]() | 666.6 MB 667 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8ucrMC ![]() 8u2bC ![]() 8uejC C: citing same article ( M: atomic model generated by this map |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||
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Annotation | Caulobacter pilus binds to phiCb5 | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.86 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: Caulobacter pilus binds to phiCb5
File | emd_42136_half_map_1.map | ||||||||||||
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Annotation | Caulobacter pilus binds to phiCb5 | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Caulobacter pilus binds to phiCb5
File | emd_42136_half_map_2.map | ||||||||||||
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Annotation | Caulobacter pilus binds to phiCb5 | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : A complex of pilus and phiCb5 maturation protein
Entire | Name: A complex of pilus and phiCb5 maturation protein |
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Components |
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-Supramolecule #1: A complex of pilus and phiCb5 maturation protein
Supramolecule | Name: A complex of pilus and phiCb5 maturation protein / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all Details: A complex of Caulobacter crescentus pilus and ssRNA phage phiCb5 maturation protein in buffer |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 210 KDa |
-Macromolecule #1: Maturation protein
Macromolecule | Name: Maturation protein / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 40.725336 KDa |
Sequence | String: MARIRNRSSI ASSGMSTFYL FGTPIVNEEI IVRNTEWCSD VIGNPGDNPL DIHKQEWTIK PLSGQIIFGS GTYRSLQCPP EYCRGASLS HLSLPSQSGL GTTALARTNP SRPAFNLPAF IGELRDLPRM FKIAGDTMLR KGANAFLSYQ FGWKPLISDI S KALDFSAT ...String: MARIRNRSSI ASSGMSTFYL FGTPIVNEEI IVRNTEWCSD VIGNPGDNPL DIHKQEWTIK PLSGQIIFGS GTYRSLQCPP EYCRGASLS HLSLPSQSGL GTTALARTNP SRPAFNLPAF IGELRDLPRM FKIAGDTMLR KGANAFLSYQ FGWKPLISDI S KALDFSAT VRTRSDEWHR LYSNGGLKRR INLGVDIEQK KENDVVLHSS NGFVVASHTV ITVRKTWATV RWRPDAGSLP PI TKSSSEK HARALLGLGV GGLIEGAWQL MPWSWMVDWF GNVGTFLQAS NNTIGASPGL VNIMTTTTTN HQFSVKRDLS DGW IKGGDC SATVTSKARS QSSGPTITAS IPNLSGRQLS ILGALGIQRV PRHLLR UniProtKB: Maturation protein |
-Macromolecule #2: Flp family type IVb pilin
Macromolecule | Name: Flp family type IVb pilin / type: protein_or_peptide / ID: 2 / Number of copies: 16 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 4.37914 KDa |
Sequence | String: ATAIEYGLIV ALIAVVIVTA VTTLGTKLNL AFTKAGTAVS TAAGT UniProtKB: Flp family type IVb pilin |
-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: 7.5 Component:
Details: 20mM tris, 2mM MgCl2 | |||||||||
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 40.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 25.0 µm / Nominal defocus min: 5.0 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |