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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-0009 | |||||||||
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Title | The baseplate complex from the type VI secretion system | |||||||||
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![]() | Secretion / baseplate / complex / STRUCTURAL PROTEIN | |||||||||
Function / homology | ![]() Type VI secretion system protein TssE1-like / Type VI secretion system TssF / Type VI secretion system, TssF / Type VI secretion, TssG-like / Type VI secretion, TssG / IraD/Gp25-like / Baseplate wedge protein gp25 Similarity search - Domain/homology | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 4.7 Å | |||||||||
![]() | Rapisarda C / Fronzes R | |||||||||
![]() | ![]() Title: Biogenesis and structure of a type VI secretion baseplate. Authors: Yassine Cherrak / Chiara Rapisarda / Riccardo Pellarin / Guillaume Bouvier / Benjamin Bardiaux / Fabrice Allain / Christian Malosse / Martial Rey / Julia Chamot-Rooke / Eric Cascales / Rémi ...Authors: Yassine Cherrak / Chiara Rapisarda / Riccardo Pellarin / Guillaume Bouvier / Benjamin Bardiaux / Fabrice Allain / Christian Malosse / Martial Rey / Julia Chamot-Rooke / Eric Cascales / Rémi Fronzes / Eric Durand / ![]() Abstract: To support their growth in a competitive environment and cause pathogenesis, bacteria have evolved a broad repertoire of macromolecular machineries to deliver specific effectors and toxins. Among ...To support their growth in a competitive environment and cause pathogenesis, bacteria have evolved a broad repertoire of macromolecular machineries to deliver specific effectors and toxins. Among these multiprotein complexes, the type VI secretion system (T6SS) is a contractile nanomachine that targets both prokaryotic and eukaryotic cells. The T6SS comprises two functional subcomplexes: a bacteriophage-related tail structure anchored to the cell envelope by a membrane complex. As in other contractile injection systems, the tail is composed of an inner tube wrapped by a sheath and built on the baseplate. In the T6SS, the baseplate is not only the tail assembly platform, but also docks the tail to the membrane complex and hence serves as an evolutionary adaptor. Here we define the biogenesis pathway and report the cryo-electron microscopy (cryo-EM) structure of the wedge protein complex of the T6SS from enteroaggregative Escherichia coli (EAEC). Using an integrative approach, we unveil the molecular architecture of the whole T6SS baseplate and its interaction with the tail sheath, offering detailed insights into its biogenesis and function. We discuss architectural and mechanistic similarities but also reveal key differences with the T4 phage and Mu phage baseplates. | |||||||||
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 | ![]() | 28.2 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 12.2 KB 12.2 KB | Display Display | ![]() |
Images | ![]() | 55.2 KB | ||
Filedesc metadata | ![]() | 5.5 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6gj1MC ![]() 0008C ![]() 0010C ![]() 6giyC ![]() 6gj3C M: atomic model generated by this map C: citing same article ( |
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Similar structure data |
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Links
EMDB pages | ![]() ![]() |
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Map
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Voxel size | X=Y=Z: 1.1 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 : Type VI secretion system baseplate complex
Entire | Name: Type VI secretion system baseplate complex |
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Components |
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-Supramolecule #1: Type VI secretion system baseplate complex
Supramolecule | Name: Type VI secretion system baseplate complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: ![]() ![]() |
-Macromolecule #1: Putative type VI secretion protein
Macromolecule | Name: Putative type VI secretion protein / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 66.557125 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MDDLTLRYFD AEMRYLREAG KAFAQAHPDR AAMLDLDKAG TPDPCVERLF EGFAFSMGRL RQKIDDDLPE LTESLVSMLW PHYLRTIPS LSVVALTPRL SVMKMAETVP AGLEVTSRPV GPGNTVCRYR TTRAIPLNPL AVEKVVMTTE PDGRSVLKIG F ACSELADW ...String: MDDLTLRYFD AEMRYLREAG KAFAQAHPDR AAMLDLDKAG TPDPCVERLF EGFAFSMGRL RQKIDDDLPE LTESLVSMLW PHYLRTIPS LSVVALTPRL SVMKMAETVP AGLEVTSRPV GPGNTVCRYR TTRAIPLNPL AVEKVVMTTE PDGRSVLKIG F ACSELADW SQVDLHRLSL YLAAEAPVSS TLHLMMTKRL AALYLRLPGN DERIRIDGWF SPGGFAEEDR LWPKGDSAFS GY QLLLEYF TFREKFMFVH LNGLENVSLP AGISGFDLEV VLSQPWPADL PVTDDALCLH CVPVINLFTL EADPLIINGL ESE YLLRPK RLQDGYTEIY SVDAVTGSGR TGSAEYVPFT SFRHRGGMLR HDAPERYYHT RVKRGVTGMY DTWLILGGQR WEAD RMPER ETLSLRITGT NGQLPRRALQ STLLDRCEQV LQAPVSVRNL CKPTLPVYPP TEDRFHWRVM SHLGTGFLNM LSSAE VLRG TLALYNWRDD ELNHRRLDAI LAVQHHRIQR FEKGFLLRGL DVEVTLDGNG FAGEGDIHLF GEMLNRFLAL YADMNQ FNQ LTLIVQPEGK CIRWKENHNP RLPG UniProtKB: Type VI secretion protein |
-Macromolecule #2: TssG
Macromolecule | Name: TssG / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 41.216344 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MHPVERKSQS APARLITRYR KQLPYINFYR FCQLLEQSQP DQPPIGSGWQ ARQEAVRFCP YPGMGFPASE IKDAVIPEES HLPPIVHVT FMGLYGVTSP LPAHYISDIA QQREGHEAAA DFLDIFSHRL ITQYYRIWRK YSYPATFEAG GQDKTSQYLL G LARLGIPG ...String: MHPVERKSQS APARLITRYR KQLPYINFYR FCQLLEQSQP DQPPIGSGWQ ARQEAVRFCP YPGMGFPASE IKDAVIPEES HLPPIVHVT FMGLYGVTSP LPAHYISDIA QQREGHEAAA DFLDIFSHRL ITQYYRIWRK YSYPATFEAG GQDKTSQYLL G LARLGIPG CAQNIATPVS RFLALLPLML LPGRTAEGLT SLVTLLAPGT QARVWHHDRR RIPLKTPLTM RVHHPVSLKS RP VMGDHAT DVNGQVLLQL STQTGSEVQG WLPGGHLYSD LLALLHVYLG SRLDVRLQLC VERSLLPDAR LSCRPAAGSP QLG RTAVMR TQAKIATSAA RVMTISLGRY QRVQEHYQRK ETQENGDYRW UniProtKB: Type VI secretion system baseplate subunit TssG |
-Macromolecule #3: TssE
Macromolecule | Name: TssE / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 16.320783 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MPRPSLYEIL YGNFTGGLEL NQVGEEEQVI LSVLDNMQRI LNTRAGSLKH LPDYGLPDIT TILQGMPGTA HQLMRVLSDV LLKYEPRIK RVDVTMQEQT QPGELHYVID AELKDAGLVR YGTTFIPEGR VLLRHLKQQR YVQT UniProtKB: GPW_gp25 domain-containing protein |
-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 |
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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 K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Average electron dose: 1.5 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
Startup model | Type of model: OTHER |
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Final reconstruction | Applied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 4.7 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 32504 |
Initial angle assignment | Type: RANDOM ASSIGNMENT / Software - Name: cryoSPARC |
Final angle assignment | Type: MAXIMUM LIKELIHOOD / Software - Name: RELION |