Database of articles cited by EMDB/PDB/SASBDB data

Keywords
Structure methods	All X-ray diffraction NMR electron microscopy small angle scattering neutron diffraction fiber diffraction powder diffraction infrared spectroscopy EPR fluorescence transfer theoretical model Hybrid
Author
Journal
IF	>30 >20 >10 >5 all

Title	Identification and structure of an extracellular contractile injection system from the marine bacterium Algoriphagus machipongonensis.
Journal, issue, pages	Nat Microbiol, Vol. 7, Issue 3, Page 397-410, Year 2022
Publish date	Feb 14, 2022
Authors	Jingwei Xu / Charles F Ericson / Yun-Wei Lien / Florentine U N Rutaganira / Fabian Eisenstein / Miki Feldmüller / Nicole King / Martin Pilhofer /
PubMed Abstract	Contractile injection systems (CISs) are phage tail-like nanomachines, mediating bacterial cell-cell interactions as either type VI secretion systems (T6SSs) or extracellular CISs (eCISs). ...Contractile injection systems (CISs) are phage tail-like nanomachines, mediating bacterial cell-cell interactions as either type VI secretion systems (T6SSs) or extracellular CISs (eCISs). Bioinformatic studies uncovered a phylogenetic group of hundreds of putative CIS gene clusters that are highly diverse and widespread; however, only four systems have been characterized. Here we studied a putative CIS gene cluster in the marine bacterium Algoriphagus machipongonensis. Using an integrative approach, we show that the system is compatible with an eCIS mode of action. Our cryo-electron microscopy structure revealed several features that differ from those seen in other CISs: a 'cap adaptor' located at the distal end, a 'plug' exposed to the tube lumen, and a 'cage' formed by massive extensions of the baseplate. These elements are conserved in other CISs, and our genetic tools identified that they are required for assembly, cargo loading and function. Furthermore, our atomic model highlights specific evolutionary hotspots and will serve as a framework for understanding and re-engineering CISs.
External links	Nat Microbiol / PubMed:35165385 / PubMed Central
Methods	EM (single particle) / EM (helical sym.) / EM (subtomogram averaging) / EM (tomography)
Resolution	2.4 - 44.0 Å
Structure data	11734 7adz EMDB-11734, PDB-7adz: Cryo-EM structure of an extracellular contractile injection system in marine bacterium Algoriphagus machipongonensis, the cap portion in extended state. Method: EM (single particle) / Resolution: 2.5 Å 11735 7ae0 EMDB-11735, PDB-7ae0: Cryo-EM structure of an extracellular contractile injection system in marine bacterium Algoriphagus machipongonensis, the sheath-tube module in extended state. Method: EM (helical sym.) / Resolution: 2.4 Å 11743 7aeb EMDB-11743, PDB-7aeb: Cryo-EM structure of an extracellular contractile injection system in marine bacterium Algoriphagus machipongonensis, the baseplate complex in extended state applied 6-fold symmetry. Method: EM (single particle) / Resolution: 2.7 Å EMDB-11744: Focused refined cryo-EM structure of an extracellular contractile injection system in marine bacterium Algoriphagus machipongonensis, the baseplate complex in extended state applied 6-fold symmetry Method: EM (single particle) / Resolution: 2.9 Å 11745 7aef EMDB-11745, PDB-7aef: Cryo-EM structure of an extracellular contractile injection system in marine bacterium Algoriphagus machipongonensis, the baseplate complex in extended state applied 3-fold symmetry. Method: EM (single particle) / Resolution: 2.8 Å EMDB-11746: Cryo-EM structure of the overall extracellular contractile injection system in marine bacterium Algoriphagus machipongonensis Method: EM (single particle) / Resolution: 4.4 Å 11747 7aek EMDB-11747, PDB-7aek: Cryo-EM structure of an extracellular contractile injection system in marine bacterium Algoriphagus machipongonensis, the contracted sheath shell. Method: EM (helical sym.) / Resolution: 2.5 Å EMDB-11748: Cryo-EM structure of an extracellular contractile injection system in marine bacterium Algoriphagus machipongonensis, the baseplate complex in contracted state. Method: EM (single particle) / Resolution: 8.9 Å EMDB-11749: sub-tomogram averaging of an extracellular contractile injection system in marine bacterium Algoriphagus machipongonensis Method: EM (subtomogram averaging) / Resolution: 44.0 Å EMDB-11750: sub-tomogram averaging of an extracellular contractile injection system mutant (effector deficient mutant) in marine bacterium Algoriphagus machipongonensis Method: EM (subtomogram averaging) / Resolution: 32.0 Å EMDB-13704: cryo electron tomogram of purified AlgoCIS delta Alg16B Method: EM (tomography) EMDB-13705: cryo electron tomogram of Algoriphagus machipongonensis in bacterial late stage Method: EM (tomography) EMDB-13719: Cryo electron tomogram of purified AlgoCIS Cgo1/2 deficient mutant Method: EM (tomography) EMDB-13720: Cryo electron tomogram of purified AlgoCIS Cgo1 deficient mutant Method: EM (tomography) EMDB-13721: Cryo electron tomogram of purified AlgoCIS Cgo2 deficient mutant Method: EM (tomography) EMDB-13722: Cryo electron tomogram of purified AlgoCIS wild-type. Method: EM (tomography) EMDB-13723: Cryo electron sub-tomogram averaging of purified AlgoCIS delta-Alg16B mutant Method: EM (subtomogram averaging) / Resolution: 33.0 Å EMDB-13724: Cryo electron sub-tomogram average of MAC arrays baseplate Method: EM (subtomogram averaging) / Resolution: 11.0 Å EMDB-13725: Cryo electron sub-tomogram average of baseplate in Amoebophilus asiaticus Method: EM (subtomogram averaging) / Resolution: 29.0 Å
Source	algoriphagus machipongonensis (bacteria) Pseudoalteromonas luteoviolacea (bacteria) Candidatus Amoebophilus asiaticus (bacteria)
Keywords	STRUCTURAL PROTEIN / extracellular contractile injection system