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	In-cell discovery and characterization of a non-canonical bacterial protein translocation-folding complex.
Journal, issue, pages	Cell, Year 2026
Publish date	Sep 25, 2026
Authors	Rasmus K Jensen / Liang Xue / Federico Marotta / Joseph C Somody / Joel Selkrig / Swantje Lenz / Juri Rappsilber / Mikhail M Savitski / Jan Kosinski / Athanasios Typas / Maria Zimmermann-Kogadeeva / Peer Bork / Julia Mahamid /
PubMed Abstract	Cryo-electron tomography has emerged as a powerful technology for in-cell structural biology and, in combination with breakthroughs in protein structure prediction, offers a unique opportunity for ...Cryo-electron tomography has emerged as a powerful technology for in-cell structural biology and, in combination with breakthroughs in protein structure prediction, offers a unique opportunity for illuminating functions of previously uncharacterized macromolecular complexes. Here, we used the genome-reduced bacterium Mycoplasma pneumoniae as a minimal cell model and determined in-cell maps of an unknown complex located at the cell surface. By combining proteomics, structure prediction, integrative modeling, and bioinformatics, we identified the complex to include the conserved Sec-translocon and an extracellular dome-like structure largely formed by three uncharacterized proteins (Mdps). The Mdps show structural homology to the periplasmic ATP-independent foldase PrsA, with Mdp444 retaining key catalytic residues and activity. Our study provides the first sub-nanometer-resolution maps of the complete bacterial Sec-translocation machinery, depicting its association in SecA-mediated co-translational translocation and its coordination with an extracellular protein-folding system.
External links	Cell / PubMed:42790421
Methods	EM (subtomogram averaging)
Resolution	8.2 - 29.0 Å
Structure data	54986 9slc EMDB-54986, PDB-9slc: Closed conformation dome complex including the Sec-translocon (SecYEG-SecA-SecDF) in untreated Mycoplasma pneumoniae cells Method: EM (subtomogram averaging) / Resolution: 9.1 Å 54988 9slf EMDB-54988, PDB-9slf: Open conformation dome complex including the Sec-translocon (SecYEG-SecA-SecDF) in untreated Mycoplasma pneumoniae cells Method: EM (subtomogram averaging) / Resolution: 17.0 Å EMDB-54989: Open conformation dome complex including the Sec-translocon (SecYEG-SecA-SecDF) with inward-facing SecDF from untreated Mycoplasma pneumoniae cells Method: EM (subtomogram averaging) / Resolution: 25.0 Å EMDB-54990: Open conformation dome complex including the Sec-translocon (SecYEG-SecA-SecDF) with inward-facing SecDF and substrate from untreated Mycoplasma pneumoniae cells Method: EM (subtomogram averaging) / Resolution: 25.0 Å EMDB-54991: Closed conformation dome complex including the Sec-translocon in the minor SecA conformation (SecYEG-SecA-SecDF) in untreated Mycoplasma pneumoniae cells Method: EM (subtomogram averaging) / Resolution: 13.0 Å EMDB-54992: Open conformation dome complex including the Sec-translocon (SecYEG-SecDF) from untreated Mycoplasma pneumoniae cells Method: EM (subtomogram averaging) / Resolution: 27.0 Å EMDB-54993: Open conformation dome complex including the Sec-translocon (SecYEG-SecA-SecDF) from untreated Mycoplasma pneumoniae cell Method: EM (subtomogram averaging) / Resolution: 29.0 Å EMDB-55013: Multibody refinement of pooled Ribosome-Sec translocon-Dome supercomplexes from four antibiotic treated Mycoplasma pneumoniae datasets, body 3/3 Method: EM (subtomogram averaging) / Resolution: 8.7 Å EMDB-55014: Multibody refinement of pooled Ribosome-Sec translocon-Dome supercomplexes from four antibiotic treated Mycoplasma pneumoniae datasets, body 2/3 Method: EM (subtomogram averaging) / Resolution: 8.2 Å EMDB-55016: Multibody refinement of pooled Ribosome-Sec translocon-Dome supercomplexes from four antibiotic treated Mycoplasma pneumoniae datasets, body 1/3 Method: EM (subtomogram averaging) / Resolution: 11.0 Å EMDB-55018: Ribosome-Sec translocon-Dome supercomplex in chloramphenicol treated Mycoplasma pneumoniae cells imaged on K3 camera Method: EM (subtomogram averaging) / Resolution: 12.0 Å EMDB-55020: Ribosome-Sec translocon-Dome supercomplex in spectinomycin treated Mycoplasma pneumoniae cells Method: EM (subtomogram averaging) / Resolution: 16.0 Å EMDB-55021: Ribosome-Sec translocon-Dome supercomplex in puseudoridimycin treated Mycoplasma pneumoniae cells Method: EM (subtomogram averaging) / Resolution: 18.0 Å EMDB-55022: Ribosome-Sec translocon-Dome supercomplex in chloramphenicol treated Mycoplasma pneumoniae cells by K2 camera Method: EM (subtomogram averaging) / Resolution: 15.0 Å EMDB-55023: Ribosome-Sec translocon-Dome supercomplex in native untreated Mycoplasma pneumoniae cells Method: EM (subtomogram averaging) / Resolution: 19.0 Å 55029 9smd EMDB-55029, PDB-9smd: Ribosome-dome complex including the Sec-translocon (SecYEG-SecA-SecDF) from antibiotics treated Mycoplasma pneumoniae cells (Combined) Method: EM (subtomogram averaging) / Resolution: 9.4 Å
Chemicals	ChemComp-ZN: Unknown entry ChemComp-MG: Unknown entry ChemComp-PUT: 1,4-DIAMINOBUTANE ChemComp-K: Unknown entry ChemComp-HOH: WATER
Source	mycoplasmoides pneumoniae m129 (bacteria) Mycoplasmoides pneumoniae 309 (bacteria)
Keywords	TRANSLOCASE / in-cell cryo-ET / Protein Folding / cell surface / Translocation / Sec-machinery / TRANSLATION / Ribosome / Chaperone / Antibiotics