2024-05-01 REL PDBe PDBe PDBe 2020-07-29 2020-09-02 2020-09-02 2024-05-01 European Research Council (ERC) 615984 Germany Fully-loaded anthrax lethal toxin in its heptameric pre-pore state and PA7LF(2+1A) arrangement Quentin D Antoni C anthrax lethal toxin, fully-loaded pre-pore state, membrane translocase, cytotoxic substrate, TOXIN Antoni C Quentin D Lang AE Aktories K Gatsogiannis C Raunser S Cryo-EM structure of the fully-loaded asymmetric anthrax lethal toxin in its heptameric pre-pore state. Plos Pathog. US 16 e1008530 e1008530 2020 32810181 doi:10.1371/journal.ppat.1008530 1553-7374 6zxl FULLOVERLAP Fully-loaded anthrax lethal toxin in its heptameric pre-pore state and PA7LF(2+1A) arrangement Fully-loaded anthrax lethal toxin in its heptameric pre-pore state and PA7LF(2+1A) arrangement 0 1 2
Heptameric pre-pores of proteolytically-acitivated protective antigen were loaded with excess of LFs to create the PA7LF3 complexes. The LFs form a continuous chain of head-to-tail interactions. In the PA7LF(2+1A) arrangement, the third LF binds with its N-terminal domain to the C-terminal region of the 2nd LF.
0.093 Protective antigen 1 1
The trypsin-activated 63 kDa fragments assemble into a hepatameric pre-pore
Bacillus anthracis Lethal factor 1 2
Three LF molecules crown the heptameric PA ring. The LFs form a continuous chain of head-to-tail interactions. In the PA7LF(2+1A) arrangement, the third LF binds with its N-terminal domain to the C-terminus of the 2nd LF.
Bacillus anthracis Protective antigen Bacillus anthracis 0.08567992999999999 7 Escherichia coli BL21(DE3) LEVO MGHHHHHHHHHHSSGHIDDDDKHMEVKQENRLLNESESSSQGLLGYYFSDLNFQAPMVVTSSTTGDLSIPSSELENIPSE NQYFQSAIWSGFIKVKKSDEYTFATSADNHVTMWVDDQEVINKASNSNKIRLEKGRLYQIKIQYQRENPTEKGLDFKLYW TDSQNKKEVISSDNLQLPELKQKSSNSRKKRSTSAGPTVPDRDNDGIPDSLEVEGYTVDVKNKRTFLSPWISNIHEKKGL TKYKSSPEKWSTASDPYSDFEKVTGRIDKNVSPEARHPLVAAYPIVHVDMENIILSKNEDQSTQNTDSQTRTISKNTSTS RTHTSEVHGNAEVHASFFDIGGSVSAGFSNSNSSTVAIDHSLSLAGERTWAETMGLNTADTARLNANIRYVNTGTAPIYN VLPTTSLVLGKNQTLATIKAKENQLSQILAPNNYYPSKNLAPIALNAQDDFSSTPITMNYNQFLELEKTKQLRLDTDQVY GNIATYNFENGRVRVDTGSNWSEVLPQIQETTARIIFNGKDLNLVERRIAAVNPSDPLETTKPDMTLKEALKIAFGFNEP NGNLQYQGKDITEFDFNFDQQTSQNIKNQLAELNATNIYTVLDKIKLNAKMNILIRDKRFHYDRNNIAVGADESVVKEAH REVINSSTEGLLLNIDKDIRKILSGYIVEIEDTEGLKEVINDRYDMLNISSLRQDGKTFIDFKKYNDKLPLYISNPNYKV NVYAVTKENTIINPSENGDTSTNGIKKILIFSKKGYEIG Q68GS1 Lethal factor Bacillus anthracis 0.09390421099999999 3 Bacillus anthracis LEVO MNIKKEFIKVISMSCLVTAITLSGPVFIPLVQGAGGHGDVGMHVKEKEKNKDENKRKDEERNKTQEEHLKEIMKHIVKIE VKGEEAVKKEAAEKLLEKVPSDVLEMYKAIGGKIYIVDGDITKHISLEALSEDKKKIKDIYGKDALLHEHYVYAKEGYEP VLVIQSSEDYVENTEKALNVYYEIGKILSRDILSKINQPYQKFLDVLNTIKNASDSDGQDLLFTNQLKEHPTDFSVEFLE QNSNEVQEVFAKAFAYYIEPQHRDVLQLYAPEAFNYMDKFNEQEINLSLEELKDQRMLARYEKWEKIKQHYQHWSDSLSE EGRGLLKKLQIPIEPKKDDIIHSLSQEEKELLKRIQIDSSDFLSTEEKEFLKKLQIDIRDSLSEEEKELLNRIQVDSSNP LSEKEKEFLKKLKLDIQPYDINQRLQDTGGLIDSPSINLDVRKQYKRDIQNIDALLHQSIGSTLYNKIYLYENMNINNLT ATLGADLVDSTDNTKINRGIFNEFKKNFKYSISSNYMIVDINERPALDNERLKWRIQLSPDTRAGYLENGKLILQRNIGL EIKDVQIIKQSEKEYIRIDAKVVPKSKIDTKIQEAQLNINQEWNKALGLPKYTKLITFNVHNRYASNIVESAYLILNEWK NNIQSDLIKKVTNYLVDGNGRFVFTDITLPNIAEQYTHQDEIYEQVHSKGLYVPESRSILLHGPSKGVELRNDSEGFIHE FGHAVDDYAGYLLDKNQSDLVTNSKKFIDIFKEEGSNLTSYGRTNEAEFFAEAFRLMHSTDHAERLKVQKNAPKTFQFIN DQIKFIINS P15917 3.4.24.83 singleParticle particle 0.06 8.5 20.0 Tris-HCl Tris hydrochloride 150.0 NaCl sodium chloride Quantifoil R1.2/1.3 COPPER 300 CARBON CONTINUOUS 2.0 GLOW DISCHARGE AIR ETHANE 95 286 GATAN CRYOPLUNGE 3
4 uL sample was applied to grid (with 2 nm additional carbon layer) and incubated for 45 s prior blotting..
FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.7 1.2 2.6 130000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GIF Bioquantum 20 GATAN K2 SUMMIT (4k x 4k) COUNTING 5238 15.0 74.4 1 382000 1TZO
The corresponding 3D class of the 3D classification step served as initial model for the refinement
 1J7N
The corresponding 3D class of the 3D classification step served as initial model for the refinement
 C1 BACK PROJECTION 4.2 FSC 0.143 CUT-OFF SPHIRE 44000 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD SPHIRE SPHIRE emd_11524.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 336 336 336 0 0 0 336 336 336 359.52002 359.52002 359.52002 90.0 90.0 90.0 X Y Z -0.7723325 1.0983543 0.0013000775 0.025047943 1.07 1.07 1.07 0.1 AUTHOR PA7LF(2 1A) 6ZXK PDB experimental model
The previously generated PA7LF(2+1B) model (PDB:6ZXK) served as starting point and was placed into the density using rigid-body fit in Chimera. From this model, chain J was fitted into the density corresponding to the third LF, located adjacent to the second LF. For the entire model a restrained refinement in phenix was performed. The resulting model was further refined with a combination of phenix and coot. Unresolved regions were deleted and side chain information was removed for less well-resolved regions.