2024-11-06 REL PDBe PDBe PDBe 2024-02-19 2024-11-06 2024-11-06 2024-11-06 Other government 12-001-01-01-01 European Molecular Biology Organization (EMBO) 5342-2023 European Union Other government S-MIP-22-10 Other government DFG-SPP2141 DNA-bound Type IV-A3 CRISPR effector in complex with DinG helicase from K. pneumoniae (state III) Skorupskaite A Ragozius V Cepaite R Klein N Randau L Malinauskaite L Pausch P CRISPR, crRNA, DNA binding, type IV CRISPR-Cas, CRISPRi, nuclease deficient, GENE REGULATION, ANTIVIRAL PROTEIN Cepaite R Klein N Miksys A Camara-Wilpert S Ragozius V Benz F Skorupskaite A Becker H Zvejyte G Steube N Hochberg GKA Randau L Pinilla-Redondo R Malinauskaite L Pausch P Structural variation of types IV-A1- and IV-A3-mediated CRISPR interference. Nat Commun UK 15 9306 9306 2024 39468082 doi:10.1038/s41467-024-53778-1 2041-1723 EMD-19045 other EM volume
Type IV-A3 complex without DinG
 EMD-19688 other EM volume
State I
 EMD-19689 other EM volume
State II
 8s37 FULLOVERLAP Type IV-A3 CRISPR-Cas effector complex with DinG from Klebsiella pneumoniae bound to crRNA and target DNA Type IV-A3 CRISPR-Cas effector complex with DinG from Klebsiella pneumoniae bound to crRNA and target DNA 0 1 2 3 4 5 6 7
The Cas6 subunit found in the type IVA3 system from Klebsiella pneumoniae was present during expression, purification and complex assembly, but was not resolved due to high flexibility
 CRISPR effector in complex with a DinG helicase and crRNA 1 1 2 3 4 7 Klebsiella pneumoniae Double-stranded DNA 1 5 6 Klebsiella pneumoniae CRISPR type AFERR-associated protein Csf2 Klebsiella pneumoniae 0.038654406 6 Escherichia coli BL21(DE3) LEVO MRTLNFNGKISTLEPLTVTVKNAVSTSGHRLPRNGGFNAAPYFPGTSIRGTLRHAAHKVIVDRVGLNADGKSPFDLAEHF MLAQGVDINGEAETFAPGEINAGAELRSKNPLISLFGRWGLSGKVGIGNAIPDGDNQWGMFGGGARSIMFQRDESLMEFL ETDQVDRLERLLEEQAEASVDISQIKTEQDALKKAMKSADKDTKAELQIKVRELDEKIQARKDQKQESRESIRRPIDPYE AFITGAELSHRMSIKNATDEEAGLFISALIRFAAEPRFGGHANHNCGLVEAHWTVTTWKPGELVPVTLGEIVITPNGVEI TGDELFAMVKAFNENQSFDFTARGHHHHHH A0A333ESG5 CRISPR type AFERR-associated protein Csf3 Klebsiella pneumoniae 0.025474385 1 Escherichia coli BL21(DE3) LEVO MLNFKPYRVIMSSLTPVVISGIAPSLDGILYEALSQAIPSNEPGVVLARLKEILLFNDELGVFHASSLRFGITPEQGIGA TTSMRCDYLSPEKLSTAMFSPRTRRGLFTRVLLTGGPTKRRMTTRPAYSAPYLTFDFVGSSEAVEILLNHAHVGVGYDYF SAANGEFNNVTILPLDIDTSISNEGMALRPVPVNSGLNGIKGVSPLIPPYFVGEKLNIVHPAPVRTQLISSLLRG A0A8G1XN67 CRISPR type AFERR-associated protein Csf1 Klebsiella pneumoniae 0.029762467 1 Escherichia coli BL21(DE3) LEVO MNHPVESVYSALTSILLPYMGEPVPVQRNCSCCGRAPSEFDGVGFELVNAYRERVVHCRPCQTFFVSAPELMGVENPKKP TTGQKFGMWSGVGAVINVEDNSSVLLAPQGVVNKLPEHFFDHVEVITATSGQHLEYLFNTELKFPLIYIQNFGVKTYELV RSLRVSLSADAIYTCADQLLTRQNEVLYMLDLKKAKELHQEIKNYSKKEMDIFIRTVTLLAYSRITPEAASNEFKKNNLI PLLLLLPTDPHQRLSILHLLKKV A0A7Z7WW72 crRNA Klebsiella pneumoniae 0.019672640999999998 1 UUAUCGGCGAGACCGGGAUGCACCUCCCGAAGGGUCUCGGUGUUUCCCCUGCGUGCGGGGG TS-DNA Klebsiella pneumoniae 0.018196562 1 (DC)(DC)(DC)(DT)(DC)(DC)(DC)(DT)(DC)(DC)(DA)(DG)(DC)(DT)(DT)(DC)(DC)(DG)(DA)(DG) (DA)(DC)(DC)(DC)(DT)(DT)(DC)(DG)(DG)(DG)(DA)(DG)(DG)(DT)(DG)(DC)(DA)(DT)(DC)(DC) (DC)(DG)(DG)(DT)(DC)(DT)(DC)(DG)(DC)(DT)(DT)(DG)(DG)(DC)(DC)(DT)(DC)(DC)(DT)(DC) DNA NTS-DNA Klebsiella pneumoniae 0.018743030999999997 1 (DG)(DA)(DG)(DG)(DA)(DG)(DG)(DC)(DC)(DA)(DA)(DG)(DA)(DT)(DC)(DT)(DC)(DA)(DA)(DT) (DT)(DT)(DC)(DG)(DT)(DA)(DC)(DA)(DA)(DG)(DA)(DA)(DA)(DT)(DC)(DC)(DT)(DT)(DT)(DG) (DA)(DG)(DA)(DT)(DG)(DA)(DA)(DG)(DC)(DT)(DG)(DG)(DA)(DG)(DG)(DG)(DA)(DG)(DG)(DG) DNA DEAD/DEAH box helicase Klebsiella pneumoniae 0.070114477 1 Escherichia coli BL21(DE3) LEVO MNTSAVFESAGLSLRKVQQDYIEAAAGALTQDHKVALISAETGVGKTLGYLVPALLILLKNPEAKFVIATNSHALMHQIF RSDRPLLEQIAEQCGIKVTFSRLMGKANYVSLEKVRGLLLMDEFTDLDTVKVLEKLANWSKPLVEFEEEYGELPAQITPE MVTYSIWDDIQDIDDIRLNALSANFIVTTHAMVMVDCMCNHRILGDKENMYLIIDEADIFVDMLEVWKQRRFNLRELTSA FNEHIPRNGVHVIDQLMNDVTSIAGDLHFCSTPAAVALFDNSFNALSKVGREIKNEAARKAFFDCIYSWEMLGLSGGQKG VGVSNKRREPALIAVNPFIGMNVGRYCTQWRSALLTSATLSITSTPETGMEWLCKALGLTSDTISIRKIFSPDVYGSMKL TIAGADFPKVFNDPKEQIFSGQWLKAVVEQLSCIQGPALVLTASHYETRMIANQLGEVSQPVYIQKAGQALSEIIKQYQE KPGILISAGASVGVSPRGENGEQIFQDLIITRIPFLPPDRMKAESLYGYLKERGYSRTFEAVNRNIYLENLRKVIRKAKQ SVGRGIRSENDTVRIIILDPRFPEPTDLSSKHRSLEHIIPVRFRREYRSCEILSPAYFEEDIQC A0A422ZM74 ZINC ION 6.5409e-05 1 ZN singleParticle particle 0.5 7.5 10.0 HEPES 150.0 NaCl Quantifoil R1.2/1.3 COPPER 300 CARBON CONTINUOUS 2.0 GLOW DISCHARGE AIR
20 mA current
 ETHANE 100 277.15 FEI VITROBOT MARK IV TFS GLACIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 2.7 1.0 1.0 2.0 2.0 92000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN EPU 3.5.1 FEI FALCON III (4k x 4k) COUNTING 4096 4096 1 4350 46.33 30.31 1 4069893 AlphaFold
AlphaFold model for chain M (DinG) was fitted using ChimeraX and Coot. PDB deposition 8RC2 was used for the remaining chains.
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