2024-07-17 REL PDBe PDBe PDBe 2022-02-18 2022-11-16 2022-11-16 2024-07-17 Czech Science Foundation GA22-19896S Czech Republic Ministry of Education, Youth and Sports of the Czech Republic LM2018127 Czech Republic Mammalian Dicer in the dicing state with pre-miR-15a substrate Zanova M Zapletal D endoribonuclease, dsRNA, complex, gene silencing, post-transcriptional, catalytic complex, cytoplasm, RNA BINDING PROTEIN Zapletal D Taborska E Pasulka J Malik R Kubicek K Zanova M Much C Sebesta M Buccheri V Horvat F Jenickova I Prochazkova M Prochazka J Pinkas M Novacek J Joseph DF Sedlacek R Bernecky C O'Carroll D Stefl R Svoboda P Structural and functional basis of mammalian microRNA biogenesis by Dicer. Mol.Cell US 82 4064 4079.e13 2022 36332606 doi:10.1016/j.molcel.2022.10.010 1097-2765 2168 MOCEFL 7yyn FULLOVERLAP Dicing state of mouse oocyte dicer with pre-miR-15a Dicing state of mouse oocyte dicer with pre-miR-15a 0 1 2 59-nt precursor of miR-15a 1 1 Mus musculus Isoform 2 of Endoribonuclease Dicer 1 2 Mus musculus 59-nt precursor of miR-15a Mus musculus 0.019017278999999998 1 UAGCAGCACAUAAUGGUUUGUGGAUGUUGAAAAGGUGCAGGCCAUACUGUGCUGCCUCA AC154660.2 Isoform 2 of Endoribonuclease Dicer Mus musculus 0.20004093799999997 1 Baculovirus expression vector pFastBac1-HM LEVO MVWSHPQFEKGGGSGGGSGGSAWSHPQFEKGDYPYDVPDYAGTENLYFQGLVDSRDTEVYTSQPCEIVVDCGPFTDRSGL YERLLMELEAALDFINDCNVAVHSKERDSTLISKQILSDCRAVLVVLGPWCADKVAGMMVRELQKYIKHEQEELHRKFLL FTDTLLRKIHALCEEYFSPASLDLKYVTPKVMKLLEILRKYKPYERQQFESVEWYNNRNQDNYVSWSDSEDDDDDEEIEE KEKPETNFPSPFTNILCGIIFVERRYTAVVLNRLIKEAGKQDPELAYISSNFITGHGIGKNQPRSKQMEAEFRKQEEVLR KFRAHETNLLIATSVVEEGVDIPKCNLVVRFDLPTEYRSYVQSKGRARAPISNYVMLADTDKIKSFEEDLKTYKAIEKIL RNKCSKSADGAEADVHAGVDDEDAFPPYVLRPDDGGPRVTINTAIGHINRYCARLPSDPFTHLAPKCRTRELPDGTFYST LYLPINSPLRASIVGPPMDSVRLAERVVALICCEKLHKIGELDEHLMPVGKETVKYEEELDLHDEEETSVPGRPGSTKRR QCYPKAIPECLRESYPKPDQPCYLYVIGMVLTTPLPDELNFRRRKLYPPEDTTRCFGILTAKPIPQIPHFPVYTRSGEVT ISIELKKSGFTLSQQMLELITRLHQYIFSHILRLEKPALEFKPTGAESAYCVLPLNVVNDSGTLDIDFKFMEDIEKSEAR IGIPSTKYSKETPFVFKLEDYQDAVIIPRYRNFDQPHRFYVADVYTDLTPLSKFPSPEYETFAEYYKTKYNLDLTNLNQP LLDVDHTSSRLNLLTPRHLNQKGKALPLSSAEKRKAKWESLQNKQILVPELCAIHPIPASLWRKAVCLPSILYRLHCLLT AEELRAQTASDAGVGVRSLPVDFRYPNLDFGWKKSIDSKSFISSCNSSLAESDNYCKHSTTVVPEHAAHQGATRPSLENH DQMSVNCKRLPAESPAKLQSEVSTDLTAINGLSYNKNLANGSYDLVNRDFCQGNQLNYFKQEIPVQPTTSYPIQNLYNYE NQPKPSNECPLLSNTYLDGNANTSTSDGSPAVSTMPAMMNAVKALKDRMDSEQSPSVGYSSRTLGPNPGLILQALTLSNA SDGFNLERLEMLGDSFLKHAITTYLFCTYPDAHEGRLSYMRSKKVSNCNLYRLGKKKGLPSRMVVSIFDPPVNWLPPGYV VNQDKSNSEKWEKDEMTKDCLLANGKLGEACEEEEDLTWRAPKEEAEDEDDFLEYDQEHIQFIDSMLMGSGAFVRKISLS PFSASDSAYEWKMPKKASLGSMPFASGLEDFDYSSWDAMCYLDPSKAVEEDDFVVGFWNPSEENCGVDTGKQSISYDLHT EQCIADKSIADCVAALLGCYLTSCGERAAQLFLCSLGLKVLPVIKRTSREKALDPAQENGSSQQKSLSGSCASPVGPRSS AGKDLEYGCLKIPPRCMFDHPDAEKTLNHLISGFETFEKKINYRFKNKAYLLQAFTHASYHYNTITDCYQRLEFLGDAIL DYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFHVIDDFVKFQLEKNEMQGMDSELRRS EEDEEKEEDIEVPKAMGDIFASLAGAIYMDSGMSLEVVWQVYYPMMQPLIEKFSANVPRSPVRELLEMEPETAKFSPAER TYDGKVRVTVEVVGKGKFKGVGRSYRIAKSAAARRALRSLKANQPQVPNSGRGENLYFQGASDYKDHDGDYKDHDGSHHH HHHHH Q8R418 3.1.26.3 singleParticle particle 0.20 8.0 50.0 Tris 100.0 Sodium Chloride 1.0 Dithiotreitol 2.0 Magnesium Chloride
The buffer was always fresh in RNAse-free manner
 ETHANE 100 277.15 FEI VITROBOT MARK IV
Described in STAR methods.
FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 1.0 3.5 GATAN K2 SUMMIT (4k x 4k) COUNTING 9956 55.0 1 230362 36 FOURIER SPACE 6.21 FSC 0.143 CUT-OFF cryoSPARC v3.3.1 84697 NOT APPLICABLE NOT APPLICABLE 50 3477.0 cryoSPARC v3.3.1 emd_14384.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 317.952 317.952 317.952 90.0 90.0 90.0 X Y Z -0.14119336 0.29840082 -0.00051640836 0.0085361665 0.828 0.828 0.828 0.112 AUTHOR RIGID BODY FIT
Initial model for mouse oocyte Dicer was calculated using AlphaFold 2.0. Initial rigid body fitting was done using Chimera. Further refinement was done using ISOLDE with distance restrains
Correlation coefficient REAL 451.399999999999977 emd_14384_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 317.952 317.952 317.952 90.0 90.0 90.0 X Y Z -0.084782444 0.20231105 0.000076312404 0.008282777 0.828 0.828 0.828 AUTHOR emd_14384_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 317.952 317.952 317.952 90.0 90.0 90.0 X Y Z -0.07404108 0.21090539 0.00006900489 0.00825757 0.828 0.828 0.828 AUTHOR