2024-02-14 REL RCSB RCSB RCSB 2023-05-23 2024-01-10 2024-01-10 2024-02-14 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) P41 GM109824 United States Single particle reconstruction of the human LINE-1 ORF2p without substrate (apo) van Eeuwen T Taylor MS Rout MP reverse transcriptase, LINE-1, RNA BINDING PROTEIN Baldwin ET van Eeuwen T Hoyos D Zalevsky A Tchesnokov EP Sanchez R Miller BD Di Stefano LH Ruiz FX Hancock M Isik E Mendez-Dorantes C Walpole T Nichols C Wan P Riento K Halls-Kass R Augustin M Lammens A Jestel A Upla P Xibinaku K Congreve S Hennink M Rogala KB Schneider AM Fairman JE Christensen SM Desrosiers B Bisacchi GS Saunders OL Hafeez N Miao W Kapeller R Zaller DM Sali A Weichenrieder O Burns KH Gotte M Rout MP Arnold E Greenbaum BD Romero DL LaCava J Taylor MS Structures, functions and adaptations of the human LINE-1 ORF2 protein. Nature UK 626 194 206 2024 38096902 doi:10.1038/s41586-023-06947-z 1476-4687 0006 NATUAS Long Interspersed Nuclear Element (LINE)-1 ORF2 protein Long Interspersed Nuclear Element (LINE)-1 ORF2 protein 0 1 Homo sapiens LINE-1 retrotransposable element ORF2 protein Homo sapiens Escherichia coli LEVO MTGSNSHITILTLNVNGLNSPIKRHRLASWIKSQDPSVCCIQETHLTCRDTHRLKIKGWRKIYQANGKQKKAGVAILVSDKTDFKPTKIKRDKEGHYIMVKGSIQQEELTILNIYAPNTGAPRFIKQVLSDLQRDLDSHTLIMGDFNTPLSILDRSTRQKVNKDTQELNSALHQTDLIDIYRTLHPKSTEYTFFSAPHHTYSKIDHIVGSKALLSKCKRTEIITNYLSDHSAIKLELRIKNLTQSRSTTWKLNNLLLNDYWVHNEMKAEIKMFFETNENKDTTYQNLWDAFKAVCRGKFIALNAYKRKQERSKIDTLTSQLKELEKQEQTHSKASRRQEITKIRAELKEIETQKTLQKINESRSWFFERINKIDRPLARLIKKKREKNQIDTIKNDKGDITTDPTEIQTTIREYYKHLYANKLENLEEMDTFLDTYTLPRLNQEEVESLNRPITGSEIVAIINSLPTKKSPGPDGFTAEFYQRYKEELVPFLLKLFQSIEKEGILPNSFYEASIILIPKPGRDTTKKENFRPISLMNIDAKILNKILANRIQQHIKKLIHHDQVGFIPGMQGWFNIRKSINVIQHINRAKDKNHVIISIDAEKAFDKIQQPFMLKTLNKLGIDGMYLKIIRAIYDKPTANIILNGQKLEAFPLKTGTRQGCPLSPLLFNIVLEVLARAIRQEKEIKGIQLGKEEVKLSLFADDMIVYLENPIVSAQNLLKLISNFSKVSGYKINVQKSQAFLYNNNRQTESQIMGELPFTIASKRIKYLGIQLTRDVKDLFKENYKPLLKEIKEDTNKWKNIPCSWVGRINIVKMAILPKVIYRFNAIPIKLPMTFFTELEKTTLKFIWNQKRARIAKSILSQKNKAGGITLPDFKLYYKATVTKTAWYWYQNRDIDQWNRTEPSEIMPHIYNYLIFDKPEKNKQWGKDSLLNKWCWENWLAICRKLKLDPFLTPYTKINSRWIKDLNVKPKTIKTLEENLGITIQDIGVGKDFMSKTPKAMATKDKIDKWDLIKLKSFCTAKETTIRVNRQPTTWEKIFATYSSDKGLISRIYNELKQIYKKKTNNPIKKWAKDMNRHFSKEDIYAAKKHMKKCSSSLAIREMQIKTTMRYHLTPVRMAIIKKSGNNRCWRGCGEIGTLVHCWWDCKLVQPLWKSVWRFLRDLELEIPFDPAIPLLGIYPKDYKSCCYKDTCTRMFIAALFTIAKTWNQPNCPTMIDWIKKMWHIYTMEYYAAIKNDEFISFVGTWMKLETIILSKLSQEQKTKHRIFSLIGGN singleParticle particle 0.15 7.6 20.0 C8H18N2O4S HEPES 150.0 NaCl sodium chloride 2.0 Mg(CH3COO)2 magnesium acetate 2.0 C4H10O2S2 DTT
20mM HEPES pH 7.6, 150mM NaCl, 2mM MgOAc, 2mM DTT, 2mM dTTP
 Quantifoil R1.2/1.3 COPPER 300 GLOW DISCHARGE AIR ETHANE LEICA EM CPC
Manually blotted from the back.
Sample was monodisperse though unstable
 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 1.0 2.8000000000000003 130000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GATAN K3 BIOQUANTUM (6k x 4k) 1 6411 51.0
Super-resolution images collected in dose-fractionation mode over 38 frames wiht a dose per frame of 1.32 e/A2
 1
Movies were binned during motion and gain correction
1081711
Particles were template picked using 2D class average references
 Ab initio model
Ab initio model was generated in cryoSPARC from the data
 C1 FOURIER SPACE 4.06 FSC 0.143 CUT-OFF cryoSPARC 3.3.1 104980 MAXIMUM LIKELIHOOD cryoSPARC 3.3.1 RELION 3.1 MAXIMUM LIKELIHOOD cryoSPARC 3.3.1 emd_40856.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 208.0 208.0 208.0 90.0 90.0 90.0 X Y Z -0.20860232 0.4670853 0.0014246075 0.017033702 0.65 0.65 0.65 0.104 AUTHOR Main map of apo ORF2p core emd_40856_msk_1.map emd_40856_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 208.0 208.0 208.0 90.0 90.0 90.0 X Y Z -0.20810474 0.4664678 0.0014246076 0.017025018 0.65 0.65 0.65 AUTHOR 4.5 angstrom lowpass filtered map emd_40856_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 208.0 208.0 208.0 90.0 90.0 90.0 X Y Z -0.34043425 0.5707407 0.0011556188 0.032693103 0.65 0.65 0.65 AUTHOR Half map B emd_40856_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 208.0 208.0 208.0 90.0 90.0 90.0 X Y Z -0.33048162 0.5515151 0.001160002 0.032848965 0.65 0.65 0.65 AUTHOR Half map A