2024-02-14 REL RCSB RCSB RCSB 2023-05-24 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 Structure of LINE-1 ORF2p with template:primer hybrid van Eeuwen T Taylor MS Rout MP reverse transcriptase, LINE-1, RNA BINDING PROTEIN, RNA BINDING PROTEIN-RNA-DNA complex 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 EMD-40856 other EM volume 8sxt FULLOVERLAP Long Interspersed Nuclear Element (LINE)-1 ORF2 protein Long Interspersed Nuclear Element (LINE)-1 ORF2 protein 0 3 Homo sapiens DNA primer synthetic construct 0.0039756109999999996 1 (DG)(DC)(DG)(DA)(DA)(DA)(DA)(DT)(DT)(DT)(DC)(DG)(DC) DNA RNA template synthetic construct 0.005444269 1 GUGAGCGAAAUUUUCGC LINE-1 retrotransposable element ORF2 protein Homo sapiens 0.149252344 1 Escherichia coli LEVO MTGSNSHITILTLNVNGLNSPIKRHRLASWIKSQDPSVCCIQETHLTCRDTHRLKIKGWRKIYQANGKQKKAGVAILVSD KTDFKPTKIKRDKEGHYIMVKGSIQQEELTILNIYAPNTGAPRFIKQVLSDLQRDLDSHTLIMGDFNTPLSILDRSTRQK VNKDTQELNSALHQTDLIDIYRTLHPKSTEYTFFSAPHHTYSKIDHIVGSKALLSKCKRTEIITNYLSDHSAIKLELRIK NLTQSRSTTWKLNNLLLNDYWVHNEMKAEIKMFFETNENKDTTYQNLWDAFKAVCRGKFIALNAYKRKQERSKIDTLTSQ LKELEKQEQTHSKASRRQEITKIRAELKEIETQKTLQKINESRSWFFERINKIDRPLARLIKKKREKNQIDTIKNDKGDI TTDPTEIQTTIREYYKHLYANKLENLEEMDTFLDTYTLPRLNQEEVESLNRPITGSEIVAIINSLPTKKSPGPDGFTAEF YQRYKEELVPFLLKLFQSIEKEGILPNSFYEASIILIPKPGRDTTKKENFRPISLMNIDAKILNKILANRIQQHIKKLIH HDQVGFIPGMQGWFNIRKSINVIQHINRAKDKNHVIISIDAEKAFDKIQQPFMLKTLNKLGIDGMYLKIIRAIYDKPTAN IILNGQKLEAFPLKTGTRQGCPLSPLLFNIVLEVLARAIRQEKEIKGIQLGKEEVKLSLFADDMIVYLENPIVSAQNLLK LISNFSKVSGYKINVQKSQAFLYNNNRQTESQIMGELPFTIASKRIKYLGIQLTRDVKDLFKENYKPLLKEIKEDTNKWK NIPCSWVGRINIVKMAILPKVIYRFNAIPIKLPMTFFTELEKTTLKFIWNQKRARIAKSILSQKNKAGGITLPDFKLYYK ATVTKTAWYWYQNRDIDQWNRTEPSEIMPHIYNYLIFDKPEKNKQWGKDSLLNKWCWENWLAICRKLKLDPFLTPYTKIN SRWIKDLNVKPKTIKTLEENLGITIQDIGVGKDFMSKTPKAMATKDKIDKWDLIKLKSFCTAKETTIRVNRQPTTWEKIF ATYSSDKGLISRIYNELKQIYKKKTNNPIKKWAKDMNRHFSKEDIYAAKKHMKKCSSSLAIREMQIKTTMRYHLTPVRMA IIKKSGNNRCWRGCGEIGTLVHCWWDCKLVQPLWKSVWRFLRDLELEIPFDPAIPLLGIYPKDYKSCCYKDTCTRMFIAA LFTIAKTWNQPNCPTMIDWIKKMWHIYTMEYYAAIKNDEFISFVGTWMKLETIILSKLSQEQKTKHRIFSLIGGN O00370 2.7.7.49 THYMIDINE-5'-TRIPHOSPHATE 0.000482168 1 TTP MAGNESIUM ION 2.4305e-05 1 MG 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
 GLOW DISCHARGE AIR
Pelco easy glow
 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 0.0 0.8 2.5 105000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GATAN K3 BIOQUANTUM (6k x 4k) 2 11270 54.0
Super-resolution images collected in dose-fractionation mode over 54 frames with a dose per frame of 1.08 e/A2
 1
Movies were binned during motion and gain correction
1074466
Particles were template picked using 2D class average references
 Ab initio model
Ab initio model was generated in cryoSPARC from the data
 C1 3.3 FSC 0.143 CUT-OFF cryoSPARC 3.3.1 430198 MAXIMUM LIKELIHOOD cryoSPARC 3.3.1 RELION 3.1 MAXIMUM LIKELIHOOD cryoSPARC 3.3.1 emd_40858.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 240 240 240 0 0 0 240 240 240 206.40001 206.40001 206.40001 90.0 90.0 90.0 X Y Z -0.0017021794 1.9721907 0.0018094959 0.03214006 0.86 0.86 0.86 0.281 AUTHOR Main map of LINE-1 ORF2p post-processed with deepEMhancer 8C8J A PDB experimental model FLEXIBLE FIT REAL 109.0 emd_40858_msk_1.map emd_40858_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 240 240 240 0 0 0 240 240 240 206.40001 206.40001 206.40001 90.0 90.0 90.0 X Y Z -1.2850934 2.23768 0.002379999 0.053462308 0.86 0.86 0.86 AUTHOR Main map of LINE-1 ORF2p post-processed with global B factor sharpening emd_40858_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 240 240 240 0 0 0 240 240 240 206.40001 206.40001 206.40001 90.0 90.0 90.0 X Y Z -0.38586548 1.0210865 0.0022148476 0.03946176 0.86 0.86 0.86 AUTHOR emd_40858_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 240 240 240 0 0 0 240 240 240 206.40001 206.40001 206.40001 90.0 90.0 90.0 X Y Z -0.37765914 0.96538156 0.0022258263 0.039490927 0.86 0.86 0.86 AUTHOR