TiLV-NP tetramer (pseudo-C2) (local refinement around 2 TiLV-NPs)

2025-12-10 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY POLYMER_SEQUENCE em_admin entity_poly _em_admin.last_update _entity_poly.type OTHER em_admin entity_poly _em_admin.last_update _entity_poly.type PDBe PDBe 2024-11-08 2025-03-12 2025-03-12 2025-12-10 Other government France TiLV-NP tetramer (pseudo-C2) (local refinement around 2 TiLV-NPs) Arragain B Cusack S Viral protein, nucleoprotein, oligomer, RNA BINDING PROTEIN Arragain B Pelosse M Huard K Cusack S Structure of the tilapia lake virus nucleoprotein bound to RNA. Nucleic Acids Res. UK 53 2025 39995042 doi:10.1093/nar/gkaf112 1362-4962 0389 NARHAD 9hbu FULLOVERLAP EMDB EMD-52030 associated EM volume

TiLV-NP bound to the 40-mer vRNA loop TiLV-NP bound to the 40-mer vRNA loop 0 1 2 Tilapia lake virus Tilapia Lake Virus nucleoprotein (segment 4) Tilapia lake virus 0.038387129 3 Trichoplusia ni LEVO MVRTTKTSMAAASTVAPEVAMDEGSPSTSQAQVELPRNLEVFNEACGHVFGSSFNREDNSVISDAAAFLFKMHTHSLDGQ EAKVLRASEKKRERENAKKSRKAPEAGMRVGRSLILTSRWTEYCATCVPALGSKMKVIKASGDAAMIQMMKDHNSLLRVC VRIEVWKARYVSLVALDERIQTLEDAQWFPYLSGDSYRACPGLVGGYFAKKAAAGERGKNYKKLNQTAIIPPPRFLIIGH RLQIGDQVTLRELLASIAWGLCDGVLAECWSPSQGDGSIGVVVGLPLQATGSCFLVVASHGLSAIADSRIEGTGNTNLLE ECIAIQKQDGVIKCKRSGKSLYHCLKETAGAVGR A0A1Y9SHW7 40-mer vRNA loop Tilapia lake virus 0.010819961999999999

The RNA sequence (40-mer vRNA loop) is 5' - pGCA AAU CUU UCU CAC GUC CUG ACU UGU GAG UAA AAU UUG G - 3'. Due to the inability to precisely define bases, the exact nucleotide register remains elusive. Thus, in the modelling, generic purines (P5P) and generic pyrimidines (Y5P) were assigned based on apparent base size.

1 (P5P)(P5P)(P5P)(Y5P)(Y5P)(Y5P)(Y5P)(Y5P)(Y5P)(Y5P)(Y5P)(Y5P)(Y5P)(P5P)(Y5P)(P5P) (Y5P)(Y5P)(Y5P)(P5P)(P5P)(Y5P)(P5P)(Y5P)(P5P)(P5P)(P5P)(P5P)(P5P)(P5P)(P5P)(P5P) (Y5P)(Y5P)(Y5P)(Y5P)(P5P) singleParticle particle 8.0 ETHANE TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.8 2.0 GATAN K3 BIOQUANTUM (6k x 4k) 50.0 1 cryoSPARC PHASE FLIPPING AND AMPLITUDE CORRECTION C1 3.51 FSC 0.143 CUT-OFF cryoSPARC 176605 MAXIMUM LIKELIHOOD cryoSPARC MAXIMUM LIKELIHOOD cryoSPARC emd_52030.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 340 340 340 0 0 0 340 340 340 279.48 279.48 279.48 90.0 90.0 90.0 X Y Z -0.554528 0.69419956 -0.0002174534 0.0089866435 0.822 0.822 0.822 0.07 AUTHOR ::::EMDATABANK.org::::EMD-52030:::: sharpened REAL emd_52030_msk_1.map emd_52030_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 340 340 340 0 0 0 340 340 340 279.48 279.48 279.48 90.0 90.0 90.0 X Y Z -0.08860347 0.18264535 -0.00021745339 0.0033742685 0.822 0.822 0.822 AUTHOR ::::EMDATABANK.org::::EMD-52030:::: unsharpened emd_52030_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 340 340 340 0 0 0 340 340 340 279.48 279.48 279.48 90.0 90.0 90.0 X Y Z -0.17613453 0.20912527 -0.00000363251 0.018382097 0.822 0.822 0.822 AUTHOR ::::EMDATABANK.org::::EMD-52030:::: emd_52030_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 340 340 340 0 0 0 340 340 340 279.48 279.48 279.48 90.0 90.0 90.0 X Y Z -0.16073292 0.21812938 -0.0000047043495 0.01824768 0.822 0.822 0.822 AUTHOR ::::EMDATABANK.org::::EMD-52030::::