2025-10-08 REL PDBe INITIAL_RELEASE REPOSITORY STRUCTURE_SUMMARY em_admin entity entity_name_com struct_ref struct_ref_seq struct_ref_seq_dif _em_admin.last_update _entity.pdbx_description _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_seq_one_letter_code _struct_ref_seq.pdbx_db_accession DATA_COLLECTION em_admin _em_admin.last_update STRUCTURE_SUMMARY atom_site citation citation_author em_admin entity pdbx_validate_planes pdbx_validate_rmsd_angle pdbx_validate_torsion struct_conf _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _em_admin.last_update _entity.pdbx_description _pdbx_validate_planes.auth_asym_id _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_seq_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_seq_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_seq_id _struct_conf.end_label_asym_id _struct_conf.end_label_comp_id _struct_conf.end_label_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.pdbx_PDB_helix_length DATABASE_REFERENCES citation citation_author em_admin _citation.journal_volume _citation.page_first _citation.page_last _citation_author.identifier_ORCID _em_admin.last_update DATABASE_REFERENCES citation citation_author em_admin _citation.page_first _citation.page_last _citation_author.identifier_ORCID _em_admin.last_update PDBe PDBe 2024-06-01 2024-11-06 2024-11-06 2025-10-08 Swedish Research Council 2018-05851 Sweden LGTV with TBEV prME Bisikalo K Rosendal E Chimeric virus, Flavivirus, Tick-borne Encephalitis virus, Langat virus, recombinant virus, VIRUS Rosendal E Bisikalo K Willekens SMA Lindgren M Holoubek J Svoboda P Lappalainen A Konighofer E Mirgorodskaya E Norden R Morini F Rosenbaum W Ruzek D Ahlgren U Anastasina M Merits A Butcher SJ Nilsson E Overby AK Influence of the pre-membrane and envelope proteins on structure, pathogenicity, and tropism of tick-borne encephalitis virus. J.Virol. US 99 e0087025 e0087025 2025 40827915 doi:10.1128/jvi.00870-25 1098-5514 0825 JOVIAM Rosendal E Bisikalo K Willekens SM Lindgren M Holoubek J Svoboda P Lappalainen A Konighofer E Mirgorodskaya E Norden R Morini F Rosenbaum W Ruzek D Ahlgren U Anastasina M Merits A Butcher SJ Nilsson E Overby AK The influence of the pre-membrane and envelope proteins on structure, pathogenicity and tropism of tick-borne encephalitis virus Biorxiv US 2024 doi:10.1101/2024.10.16.618642 2692-8205 9fk0 FULLOVERLAP EMDB EMD-50518 associated EM volume
LGTV with TBEV prME
 PDB 9FOJ unspecified LGTV with TBEV prME LGTV with TBEV prME 0 1 2
Chimeric virus based on the Langat virus (LGTV) and Tick-borne Encephalitis virus (TBEV). prM and ectodomains of E are taken from TBEV (European subtype, strain 93/873), while the rest of the virus genome is from LGTV TP21.
500.0 3 VIRION OTHER true false Envelope protein E 1 1 tick-borne encephalitis virus-European subtype Chimeric virus (prME from TBEV) Small envelope protein M 1 2 tick-borne encephalitis virus-European subtype Chimeric virus (prME from TBEV) Envelope protein E Langat virus (strain TP21) 93/783 0.053646422 3 Homo sapiens LEVO SRCTHLENRDFVTGTQGTTRVTLVLELGGCVTITAEGKPSMDVWLDAIYQENPAKTREYCLHAKLSDTKVAARCPTMGPA TLTEEHQGGTVCKRDQSDRGWGNHCGLFGKGSIVACVKAACEAKKKATGHVYDANKIVYTVKVEPHTGDYVAANETHSGR KTASFTVSSEKTILTMGEYGDVSLLCRVASGVDLAQTVILELDKTVEHLPTAWQVHRDWFNDLALPWKHEGAQNWNNAER LVEFGAPHAVKMDVYNLGDQTGVLLKALAGVPVAHIEGTKYHLKSGHVTCEVGLEKLKMKGLTYTMCDKTKFTWKRAPTD SGHDTVVMEVTFSGTKPCRIPVRAVAHGSPDVNVAMLITPNPTIENNGGGFIEMQLPPGDNIIYVGELSHQWFQKGSSIG RVFQKTKKGIERLTVIGEHAWDFGSAGGFMTSIGRAMHTVLGGAFNTLLGGVGFLPKILLGVAMAWLGLNMRNPTLSMGF LLSGGLVLAMTLGVGA A0A7M3UFX3 P29837 Small envelope protein M tick-borne encephalitis virus-European subtype 93/783 0.008311853999999999 3 Homo sapiens LEVO SVLIPSHAQGELTGRGHKWLEGDSLRTHLTRVEGWVWKNKLLALAMVTVVWLTLESVVTRVAVLVVLLCLAPVYA A0A7M3UFX3 1-PALMITOYL-2-LINOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE 0.00075806 6 CPL singleParticle particle 8.0
VP-SFM growth medium, supplemented with rapamycin and glutamate.
 Quantifoil R1.2/1.3 COPPER 300 CARBON CONTINUOUS 2.0 GLOW DISCHARGE OTHER ETHANE 90 298 LEICA EM GP TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 0.5 1.5 130000.0 FEI TITAN KRIOS AUTOGRID HOLDER TFS FALCON 4i (4k x 4k) COUNTING 1 32122 4.27 40.0 1 97855 cryoSPARC PHASE FLIPPING AND AMPLITUDE CORRECTION
CryoSPARC Ab-Initio
 2 I FOURIER SPACE 3.22 FSC 0.143 CUT-OFF cryoSPARC 18724 MAXIMUM LIKELIHOOD cryoSPARC MAXIMUM LIKELIHOOD cryoSPARC 2 9000.0 cryoSPARC emd_50518.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 700 700 700 0 0 0 700 700 700 660.8 660.8 660.8 90.0 90.0 90.0 X Y Z -0.030535376 2.2547908 0.0066743316 0.058691252 0.944 0.944 0.944 0.04 AUTHOR Sharpened with deepEMchancer. AlphaFold in silico model emd_50518_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 700 700 700 0 0 0 700 700 700 660.8 660.8 660.8 90.0 90.0 90.0 X Y Z -0.41157585 0.3663642 0.0036190215 0.04676271 0.944 0.944 0.944 AUTHOR emd_50518_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 700 700 700 0 0 0 700 700 700 660.8 660.8 660.8 90.0 90.0 90.0 X Y Z -1.3348122 0.38282308 0.0036252046 0.046825632 0.944 0.944 0.944 AUTHOR