data_EMD-11328
# 
_entry.id   EMD-11328 
# 
_audit_conform.dict_name       mmcif_pdbx.dic 
_audit_conform.dict_version    5.397 
_audit_conform.dict_location   http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 
# 
loop_
_database_2.database_id 
_database_2.database_code 
_database_2.pdbx_database_accession 
_database_2.pdbx_DOI 
PDB   6ZOW         pdb_00006zow 10.2210/pdb6zow/pdb 
WWPDB D_1292109861 ?            ?                   
EMDB  EMD-11328    ?            ?                   
# 
_pdbx_database_related.db_name        EMDB 
_pdbx_database_related.details        'SARS-CoV-2 spike in prefusion state' 
_pdbx_database_related.db_id          EMD-11328 
_pdbx_database_related.content_type   'associated EM volume' 
# 
loop_
_citation.abstract 
_citation.abstract_id_CAS 
_citation.book_id_ISBN 
_citation.book_publisher 
_citation.book_publisher_city 
_citation.book_title 
_citation.coordinate_linkage 
_citation.country 
_citation.database_id_Medline 
_citation.details 
_citation.id 
_citation.journal_abbrev 
_citation.journal_id_ASTM 
_citation.journal_id_CSD 
_citation.journal_id_ISSN 
_citation.journal_full 
_citation.journal_issue 
_citation.journal_volume 
_citation.language 
_citation.page_first 
_citation.page_last 
_citation.title 
_citation.year 
_citation.database_id_CSD 
_citation.pdbx_database_id_DOI 
_citation.pdbx_database_id_PubMed 
_citation.unpublished_flag 
? ? ? ? ? ? ? UK ? ? primary Iucrj   ? ? 2052-2525 ? ? 7 ? 1059 1069 
'Continuous flexibility analysis of SARS-CoV-2 spike prefusion structures.' 2020 ? 10.1107/S2052252520012725 33063791 ? 
? ? ? ? ? ? ? US ? ? 1       Biorxiv ? ? 2692-8205 ? ? ? ? ?    ?    
'Continuous flexibility analysis of SARS-CoV-2 Spike prefusion structures.' 2020 ? 10.1101/2020.07.08.191072 32676604 ? 
# 
loop_
_citation_author.citation_id 
_citation_author.name 
_citation_author.ordinal 
_citation_author.identifier_ORCID 
primary 'Melero, R.'           1  0000-0001-9467-9381 
primary 'Sorzano, C.O.S.'      2  ?                   
primary 'Foster, B.'           3  ?                   
primary 'Vilas, J.L.'          4  ?                   
primary 'Martinez, M.'         5  0000-0002-8435-5540 
primary 'Marabini, R.'         6  0000-0001-7876-1684 
primary 'Ramirez-Aportela, E.' 7  ?                   
primary 'Sanchez-Garcia, R.'   8  0000-0001-6156-3542 
primary 'Herreros, D.'         9  ?                   
primary 'Del Cano, L.'         10 ?                   
primary 'Losana, P.'           11 ?                   
primary 'Fonseca-Reyna, Y.C.'  12 ?                   
primary 'Conesa, P.'           13 ?                   
primary 'Wrapp, D.'            14 ?                   
primary 'Chacon, P.'           15 ?                   
primary 'McLellan, J.S.'       16 ?                   
primary 'Tagare, H.D.'         17 ?                   
primary 'Carazo, J.M.'         18 ?                   
1       'Melero, R.'           19 0000-0001-9467-9381 
1       'Sorzano, C.O.S.'      20 ?                   
1       'Foster, B.'           21 ?                   
1       'Vilas, J.L.'          22 ?                   
1       'Martinez, M.'         23 0000-0002-8435-5540 
1       'Marabini, R.'         24 0000-0001-7876-1684 
1       'Ramirez-Aportela, E.' 25 ?                   
1       'Sanchez-Garcia, R.'   26 0000-0001-6156-3542 
1       'Herreros, D.'         27 ?                   
1       'Del Cano, L.'         28 ?                   
1       'Losana, P.'           29 ?                   
1       'Fonseca-Reyna, Y.C.'  30 ?                   
1       'Conesa, P.'           31 ?                   
1       'Wrapp, D.'            32 ?                   
1       'Chacon, P.'           33 ?                   
1       'McLellan, J.S.'       34 ?                   
1       'Tagare, H.D.'         35 ?                   
1       'Carazo, J.M.'         36 ?                   
# 
loop_
_entity.id 
_entity.type 
_entity.src_method 
_entity.pdbx_description 
_entity.formula_weight 
_entity.pdbx_number_of_molecules 
_entity.pdbx_ec 
_entity.pdbx_mutation 
_entity.pdbx_fragment 
_entity.details 
1 polymer     man 'Spike glycoprotein' 142399.375 4  ? 'K986P, E987P' ? ? 
2 branched    man '2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose' 424.401    16 ? ? ? ? 
3 branched    man 
;alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
;
748.682    4  ? ?              ? ? 
4 branched    man 
'beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose' 586.542    6  
? ?              ? ? 
5 branched    man 
'beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose' 586.542    1  
? ?              ? ? 
6 non-polymer man 2-acetamido-2-deoxy-beta-D-glucopyranose 221.208    18 ? ?              ? ? 
7 non-polymer man alpha-D-mannopyranose 180.156    2  ? ?              ? ? 
8 non-polymer syn 'DIMETHYL SULFOXIDE' 78.133     3  ? ?              ? ? 
9 water       nat water 18.015     4  ? ?              ? ? 
# 
_entity_poly.entity_id                  1 
_entity_poly.type                       'polypeptide(L)' 
_entity_poly.pdbx_seq_one_letter_code   
;MFVFLVLLPLVSSQCVNLTTRTQLPPAYTNSFTRGVYYPDKVFRSSVLHSTQDLFLPFFSNVTWFHAIHVSGTNGTKRFD
NPVLPFNDGVYFASTEKSNIIRGWIFGTTLDSKTQSLLIVNNATNVVIKVCEFQFCNDPFLGVYYHKNNKSWMESEFRVY
SSANNCTFEYVSQPFLMDLEGKQGNFKNLREFVFKNIDGYFKIYSKHTPINLVRDLPQGFSALEPLVDLPIGINITRFQT
LLALHRSYLTPGDSSSGWTAGAAAYYVGYLQPRTFLLKYNENGTITDAVDCALDPLSETKCTLKSFTVEKGIYQTSNFRV
QPTESIVRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSF
VIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPC
NGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTNLVKNKCVNFNFNGLTGTGVLTESNKKFL
PFQQFGRDIADTTDAVRDPQTLEILDITPCSFGGVSVITPGTNTSNQVAVLYQDVNCTEVPVAIHADQLTPTWRVYSTGS
NVFQTRAGCLIGAEHVNNSYECDIPIGAGICASYQTQTNSPGSASSVASQSIIAYTMSLGAENSVAYSNNSIAIPTNFTI
SVTTEILPVSMTKTSVDCTMYICGDSTECSNLLLQYGSFCTQLNRALTGIAVEQDKNTQEVFAQVKQIYKTPPIKDFGGF
NFSQILPDPSKPSKRSFIEDLLFNKVTLADAGFIKQYGDCLGDIAARDLICAQKFNGLTVLPPLLTDEMIAQYTSALLAG
TITSGWTFGAGAALQIPFAMQMAYRFNGIGVTQNVLYENQKLIANQFNSAIGKIQDSLSSTASALGKLQDVVNQNAQALN
TLVKQLSSNFGAISSVLNDILSRLDPPEAEVQIDRLITGRLQSLQTYVTQQLIRAAEIRASANLAATKMSECVLGQSKRV
DFCGKGYHLMSFPQSAPHGVVFLHVTYVPAQEKNFTTAPAICHDGKAHFPREGVFVSNGTHWFVTQRNFYEPQIITTDNT
FVSGNCDVVIGIVNNTVYDPLQPELDSFKEELDKYFKNHTSPDVDLGDISGINASVVNIQKEIDRLNEVAKNLNESLIDL
QELGKYEQGSGYIPEAPRDGQAYVRKDGEWVLLSTFLGRSLEVLFQGPGHHHHHHHHSAWSHPQFEKGGGSGGGGSGGSA
WSHPQFEK
;
# 
loop_
_pdbx_entity_nonpoly.entity_id 
_pdbx_entity_nonpoly.name 
_pdbx_entity_nonpoly.comp_id 
6 2-acetamido-2-deoxy-beta-D-glucopyranose NAG 
7 alpha-D-mannopyranose                    MAN 
8 'DIMETHYL SULFOXIDE'                     DMS 
9 water                                    HOH 
# 
_entity_src_gen.entity_id                          1 
_entity_src_gen.pdbx_src_id                        1 
_entity_src_gen.pdbx_alt_source_flag               sample 
_entity_src_gen.pdbx_seq_type                      'Biological sequence' 
_entity_src_gen.pdbx_beg_seq_num                   1 
_entity_src_gen.pdbx_end_seq_num                   1288 
_entity_src_gen.gene_src_common_name               2019-nCoV 
_entity_src_gen.gene_src_genus                     ? 
_entity_src_gen.pdbx_gene_src_gene                 'S, 2' 
_entity_src_gen.gene_src_species                   ? 
_entity_src_gen.gene_src_strain                    ? 
_entity_src_gen.gene_src_tissue                    ? 
_entity_src_gen.gene_src_tissue_fraction           ? 
_entity_src_gen.gene_src_details                   ? 
_entity_src_gen.pdbx_gene_src_fragment             ? 
_entity_src_gen.pdbx_gene_src_scientific_name      'Severe acute respiratory syndrome coronavirus 2' 
_entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id     2697049 
_entity_src_gen.pdbx_gene_src_variant              ? 
_entity_src_gen.pdbx_gene_src_cell_line            ? 
_entity_src_gen.pdbx_gene_src_atcc                 ? 
_entity_src_gen.pdbx_gene_src_culture_collection   ? 
_entity_src_gen.pdbx_gene_src_organ                ? 
_entity_src_gen.pdbx_gene_src_organelle            ? 
_entity_src_gen.pdbx_gene_src_cell                 ? 
_entity_src_gen.pdbx_gene_src_cellular_location    ? 
_entity_src_gen.host_org_common_name               Human 
_entity_src_gen.pdbx_host_org_scientific_name      'Homo sapiens' 
_entity_src_gen.pdbx_host_org_ncbi_taxonomy_id     9606 
_entity_src_gen.host_org_genus                     ? 
_entity_src_gen.pdbx_host_org_gene                 ? 
_entity_src_gen.pdbx_host_org_organ                ? 
_entity_src_gen.host_org_species                   ? 
_entity_src_gen.pdbx_host_org_tissue               ? 
_entity_src_gen.pdbx_host_org_tissue_fraction      ? 
_entity_src_gen.pdbx_host_org_strain               ? 
_entity_src_gen.pdbx_host_org_variant              ? 
_entity_src_gen.pdbx_host_org_cell_line            FreeStyle293F 
_entity_src_gen.pdbx_host_org_atcc                 ? 
_entity_src_gen.pdbx_host_org_culture_collection   ? 
_entity_src_gen.pdbx_host_org_cell                 ? 
_entity_src_gen.pdbx_host_org_organelle            ? 
_entity_src_gen.pdbx_host_org_cellular_location    ? 
_entity_src_gen.pdbx_host_org_vector_type          ? 
_entity_src_gen.pdbx_host_org_vector               ? 
_entity_src_gen.host_org_details                   ? 
_entity_src_gen.expression_system_id               ? 
_entity_src_gen.plasmid_name                       palphaH 
_entity_src_gen.plasmid_details                    ? 
_entity_src_gen.pdbx_description                   ? 
# 
loop_
_chem_comp.id 
_chem_comp.type 
_chem_comp.mon_nstd_flag 
_chem_comp.name 
_chem_comp.pdbx_synonyms 
_chem_comp.formula 
_chem_comp.formula_weight 
ALA 'L-peptide linking'           y ALANINE                                  ? 'C3 H7 N O2'     89.093  
ARG 'L-peptide linking'           y ARGININE                                 ? 'C6 H15 N4 O2 1' 175.209 
ASN 'L-peptide linking'           y ASPARAGINE                               ? 'C4 H8 N2 O3'    132.118 
ASP 'L-peptide linking'           y 'ASPARTIC ACID'                          ? 'C4 H7 N O4'     133.103 
BMA 'D-saccharide, beta linking'  . beta-D-mannopyranose                     'beta-D-mannose; D-mannose; mannose' 'C6 H12 O6'      
180.156 
CYS 'L-peptide linking'           y CYSTEINE                                 ? 'C3 H7 N O2 S'   121.158 
DMS non-polymer                   . 'DIMETHYL SULFOXIDE'                     ? 'C2 H6 O S'      78.133  
GLN 'L-peptide linking'           y GLUTAMINE                                ? 'C5 H10 N2 O3'   146.144 
GLU 'L-peptide linking'           y 'GLUTAMIC ACID'                          ? 'C5 H9 N O4'     147.129 
GLY 'peptide linking'             y GLYCINE                                  ? 'C2 H5 N O2'     75.067  
HIS 'L-peptide linking'           y HISTIDINE                                ? 'C6 H10 N3 O2 1' 156.162 
HOH non-polymer                   . WATER                                    ? 'H2 O'           18.015  
ILE 'L-peptide linking'           y ISOLEUCINE                               ? 'C6 H13 N O2'    131.173 
LEU 'L-peptide linking'           y LEUCINE                                  ? 'C6 H13 N O2'    131.173 
LYS 'L-peptide linking'           y LYSINE                                   ? 'C6 H15 N2 O2 1' 147.195 
MAN 'D-saccharide, alpha linking' . alpha-D-mannopyranose                    'alpha-D-mannose; D-mannose; mannose' 'C6 H12 O6' 
180.156 
MET 'L-peptide linking'           y METHIONINE                               ? 'C5 H11 N O2 S'  149.211 
NAG 'D-saccharide, beta linking'  . 2-acetamido-2-deoxy-beta-D-glucopyranose 
;N-acetyl-beta-D-glucosamine; 2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE
;
'C8 H15 N O6'    221.208 
PHE 'L-peptide linking'           y PHENYLALANINE                            ? 'C9 H11 N O2'    165.189 
PRO 'L-peptide linking'           y PROLINE                                  ? 'C5 H9 N O2'     115.130 
SER 'L-peptide linking'           y SERINE                                   ? 'C3 H7 N O3'     105.093 
THR 'L-peptide linking'           y THREONINE                                ? 'C4 H9 N O3'     119.119 
TRP 'L-peptide linking'           y TRYPTOPHAN                               ? 'C11 H12 N2 O2'  204.225 
TYR 'L-peptide linking'           y TYROSINE                                 ? 'C9 H11 N O3'    181.189 
VAL 'L-peptide linking'           y VALINE                                   ? 'C5 H11 N O2'    117.146 
# 
_exptl.entry_id         EMD-11328 
_exptl.details          ? 
_exptl.method           'ELECTRON MICROSCOPY' 
_exptl.method_details   ? 
# 
_struct_keywords.entry_id        EMD-11328 
_struct_keywords.text            'Spike, Prefusion, VIRAL PROTEIN' 
_struct_keywords.pdbx_keywords   'VIRAL PROTEIN' 
_struct_keywords.pdbx_details    ? 
# 
_struct_ref.id          1 
_struct_ref.db_name     UNP 
_struct_ref.db_code     SPIKE_SARS2 
_struct_ref.entity_id   1 
# 
_em_3d_fitting.entry_id          EMD-11328 
_em_3d_fitting.id                1 
_em_3d_fitting.details           
;Initial models 6VSB and 6VYB were used for flexible fitting, whereas 6YLA was used for rigid fitting of the RBD domain of chain A, that we have called a in the final structure.
;
_em_3d_fitting.overall_b_value   ? 
_em_3d_fitting.ref_protocol      'FLEXIBLE FIT' 
_em_3d_fitting.ref_space         REAL 
_em_3d_fitting.target_criteria   ? 
_em_3d_fitting.method            ? 
# 
loop_
_em_3d_fitting_list.3d_fitting_id 
_em_3d_fitting_list.id 
_em_3d_fitting_list.details 
_em_3d_fitting_list.pdb_chain_id 
_em_3d_fitting_list.pdb_chain_residue_range 
_em_3d_fitting_list.pdb_entry_id 
_em_3d_fitting_list.initial_refinement_model_id 
_em_3d_fitting_list.chain_id 
_em_3d_fitting_list.chain_residue_range 
_em_3d_fitting_list.source_name 
_em_3d_fitting_list.type 
_em_3d_fitting_list.accession_code 
1 1 ? A 1-335    6VSB 1 ? ? PDB 'experimental model' 6VSB 
1 2 ? A 526-1208 6VSB 1 ? ? PDB 'experimental model' 6VSB 
1 3 ? B 1-1208   6VSB 1 ? ? PDB 'experimental model' 6VSB 
1 4 ? C 1-1208   6VSB 1 ? ? PDB 'experimental model' 6VSB 
1 5 ? A 1-335    6VYB 2 ? ? PDB 'experimental model' 6VYB 
1 6 ? A 526-1208 6VYB 2 ? ? PDB 'experimental model' 6VYB 
1 7 ? B 1-1208   6VYB 2 ? ? PDB 'experimental model' 6VYB 
1 8 ? C 1-1208   6VYB 2 ? ? PDB 'experimental model' 6VYB 
1 9 ? A 336-525  6YLA 3 ? ? PDB 'experimental model' 6YLA 
# 
_em_3d_reconstruction.entry_id                    EMD-11328 
_em_3d_reconstruction.id                          1 
_em_3d_reconstruction.algorithm                   ? 
_em_3d_reconstruction.details                     ? 
_em_3d_reconstruction.fsc_type                    ? 
_em_3d_reconstruction.refinement_type             ? 
_em_3d_reconstruction.image_processing_id         1 
_em_3d_reconstruction.num_class_averages          ? 
_em_3d_reconstruction.num_particles               203000 
_em_3d_reconstruction.resolution                  3 
_em_3d_reconstruction.resolution_method           'FSC 0.143 CUT-OFF' 
_em_3d_reconstruction.symmetry_type               POINT 
_em_3d_reconstruction.method                      ? 
_em_3d_reconstruction.nominal_pixel_size          ? 
_em_3d_reconstruction.actual_pixel_size           ? 
_em_3d_reconstruction.magnification_calibration   ? 
# 
_em_buffer.id            1 
_em_buffer.details       ? 
_em_buffer.pH            8 
_em_buffer.specimen_id   1 
_em_buffer.name          ? 
# 
_em_entity_assembly.id                   1 
_em_entity_assembly.parent_id            0 
_em_entity_assembly.details              ? 
_em_entity_assembly.go_id                ? 
_em_entity_assembly.name                 'Spike homotrimer in prefusion state' 
_em_entity_assembly.source               RECOMBINANT 
_em_entity_assembly.type                 COMPLEX 
_em_entity_assembly.entity_id_list       1 
_em_entity_assembly.ipr_id               ? 
_em_entity_assembly.synonym              ? 
_em_entity_assembly.number_of_copies     ? 
_em_entity_assembly.oligomeric_details   ? 
# 
_em_imaging.id                              1 
_em_imaging.entry_id                        EMD-11328 
_em_imaging.accelerating_voltage            300 
_em_imaging.alignment_procedure             ? 
_em_imaging.c2_aperture_diameter            ? 
_em_imaging.calibrated_defocus_max          ? 
_em_imaging.calibrated_defocus_min          ? 
_em_imaging.calibrated_magnification        ? 
_em_imaging.cryogen                         ? 
_em_imaging.details                         ? 
_em_imaging.electron_source                 'FIELD EMISSION GUN' 
_em_imaging.illumination_mode               'FLOOD BEAM' 
_em_imaging.microscope_model                'FEI TITAN KRIOS' 
_em_imaging.mode                            'BRIGHT FIELD' 
_em_imaging.nominal_cs                      ? 
_em_imaging.nominal_defocus_max             ? 
_em_imaging.nominal_defocus_min             ? 
_em_imaging.nominal_magnification           ? 
_em_imaging.recording_temperature_maximum   ? 
_em_imaging.recording_temperature_minimum   ? 
_em_imaging.residual_tilt                   ? 
_em_imaging.specimen_holder_model           ? 
_em_imaging.specimen_id                     1 
_em_imaging.sample_support_id               1 
_em_imaging.citation_id                     ? 
_em_imaging.detector_id                     1 
_em_imaging.scans_id                        1 
_em_imaging.date                            ? 
_em_imaging.temperature                     ? 
_em_imaging.tilt_angle_min                  ? 
_em_imaging.tilt_angle_max                  ? 
_em_imaging.astigmatism                     ? 
_em_imaging.detector_distance               ? 
_em_imaging.electron_beam_tilt_params       ? 
_em_imaging.specimen_holder_type            ? 
# 
_em_vitrification.id                      1 
_em_vitrification.specimen_id             1 
_em_vitrification.chamber_temperature     ? 
_em_vitrification.cryogen_name            ETHANE 
_em_vitrification.details                 ? 
_em_vitrification.humidity                ? 
_em_vitrification.instrument              ? 
_em_vitrification.entry_id                EMD-11328 
_em_vitrification.sample_preparation_id   ? 
_em_vitrification.citation_id             ? 
_em_vitrification.method                  ? 
_em_vitrification.temp                    ? 
_em_vitrification.time_resolved_state     ? 
# 
_em_experiment.entry_id                EMD-11328 
_em_experiment.id                      1 
_em_experiment.aggregation_state       PARTICLE 
_em_experiment.reconstruction_method   'SINGLE PARTICLE' 
_em_experiment.entity_assembly_id      1 
# 
_em_admin.entry_id              EMD-11328 
_em_admin.current_status        REL 
_em_admin.deposition_date       2020-07-07 
_em_admin.deposition_site       PDBE 
_em_admin.details               ? 
_em_admin.last_update           2024-10-16 
_em_admin.map_release_date      2020-07-29 
_em_admin.obsoleted_date        ? 
_em_admin.title                 'SARS-CoV-2 spike in prefusion state' 
_em_admin.header_release_date   2020-07-29 
# 
loop_
_em_author_list.ordinal 
_em_author_list.author 
_em_author_list.identifier_ORCID 
1 'Martinez, M.' ? 
2 'Marabini, R.' ? 
# 
_em_ctf_correction.id                                1 
_em_ctf_correction.em_image_processing_id            1 
_em_ctf_correction.type                              'PHASE FLIPPING AND AMPLITUDE CORRECTION' 
_em_ctf_correction.details                           ? 
_em_ctf_correction.amplitude_correction              ? 
_em_ctf_correction.amplitude_correction_factor       ? 
_em_ctf_correction.amplitude_correction_space        ? 
_em_ctf_correction.correction_operation              ? 
_em_ctf_correction.phase_reversal                    ? 
_em_ctf_correction.phase_reversal_anisotropic        ? 
_em_ctf_correction.phase_reversal_correction_space   ? 
# 
_em_db_reference.id             1 
_em_db_reference.access_code    6ZOW 
_em_db_reference.db_name        PDB 
_em_db_reference.details        ? 
_em_db_reference.relationship   'IN FRAME' 
# 
_em_entity_assembly_naturalsource.id                   2 
_em_entity_assembly_naturalsource.entity_assembly_id   1 
_em_entity_assembly_naturalsource.cell                 ? 
_em_entity_assembly_naturalsource.cellular_location    ? 
_em_entity_assembly_naturalsource.ncbi_tax_id          2697049 
_em_entity_assembly_naturalsource.organ                ? 
_em_entity_assembly_naturalsource.organelle            ? 
_em_entity_assembly_naturalsource.organism             'Severe acute respiratory syndrome coronavirus 2' 
_em_entity_assembly_naturalsource.strain               ? 
_em_entity_assembly_naturalsource.tissue               ? 
# 
_em_entity_assembly_recombinant.id                   2 
_em_entity_assembly_recombinant.entity_assembly_id   1 
_em_entity_assembly_recombinant.cell                 FreeStyle293F 
_em_entity_assembly_recombinant.ncbi_tax_id          9606 
_em_entity_assembly_recombinant.organism             'Homo sapiens' 
_em_entity_assembly_recombinant.plasmid              palphaH 
_em_entity_assembly_recombinant.strain               ? 
# 
loop_
_em_euler_angle_assignment.id 
_em_euler_angle_assignment.details 
_em_euler_angle_assignment.image_processing_id 
_em_euler_angle_assignment.order 
_em_euler_angle_assignment.proj_matching_angular_sampling 
_em_euler_angle_assignment.proj_matching_merit_function 
_em_euler_angle_assignment.proj_matching_num_projections 
_em_euler_angle_assignment.type 
1 ? 1 INITIAL ? ? ? 'ANGULAR RECONSTITUTION' 
2 ? 1 FINAL   ? ? ? 'ANGULAR RECONSTITUTION' 
# 
_em_image_processing.id                   1 
_em_image_processing.image_recording_id   1 
_em_image_processing.details              ? 
# 
_em_image_recording.id                            1 
_em_image_recording.imaging_id                    1 
_em_image_recording.avg_electron_dose_per_image   36 
_em_image_recording.average_exposure_time         ? 
_em_image_recording.details                       ? 
_em_image_recording.detector_mode                 ? 
_em_image_recording.film_or_detector_model        'GATAN K3 (6k x 4k)' 
_em_image_recording.num_diffraction_images        ? 
_em_image_recording.num_grids_imaged              ? 
_em_image_recording.num_real_images               ? 
# 
loop_
_em_map.entry_id 
_em_map.id 
_em_map.annotation_details 
_em_map.axis_order_fast 
_em_map.axis_order_medium 
_em_map.axis_order_slow 
_em_map.cell_a 
_em_map.cell_alpha 
_em_map.cell_b 
_em_map.cell_beta 
_em_map.cell_c 
_em_map.cell_gamma 
_em_map.contour_level 
_em_map.contour_level_source 
_em_map.data_type 
_em_map.dimensions_col 
_em_map.dimensions_row 
_em_map.dimensions_sec 
_em_map.endian_type 
_em_map.file 
_em_map.format 
_em_map.label 
_em_map.limit_col 
_em_map.limit_row 
_em_map.limit_sec 
_em_map.origin_col 
_em_map.origin_row 
_em_map.origin_sec 
_em_map.partition 
_em_map.pixel_spacing_x 
_em_map.pixel_spacing_y 
_em_map.pixel_spacing_z 
_em_map.size_kb 
_em_map.spacing_x 
_em_map.spacing_y 
_em_map.spacing_z 
_em_map.statistics_average 
_em_map.statistics_maximum 
_em_map.statistics_minimum 
_em_map.statistics_std 
_em_map.symmetry_space_group 
_em_map.type 
EMD-11328 1 ? X Y Z 452.30402 90.0 452.30402 90.0 452.30402 90.0 0.129 author 'Image stored as floating point number (4 bytes)' 
432 432 432 big emd_11328.map.gz              CCP4 ::::EMDATABANK.org::::EMD-11328:::: 431 431 431 0 0 0 1 1.047 1.047 1.047 
322487296 432 432 432 -4.0706724E-4 1.6117468 -0.5702415  0.028517144  1 'primary map'    
EMD-11328 2 ? X Y Z 452.30402 90.0 452.30402 90.0 452.30402 90.0 0.025 author 'Image stored as floating point number (4 bytes)' 
432 432 432 big emd_11328_additional_1.map.gz CCP4 ::::EMDATABANK.org::::EMD-11328:::: 431 431 431 0 0 0 1 1.047 1.047 1.047 
322487296 432 432 432 5.6368817E-4  1.3498855 -0.02212565 0.0128582595 1 'additional map' 
EMD-11328 3 ? X Y Z 452.30402 90.0 452.30402 90.0 452.30402 90.0 0.17  author 'Image stored as floating point number (4 bytes)' 
432 432 432 big emd_11328_additional_2.map.gz CCP4 ::::EMDATABANK.org::::EMD-11328:::: 431 431 431 0 0 0 2 1.047 1.047 1.047 
322487296 432 432 432 9.2711684E-4  7.604824  -0.06898631 0.06425331   1 'additional map' 
EMD-11328 4 ? X Y Z 452.30402 90.0 452.30402 90.0 452.30402 90.0 0.278 author 'Image stored as floating point number (4 bytes)' 
432 432 432 big emd_11328_half_map_1.map.gz   CCP4 ::::EMDATABANK.org::::EMD-11328:::: 431 431 431 0 0 0 1 1.047 1.047 1.047 
322487296 432 432 432 5.5598526E-4  1.6087053 -0.5584792  0.04743658   1 'half map'       
EMD-11328 5 ? X Y Z 452.30402 90.0 452.30402 90.0 452.30402 90.0 0.250 author 'Image stored as floating point number (4 bytes)' 
432 432 432 big emd_11328_half_map_2.map.gz   CCP4 ::::EMDATABANK.org::::EMD-11328:::: 431 431 431 0 0 0 2 1.047 1.047 1.047 
322487296 432 432 432 5.613335E-4   1.6583184 -0.5774379  0.046903886  1 'half map'       
# 
loop_
_em_software.id 
_em_software.category 
_em_software.details 
_em_software.name 
_em_software.version 
_em_software.image_processing_id 
_em_software.fitting_id 
_em_software.imaging_id 
1  'PARTICLE SELECTION'       ?                  ?              ?    1 ? ? 
2  'IMAGE ACQUISITION'        ?                  ?              ?    ? ? 1 
3  MASKING                    ?                  ?              ?    ? ? ? 
4  'CTF CORRECTION'           ?                  ?              ?    1 ? ? 
5  'LAYERLINE INDEXING'       ?                  ?              ?    ? ? ? 
6  'DIFFRACTION INDEXING'     ?                  ?              ?    ? ? ? 
7  'MODEL FITTING'            'Rigid fitting'    'UCSF Chimera' ?    ? 1 ? 
8  'MODEL FITTING'            'Rigid fitting'    PHENIX         ?    ? 1 ? 
9  'MODEL FITTING'            'Flexible fitting' 'CCP4 package' ?    ? 1 ? 
10 OTHER                      ?                  ?              ?    ? ? ? 
11 'MODEL REFINEMENT'         ?                  PHENIX         1.17 ? 1 ? 
12 'INITIAL EULER ASSIGNMENT' ?                  ?              ?    1 ? ? 
13 'FINAL EULER ASSIGNMENT'   ?                  ?              ?    1 ? ? 
14 CLASSIFICATION             ?                  RELION         ?    1 ? ? 
15 RECONSTRUCTION             ?                  ?              ?    1 ? ? 
# 
_em_specimen.id                      1 
_em_specimen.experiment_id           1 
_em_specimen.concentration           ? 
_em_specimen.details                 ? 
_em_specimen.embedding_applied       NO 
_em_specimen.shadowing_applied       NO 
_em_specimen.staining_applied        NO 
_em_specimen.vitrification_applied   YES 
# 
_em_start_model.id                               1 
_em_start_model.details                          ? 
_em_start_model.image_processing_id              1 
_em_start_model.emdb_id                          ? 
_em_start_model.insilico_model                   ? 
_em_start_model.orthogonal_tilt_angle1           ? 
_em_start_model.orthogonal_tilt_angle2           ? 
_em_start_model.orthogonal_tilt_num_images       ? 
_em_start_model.other                            ? 
_em_start_model.pdb_id                           ? 
_em_start_model.random_conical_tilt_angle        ? 
_em_start_model.random_conical_tilt_num_images   ? 
_em_start_model.type                             NONE 
# 
loop_
_pdbx_audit_support.funding_organization 
_pdbx_audit_support.country 
_pdbx_audit_support.grant_number 
_pdbx_audit_support.details 
_pdbx_audit_support.ordinal 
'Spanish National Research Council'                                    Spain            'PIE/COVID-19 202020E079'             ? 1 
'Spanish Ministry of Science, Innovation, and Universities'            Spain            'SEV 2017-0712'                       ? 2 
'European Research Council (ERC)'                                      'European Union' 'ERC - 2018 -  SyG, Proposal: 810057' ? 3 
'National Institutes of Health/National Library of Medicine (NIH/NLM)' 'United States'  GM125769                              ? 4 
'National Institutes of Health/National Library of Medicine (NIH/NLM)' 'United States'  R01-AI127521                          ? 5 
# 
loop_
_pdbx_initial_refinement_model.id 
_pdbx_initial_refinement_model.type 
_pdbx_initial_refinement_model.source_name 
_pdbx_initial_refinement_model.accession_code 
1 'experimental model' PDB 6VSB 
2 'experimental model' PDB 6VYB 
3 'experimental model' PDB 6YLA 
# 
