data_7DPE # _model_server_result.job_id 04G4gvHREq33NFTuW6_oTg _model_server_result.datetime_utc '2024-11-28 10:19:30' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 7dpe # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":504}' # _entry.id 7DPE # _exptl.entry_id 7DPE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 107.19 _cell.angle_gamma 90 _cell.entry_id 7DPE _cell.length_a 90.655 _cell.length_b 93.494 _cell.length_c 70.885 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7DPE _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression B,C,D,E,F,G,I 1 1,3 A,H 1 2,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 1_554 x,y,z-1 1 0 0 0 1 0 0 0 1 20.949446 0 -67.718564 3 'crystal symmetry operation' 2_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -20.949446 0 67.718564 4 'crystal symmetry operation' 2_557 -x,y,-z+2 -1 0 0 0 1 0 0 0 -1 -41.898893 0 135.437128 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E N N ? 4 F N N ? 4 G N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order hydrog 'REVERSED WATSON-CRICK' hydrog1 A N1 DG 1 B DG 1 1_555 A O2 DC 18 B DC 18 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'REVERSED WATSON-CRICK' hydrog2 A N2 DG 1 B DG 1 1_555 A N3 DC 18 B DC 18 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A N3 DC 2 B DC 2 1_555 A N1 DG 17 B DG 17 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N4 DC 2 B DC 2 1_555 A O6 DG 17 B DG 17 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A O2 DC 2 B DC 2 1_555 A N2 DG 17 B DG 17 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A N3 DC 3 B DC 3 1_555 A N1 DG 16 B DG 16 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N4 DC 3 B DC 3 1_555 A O6 DG 16 B DG 16 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A O2 DC 3 B DC 3 1_555 A N2 DG 16 B DG 16 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N1 DG 4 B DG 4 1_555 A N3 DC 15 B DC 15 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N2 DG 4 B DG 4 1_555 A O2 DC 15 B DC 15 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A O6 DG 4 B DG 4 1_555 A N4 DC 15 B DC 15 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N3 DC 5 B DC 5 1_555 A N1 DG 14 B DG 14 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N4 DC 5 B DC 5 1_555 A O6 DG 14 B DG 14 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A O2 DC 5 B DC 5 1_555 A N2 DG 14 B DG 14 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N1 DG 6 B DG 6 1_555 A N3 DC 13 B DC 13 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N2 DG 6 B DG 6 1_555 A O2 DC 13 B DC 13 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A O6 DG 6 B DG 6 1_555 A N4 DC 13 B DC 13 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N3 DT 7 B DT 7 1_555 A N1 DA 12 B DA 12 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O4 DT 7 B DT 7 1_555 A N6 DA 12 B DA 12 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N1 DG 8 B DG 8 1_555 A N3 DC 11 B DC 11 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A N2 DG 8 B DG 8 1_555 A O2 DC 11 B DC 11 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A O6 DG 8 B DG 8 1_555 A N4 DC 11 B DC 11 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A N1 DA 9 B DA 9 1_555 A N3 DT 10 B DT 10 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A N6 DA 9 B DA 9 1_555 A O4 DT 10 B DT 10 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A N3 DT 10 B DT 10 1_555 A N1 DA 9 B DA 9 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A O4 DT 10 B DT 10 1_555 A N6 DA 9 B DA 9 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A N3 DC 11 B DC 11 1_555 A N1 DG 8 B DG 8 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 A N4 DC 11 B DC 11 1_555 A O6 DG 8 B DG 8 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 A O2 DC 11 B DC 11 1_555 A N2 DG 8 B DG 8 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 A N1 DA 12 B DA 12 1_555 A N3 DT 7 B DT 7 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 A N6 DA 12 B DA 12 1_555 A O4 DT 7 B DT 7 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 A N3 DC 13 B DC 13 1_555 A N1 DG 6 B DG 6 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog33 A N4 DC 13 B DC 13 1_555 A O6 DG 6 B DG 6 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog34 A O2 DC 13 B DC 13 1_555 A N2 DG 6 B DG 6 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog35 A N1 DG 14 B DG 14 1_555 A N3 DC 5 B DC 5 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog36 A N2 DG 14 B DG 14 1_555 A O2 DC 5 B DC 5 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog37 A O6 DG 14 B DG 14 1_555 A N4 DC 5 B DC 5 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog38 A N3 DC 15 B DC 15 1_555 A N1 DG 4 B DG 4 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog39 A N4 DC 15 B DC 15 1_555 A O6 DG 4 B DG 4 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog40 A O2 DC 15 B DC 15 1_555 A N2 DG 4 B DG 4 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog41 A N1 DG 16 B DG 16 1_555 A N3 DC 3 B DC 3 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog42 A N2 DG 16 B DG 16 1_555 A O2 DC 3 B DC 3 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog43 A O6 DG 16 B DG 16 1_555 A N4 DC 3 B DC 3 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog44 A N1 DG 17 B DG 17 1_555 A N3 DC 2 B DC 2 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog45 A N2 DG 17 B DG 17 1_555 A O2 DC 2 B DC 2 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog46 A O6 DG 17 B DG 17 1_555 A N4 DC 2 B DC 2 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'REVERSED WATSON-CRICK' hydrog47 A N3 DC 18 B DC 18 1_555 A N2 DG 1 B DG 1 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'REVERSED WATSON-CRICK' hydrog48 A O2 DC 18 B DC 18 1_555 A N1 DG 1 B DG 1 2_558 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 O1 GOL sing 278 n n C1 C2 GOL sing 279 n n C1 H11 GOL sing 280 n n C1 H12 GOL sing 281 n n O1 HO1 GOL sing 282 n n C2 O2 GOL sing 283 n n C2 C3 GOL sing 284 n n C2 H2 GOL sing 285 n n O2 HO2 GOL sing 286 n n C3 O3 GOL sing 287 n n C3 H31 GOL sing 288 n n C3 H32 GOL sing 289 n n O3 HO3 GOL sing 290 n n # _atom_sites.entry_id 7DPE _atom_sites.fract_transf_matrix[1][1] 0.011031 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003413 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010696 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.014767 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 3 SAH A 1 501 501 SAH SAH . D 4 GOL A 1 502 1 GOL GOL . E 4 GOL A 1 503 2 GOL GOL . F 4 GOL A 1 504 3 GOL GOL . G 4 GOL A 1 505 4 GOL GOL . H 5 HOH B 1 101 43 HOH HOH . H 5 HOH B 2 102 33 HOH HOH . H 5 HOH B 3 103 2 HOH HOH . H 5 HOH B 4 104 5 HOH HOH . H 5 HOH B 5 105 7 HOH HOH . H 5 HOH B 6 106 19 HOH HOH . H 5 HOH B 7 107 16 HOH HOH . H 5 HOH B 8 108 4 HOH HOH . H 5 HOH B 9 109 42 HOH HOH . H 5 HOH B 10 110 34 HOH HOH . I 5 HOH A 1 601 38 HOH HOH . I 5 HOH A 2 602 28 HOH HOH . I 5 HOH A 3 603 45 HOH HOH . I 5 HOH A 4 604 11 HOH HOH . I 5 HOH A 5 605 47 HOH HOH . I 5 HOH A 6 606 15 HOH HOH . I 5 HOH A 7 607 17 HOH HOH . I 5 HOH A 8 608 13 HOH HOH . I 5 HOH A 9 609 41 HOH HOH . I 5 HOH A 10 610 3 HOH HOH . I 5 HOH A 11 611 12 HOH HOH . I 5 HOH A 12 612 25 HOH HOH . I 5 HOH A 13 613 44 HOH HOH . I 5 HOH A 14 614 22 HOH HOH . I 5 HOH A 15 615 1 HOH HOH . I 5 HOH A 16 616 10 HOH HOH . I 5 HOH A 17 617 39 HOH HOH . I 5 HOH A 18 618 24 HOH HOH . I 5 HOH A 19 619 21 HOH HOH . I 5 HOH A 20 620 18 HOH HOH . I 5 HOH A 21 621 30 HOH HOH . I 5 HOH A 22 622 46 HOH HOH . I 5 HOH A 23 623 14 HOH HOH . I 5 HOH A 24 624 23 HOH HOH . I 5 HOH A 25 625 27 HOH HOH . I 5 HOH A 26 626 40 HOH HOH . I 5 HOH A 27 627 36 HOH HOH . I 5 HOH A 28 628 26 HOH HOH . I 5 HOH A 29 629 37 HOH HOH . I 5 HOH A 30 630 35 HOH HOH . I 5 HOH A 31 631 31 HOH HOH . I 5 HOH A 32 632 29 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 GOL . . . F 4 -8.928 25.729 68.798 1 70.46 ? C1 GOL 504 A 1 HETATM 2 O O1 GOL . . . F 4 -8.357 26.938 69.191 1 70.22 ? O1 GOL 504 A 1 HETATM 3 C C2 GOL . . . F 4 -7.794 24.892 68.16 1 76.49 ? C2 GOL 504 A 1 HETATM 4 O O2 GOL . . . F 4 -6.999 24.272 69.112 1 76.02 ? O2 GOL 504 A 1 HETATM 5 C C3 GOL . . . F 4 -8.502 23.882 67.242 1 73.24 ? C3 GOL 504 A 1 HETATM 6 O O3 GOL . . . F 4 -7.508 23.243 66.502 1 74.64 ? O3 GOL 504 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 6 #