data_8WEJ # _model_server_result.job_id ZlMgDoUS27bc1dziRj1a7Q _model_server_result.datetime_utc '2024-11-05 05:04:41' _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 8wej # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":607}' # _entry.id 8WEJ # _exptl.entry_id 8WEJ _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 787.566 _entity.id 13 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DIHYDROFLAVINE-ADENINE DINUCLEOTIDE' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 8WEJ _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8WEJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details heptameric _pdbx_struct_assembly.oligomeric_count 7 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 13 _struct_asym.id O _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 8 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 8 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 8 3 2 BMA NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 8 n H NAG 1 F 1 NAG B 621 NAG 8 n H NAG 2 F 2 NAG B 622 NAG 8 n H BMA 3 F 3 BMA B 623 BMA # 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 disulf ? disulf1 B SG CYS 244 B CYS 244 1_555 B SG CYS 257 B CYS 257 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 F SG CYS 45 H CYS 22 1_555 F SG CYS 119 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf3 G SG CYS 46 L CYS 23 1_555 G SG CYS 111 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? covale ? covale1 B ND2 ASN 132 B ASN 132 1_555 K C1 NAG . B NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale2 B ND2 ASN 149 B ASN 149 1_555 H C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale3 B ND2 ASN 240 B ASN 240 1_555 L C1 NAG . B NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale4 H O4 NAG . F NAG 1 1_555 H C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale5 H O4 NAG . F NAG 2 1_555 H C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? metalc ? metalc1 B NE2 HIS 101 B HIS 101 1_555 J FE HEM . B HEM 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? metalc ? metalc2 B NE2 HIS 115 B HIS 115 1_555 I FE HEM . B HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc3 B NE2 HIS 209 B HIS 209 1_555 J FE HEM . B HEM 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc4 B NE2 HIS 222 B HIS 222 1_555 I FE HEM . B HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc5 B OD1 ASP 360 B ASP 360 1_555 M MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? metalc ? metalc6 M MG MG . B MG 605 1_555 O O1A FDA . B FDA 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.435 ? metalc ? metalc7 M MG MG . B MG 605 1_555 O O1P FDA . B FDA 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc8 E OG1 THR 17 E THR 17 1_555 Q MG MG . E MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? metalc ? metalc9 E OG1 THR 35 E THR 35 1_555 Q MG MG . E MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? metalc ? metalc10 P O3G GTP . E GTP 200 1_555 Q MG MG . E MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? metalc ? metalc11 P O2B GTP . E GTP 200 1_555 Q MG MG . E MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.991 ? # _chem_comp.formula 'C27 H35 N9 O15 P2' _chem_comp.formula_weight 787.566 _chem_comp.id FDA _chem_comp.mon_nstd_flag . _chem_comp.name 'DIHYDROFLAVINE-ADENINE DINUCLEOTIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 PA O1A FDA doub 107 n n PA O2A FDA sing 108 n n PA O5B FDA sing 109 n n PA O3P FDA sing 110 n n O2A HOA2 FDA sing 111 n n O5B C5B FDA sing 112 n n C5B C4B FDA sing 113 n n C5B H51A FDA sing 114 n n C5B H52A FDA sing 115 n n C4B O4B FDA sing 116 n n C4B C3B FDA sing 117 n n C4B H4B FDA sing 118 n n O4B C1B FDA sing 119 n n C3B O3B FDA sing 120 n n C3B C2B FDA sing 121 n n C3B H3B FDA sing 122 n n O3B HO3A FDA sing 123 n n C2B O2B FDA sing 124 n n C2B C1B FDA sing 125 n n C2B H2B FDA sing 126 n n O2B HO2A FDA sing 127 n n C1B N9A FDA sing 128 n n C1B H1B FDA sing 129 n n N9A C8A FDA sing 130 n y N9A C4A FDA sing 131 n y C8A N7A FDA doub 132 n y C8A H8A FDA sing 133 n n N7A C5A FDA sing 134 n y C5A C6A FDA sing 135 n y C5A C4A FDA doub 136 n y C6A N6A FDA sing 137 n n C6A N1A FDA doub 138 n y N6A H61A FDA sing 139 n n N6A H62A FDA sing 140 n n N1A C2A FDA sing 141 n y C2A N3A FDA doub 142 n y C2A H2A FDA sing 143 n n N3A C4A FDA sing 144 n y N1 C2 FDA sing 145 n n N1 C10 FDA sing 146 n n N1 HN1 FDA sing 147 n n C2 O2 FDA doub 148 n n C2 N3 FDA sing 149 n n N3 C4 FDA sing 150 n n N3 HN3 FDA sing 151 n n C4 O4 FDA doub 152 n n C4 C4X FDA sing 153 n n C4X N5 FDA sing 154 n n C4X C10 FDA doub 155 n n N5 C5X FDA sing 156 n n N5 HN5 FDA sing 157 n n C5X C6 FDA doub 158 n y C5X C9A FDA sing 159 n y C6 C7 FDA sing 160 n y C6 H6 FDA sing 161 n n C7 C7M FDA sing 162 n n C7 C8 FDA doub 163 n y C7M HM71 FDA sing 164 n n C7M HM72 FDA sing 165 n n C7M HM73 FDA sing 166 n n C8 C8M FDA sing 167 n n C8 C9 FDA sing 168 n y C8M HM81 FDA sing 169 n n C8M HM82 FDA sing 170 n n C8M HM83 FDA sing 171 n n C9 C9A FDA doub 172 n y C9 H9 FDA sing 173 n n C9A N10 FDA sing 174 n n N10 C10 FDA sing 175 n n N10 C1' FDA sing 176 n n C1' C2' FDA sing 177 n n C1' "H1'1" FDA sing 178 n n C1' "H1'2" FDA sing 179 n n C2' O2' FDA sing 180 n n C2' C3' FDA sing 181 n n C2' H2' FDA sing 182 n n O2' HO2' FDA sing 183 n n C3' O3' FDA sing 184 n n C3' C4' FDA sing 185 n n C3' H3' FDA sing 186 n n O3' HO3' FDA sing 187 n n C4' O4' FDA sing 188 n n C4' C5' FDA sing 189 n n C4' H4' FDA sing 190 n n O4' HO4' FDA sing 191 n n C5' O5' FDA sing 192 n n C5' "H5'1" FDA sing 193 n n C5' "H5'2" FDA sing 194 n n O5' P FDA sing 195 n n P O1P FDA doub 196 n n P O2P FDA sing 197 n n P O3P FDA sing 198 n n O2P HOP2 FDA sing 199 n n # _atom_sites.entry_id 8WEJ _atom_sites.fract_transf_matrix[1][1] 1 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 1 _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] 1 _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 I 9 HEM B 1 601 602 HEM HEM . J 9 HEM B 1 602 603 HEM HEM . K 10 NAG B 1 603 618 NAG NAG . L 10 NAG B 1 604 620 NAG NAG . M 11 MG B 1 605 1001 MG MG . N 12 NDP B 1 606 3601 NDP NDP . O 13 FDA B 1 607 3701 FDA FAD . P 14 GTP E 1 200 200 GTP GTP . Q 11 MG E 1 201 201 MG MG . R 15 HOH B 1 701 701 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 P PA FDA . . . O 13 174.243 180.084 140.259 1 23.36 ? PA FDA 607 B 1 HETATM 2 O O1A FDA . . . O 13 174.687 179.494 141.574 1 23.36 ? O1A FDA 607 B 1 HETATM 3 O O2A FDA . . . O 13 173.234 181.211 140.225 1 23.36 ? O2A FDA 607 B 1 HETATM 4 O O5B FDA . . . O 13 173.716 178.913 139.287 1 23.36 ? O5B FDA 607 B 1 HETATM 5 C C5B FDA . . . O 13 172.655 178.033 139.646 1 23.36 ? C5B FDA 607 B 1 HETATM 6 C C4B FDA . . . O 13 172.885 176.673 138.971 1 23.36 ? C4B FDA 607 B 1 HETATM 7 O O4B FDA . . . O 13 174.26 176.311 139.09 1 23.36 ? O4B FDA 607 B 1 HETATM 8 C C3B FDA . . . O 13 172.076 175.566 139.644 1 23.36 ? C3B FDA 607 B 1 HETATM 9 O O3B FDA . . . O 13 171.501 174.727 138.636 1 23.36 ? O3B FDA 607 B 1 HETATM 10 C C2B FDA . . . O 13 173.081 174.866 140.549 1 23.36 ? C2B FDA 607 B 1 HETATM 11 O O2B FDA . . . O 13 172.868 173.463 140.749 1 23.36 ? O2B FDA 607 B 1 HETATM 12 C C1B FDA . . . O 13 174.39 175.073 139.802 1 23.36 ? C1B FDA 607 B 1 HETATM 13 N N9A FDA . . . O 13 175.539 175.167 140.716 1 23.36 ? N9A FDA 607 B 1 HETATM 14 C C8A FDA . . . O 13 175.924 176.281 141.371 1 23.36 ? C8A FDA 607 B 1 HETATM 15 N N7A FDA . . . O 13 177.024 176.028 142.12 1 23.36 ? N7A FDA 607 B 1 HETATM 16 C C5A FDA . . . O 13 177.354 174.738 141.944 1 23.36 ? C5A FDA 607 B 1 HETATM 17 C C6A FDA . . . O 13 178.418 173.839 142.445 1 23.36 ? C6A FDA 607 B 1 HETATM 18 N N6A FDA . . . O 13 179.348 174.291 143.311 1 23.36 ? N6A FDA 607 B 1 HETATM 19 N N1A FDA . . . O 13 178.396 172.559 142.019 1 23.36 ? N1A FDA 607 B 1 HETATM 20 C C2A FDA . . . O 13 177.469 172.105 141.163 1 23.36 ? C2A FDA 607 B 1 HETATM 21 N N3A FDA . . . O 13 176.479 172.872 140.672 1 23.36 ? N3A FDA 607 B 1 HETATM 22 C C4A FDA . . . O 13 176.368 174.176 141.021 1 23.36 ? C4A FDA 607 B 1 HETATM 23 N N1 FDA . . . O 13 178.678 175.181 133.208 1 23.36 ? N1 FDA 607 B 1 HETATM 24 C C2 FDA . . . O 13 179.215 175.765 132.123 1 23.36 ? C2 FDA 607 B 1 HETATM 25 O O2 FDA . . . O 13 178.928 176.95 131.856 1 23.36 ? O2 FDA 607 B 1 HETATM 26 N N3 FDA . . . O 13 180.053 175.126 131.309 1 23.36 ? N3 FDA 607 B 1 HETATM 27 C C4 FDA . . . O 13 180.422 173.859 131.506 1 23.36 ? C4 FDA 607 B 1 HETATM 28 O O4 FDA . . . O 13 181.207 173.31 130.715 1 23.36 ? O4 FDA 607 B 1 HETATM 29 C C4X FDA . . . O 13 179.896 173.136 132.694 1 23.36 ? C4X FDA 607 B 1 HETATM 30 N N5 FDA . . . O 13 180.196 171.833 132.961 1 23.36 ? N5 FDA 607 B 1 HETATM 31 C C5X FDA . . . O 13 179.673 171.208 134.048 1 23.36 ? C5X FDA 607 B 1 HETATM 32 C C6 FDA . . . O 13 180.001 169.88 134.338 1 23.36 ? C6 FDA 607 B 1 HETATM 33 C C7 FDA . . . O 13 179.494 169.202 135.446 1 23.36 ? C7 FDA 607 B 1 HETATM 34 C C7M FDA . . . O 13 179.869 167.759 135.702 1 23.36 ? C7M FDA 607 B 1 HETATM 35 C C8 FDA . . . O 13 178.552 169.94 136.341 1 23.36 ? C8 FDA 607 B 1 HETATM 36 C C8M FDA . . . O 13 177.896 169.382 137.574 1 23.36 ? C8M FDA 607 B 1 HETATM 37 C C9 FDA . . . O 13 178.222 171.245 136.042 1 23.36 ? C9 FDA 607 B 1 HETATM 38 C C9A FDA . . . O 13 178.731 171.933 134.942 1 23.36 ? C9A FDA 607 B 1 HETATM 39 N N10 FDA . . . O 13 178.389 173.289 134.684 1 23.36 ? N10 FDA 607 B 1 HETATM 40 C C10 FDA . . . O 13 178.955 173.904 133.547 1 23.36 ? C10 FDA 607 B 1 HETATM 41 C C1' FDA . . . O 13 177.467 174.053 135.549 1 23.36 ? C1' FDA 607 B 1 HETATM 42 C C2' FDA . . . O 13 178.146 174.261 136.914 1 23.36 ? C2' FDA 607 B 1 HETATM 43 O O2' FDA . . . O 13 177.323 173.714 137.948 1 23.36 ? O2' FDA 607 B 1 HETATM 44 C C3' FDA . . . O 13 178.499 175.693 137.284 1 23.36 ? C3' FDA 607 B 1 HETATM 45 O O3' FDA . . . O 13 179.466 175.679 138.343 1 23.36 ? O3' FDA 607 B 1 HETATM 46 C C4' FDA . . . O 13 177.269 176.482 137.734 1 23.36 ? C4' FDA 607 B 1 HETATM 47 O O4' FDA . . . O 13 176.525 176.901 136.582 1 23.36 ? O4' FDA 607 B 1 HETATM 48 C C5' FDA . . . O 13 177.74 177.63 138.615 1 23.36 ? C5' FDA 607 B 1 HETATM 49 O O5' FDA . . . O 13 176.774 178.665 138.707 1 23.36 ? O5' FDA 607 B 1 HETATM 50 P P FDA . . . O 13 176.997 179.971 139.603 1 23.36 ? P FDA 607 B 1 HETATM 51 O O1P FDA . . . O 13 177.247 179.582 141.036 1 23.36 ? O1P FDA 607 B 1 HETATM 52 O O2P FDA . . . O 13 177.985 180.885 138.919 1 23.36 ? O2P FDA 607 B 1 HETATM 53 O O3P FDA . . . O 13 175.531 180.592 139.455 1 23.36 ? O3P FDA 607 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 53 #