data_7E5Z # _model_server_result.job_id vkHhyFyEj8R-SbZIrtEIBA _model_server_result.datetime_utc '2025-07-30 12:39:15' _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 7e5z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1001}' # _entry.id 7E5Z # _exptl.entry_id 7E5Z _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 740.557 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE' _entity.pdbx_number_of_molecules 2 _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 7E5Z _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7E5Z _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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 _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 ? _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 # 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 # 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 covale ? covale1 A SG CYS 216 A CYS 216 1_555 G S2 SF4 . A SF4 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? covale ? covale2 A SG CYS 223 A CYS 223 1_555 H S3 SF4 . A SF4 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.934 ? covale ? covale3 A SG CYS 295 A CYS 295 1_555 I S2 SF4 . A SF4 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? covale ? covale4 B SG CYS 150 B CYS 150 1_555 L S1 FES . B FES 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? covale ? covale5 B SG CYS 508 B CYS 508 1_555 K S1 SF4 . B SF4 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc1 A SG CYS 102 A CYS 102 1_555 F FE1 FES . A FES 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc2 A SG CYS 115 A CYS 115 1_555 F FE1 FES . A FES 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc3 A SG CYS 118 A CYS 118 1_555 F FE2 FES . A FES 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc4 A SG CYS 132 A CYS 132 1_555 F FE2 FES . A FES 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc5 A SG CYS 213 A CYS 213 1_555 G FE2 SF4 . A SF4 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc6 A SG CYS 216 A CYS 216 1_555 G FE1 SF4 . A SF4 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc7 A SG CYS 223 A CYS 223 1_555 H FE1 SF4 . A SF4 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.608 ? metalc ? metalc8 A SG CYS 223 A CYS 223 1_555 H FE4 SF4 . A SF4 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc9 A SG CYS 256 A CYS 256 1_555 H FE2 SF4 . A SF4 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc10 A N CYS 259 A CYS 259 1_555 H FE3 SF4 . A SF4 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.538 ? metalc ? metalc11 A O CYS 259 A CYS 259 1_555 H FE3 SF4 . A SF4 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc12 A SG CYS 259 A CYS 259 1_555 H FE3 SF4 . A SF4 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc13 A SG CYS 259 A CYS 259 1_555 H FE4 SF4 . A SF4 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc14 A SG CYS 262 A CYS 262 1_555 H FE1 SF4 . A SF4 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc15 A SG CYS 266 A CYS 266 1_555 G FE3 SF4 . A SF4 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc16 A SG CYS 295 A CYS 295 1_555 I FE1 SF4 . A SF4 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc17 A SG CYS 298 A CYS 298 1_555 I FE3 SF4 . A SF4 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc18 A SG CYS 302 A CYS 302 1_555 I FE4 SF4 . A SF4 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc19 A SG CYS 329 A CYS 329 1_555 I FE2 SF4 . A SF4 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc20 C W W . A W 1000 1_555 E S13 MGD . A MGD 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc21 B SG CYS 113 B CYS 113 1_555 L FE1 FES . B FES 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? metalc ? metalc22 B SG CYS 118 B CYS 118 1_555 L FE1 FES . B FES 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc23 B SG CYS 146 B CYS 146 1_555 L FE2 FES . B FES 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc24 B SG CYS 150 B CYS 150 1_555 L FE2 FES . B FES 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc25 B SG CYS 502 B CYS 502 1_555 K FE4 SF4 . B SF4 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc26 B SG CYS 505 B CYS 505 1_555 K FE3 SF4 . B SF4 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc27 B SG CYS 508 B CYS 508 1_555 K FE2 SF4 . B SF4 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc28 B SG CYS 542 B CYS 542 1_555 K FE1 SF4 . B SF4 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? # _chem_comp.formula 'C20 H26 N10 O13 P2 S2' _chem_comp.formula_weight 740.557 _chem_comp.id MGD _chem_comp.mon_nstd_flag . _chem_comp.name '2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'MOLYBDOPTERIN GUANOSINE DINUCLEOTIDE' # _atom_sites.entry_id 7E5Z _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 C 3 W A 1 1000 1000 W W . D 4 MGD A 1 1001 1001 MGD MGD . E 4 MGD A 1 1002 1002 MGD MGD . F 5 FES A 1 1003 1003 FES FES . G 6 SF4 A 1 1004 1004 SF4 SF4 . H 6 SF4 A 1 1005 1005 SF4 SF4 . I 6 SF4 A 1 1006 1006 SF4 SF4 . J 7 FMN B 1 1000 1000 FMN FMN . K 6 SF4 B 1 1001 1001 SF4 SF4 . L 5 FES B 1 1002 1002 FES FES . # 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 PB MGD . . . D 4 90.81 93.606 67.835 1 105.16 ? PB MGD 1001 A 1 HETATM 2 O O1B MGD . . . D 4 92.08 93.514 68.611 1 105.16 ? O1B MGD 1001 A 1 HETATM 3 O O2B MGD . . . D 4 89.509 93.767 68.545 1 105.16 ? O2B MGD 1001 A 1 HETATM 4 O O3B MGD . . . D 4 90.919 94.814 66.808 1 105.16 ? O3B MGD 1001 A 1 HETATM 5 O O3A MGD . . . D 4 89.385 96.66 67.484 1 105.16 ? O3A MGD 1001 A 1 HETATM 6 P PA MGD . . . D 4 89.627 95.59 66.307 1 105.16 ? PA MGD 1001 A 1 HETATM 7 O O1A MGD . . . D 4 89.903 96.29 65.021 1 105.16 ? O1A MGD 1001 A 1 HETATM 8 O O2A MGD . . . D 4 88.514 94.605 66.349 1 105.16 ? O2A MGD 1001 A 1 HETATM 9 O O5' MGD . . . D 4 90.715 92.353 66.849 1 105.16 ? O5' MGD 1001 A 1 HETATM 10 C C5' MGD . . . D 4 91.958 91.865 66.301 1 105.16 ? C5' MGD 1001 A 1 HETATM 11 C C4' MGD . . . D 4 91.696 90.623 65.491 1 105.16 ? C4' MGD 1001 A 1 HETATM 12 O O4' MGD . . . D 4 92.934 89.871 65.411 1 105.16 ? O4' MGD 1001 A 1 HETATM 13 C C3' MGD . . . D 4 90.669 89.643 66.064 1 105.16 ? C3' MGD 1001 A 1 HETATM 14 O O3' MGD . . . D 4 90.074 88.921 64.996 1 105.16 ? O3' MGD 1001 A 1 HETATM 15 C C2' MGD . . . D 4 91.581 88.671 66.807 1 105.16 ? C2' MGD 1001 A 1 HETATM 16 O O2' MGD . . . D 4 90.939 87.449 67.079 1 105.16 ? O2' MGD 1001 A 1 HETATM 17 C C1' MGD . . . D 4 92.699 88.539 65.786 1 105.16 ? C1' MGD 1001 A 1 HETATM 18 N N9 MGD . . . D 4 93.938 88.057 66.369 1 105.16 ? N9 MGD 1001 A 1 HETATM 19 C C8 MGD . . . D 4 94.211 87.961 67.705 1 105.16 ? C8 MGD 1001 A 1 HETATM 20 N N7 MGD . . . D 4 95.418 87.528 67.954 1 105.16 ? N7 MGD 1001 A 1 HETATM 21 C C5 MGD . . . D 4 95.987 87.354 66.702 1 105.16 ? C5 MGD 1001 A 1 HETATM 22 C C6 MGD . . . D 4 97.286 86.916 66.347 1 105.16 ? C6 MGD 1001 A 1 HETATM 23 O O6 MGD . . . D 4 98.215 86.592 67.093 1 105.16 ? O6 MGD 1001 A 1 HETATM 24 N N1 MGD . . . D 4 97.472 86.893 64.971 1 105.16 ? N1 MGD 1001 A 1 HETATM 25 C C2 MGD . . . D 4 96.51 87.231 64.058 1 105.16 ? C2 MGD 1001 A 1 HETATM 26 N N2 MGD . . . D 4 96.869 87.139 62.773 1 105.16 ? N2 MGD 1001 A 1 HETATM 27 N N3 MGD . . . D 4 95.281 87.636 64.382 1 105.16 ? N3 MGD 1001 A 1 HETATM 28 C C4 MGD . . . D 4 95.086 87.681 65.719 1 105.16 ? C4 MGD 1001 A 1 HETATM 29 C C10 MGD . . . D 4 90.428 97.589 67.945 1 105.16 ? C10 MGD 1001 A 1 HETATM 30 C C11 MGD . . . D 4 89.909 99.029 67.864 1 105.16 ? C11 MGD 1001 A 1 HETATM 31 O O11 MGD . . . D 4 88.504 99.053 68.141 1 105.16 ? O11 MGD 1001 A 1 HETATM 32 C C12 MGD . . . D 4 90.556 100.142 68.643 1 105.16 ? C12 MGD 1001 A 1 HETATM 33 S S12 MGD . . . D 4 92.062 100.28 69.565 1 105.16 ? S12 MGD 1001 A 1 HETATM 34 C C13 MGD . . . D 4 89.85 101.267 68.649 1 105.16 ? C13 MGD 1001 A 1 HETATM 35 S S13 MGD . . . D 4 90.857 102.587 69.189 1 105.16 ? S13 MGD 1001 A 1 HETATM 36 C C14 MGD . . . D 4 88.364 101.407 68.483 1 105.16 ? C14 MGD 1001 A 1 HETATM 37 N N15 MGD . . . D 4 87.803 101.243 69.816 1 105.16 ? N15 MGD 1001 A 1 HETATM 38 C C16 MGD . . . D 4 86.629 100.546 70.009 1 105.16 ? C16 MGD 1001 A 1 HETATM 39 C C17 MGD . . . D 4 86.056 100.416 71.278 1 105.16 ? C17 MGD 1001 A 1 HETATM 40 O O17 MGD . . . D 4 86.543 100.871 72.309 1 105.16 ? O17 MGD 1001 A 1 HETATM 41 N N18 MGD . . . D 4 84.862 99.721 71.359 1 105.16 ? N18 MGD 1001 A 1 HETATM 42 C C19 MGD . . . D 4 84.259 99.191 70.25 1 105.16 ? C19 MGD 1001 A 1 HETATM 43 N N19 MGD . . . D 4 83.112 98.53 70.42 1 105.16 ? N19 MGD 1001 A 1 HETATM 44 N N20 MGD . . . D 4 84.79 99.32 69.045 1 105.16 ? N20 MGD 1001 A 1 HETATM 45 C C21 MGD . . . D 4 85.96 100.005 68.91 1 105.16 ? C21 MGD 1001 A 1 HETATM 46 N N22 MGD . . . D 4 86.495 100.113 67.674 1 105.16 ? N22 MGD 1001 A 1 HETATM 47 C C23 MGD . . . D 4 87.922 100.246 67.618 1 105.16 ? C23 MGD 1001 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 47 #