data_3E9Y # _model_server_result.job_id rD_j3uNQm7SxBkkGRrOnVA _model_server_result.datetime_utc '2024-11-23 14:26:14' _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 3e9y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":701}' # _entry.id 3E9Y # _exptl.entry_id 3E9Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 855.64 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FLAVIN-ADENINE DINUCLEOTIDE-N5-ISOBUTYL KETONE' _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 120 _cell.entry_id 3E9Y _cell.length_a 178.866 _cell.length_b 178.866 _cell.length_c 186.078 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3E9Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 64 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 software_defined_assembly 1 ? tetrameric 4 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G 1 1,2 A,B,C,D,E,F,G 2 1,3,4,2 # 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' 10_665 -y+1,-x+1,-z+1/3 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 89.433 154.9025 62.026 3 'crystal symmetry operation' 4_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 89.433 154.9025 0 4 'crystal symmetry operation' 7_555 y,x,-z+1/3 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 62.026 # _struct_asym.details ? _struct_asym.entity_id 6 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 C PRO 253 A PRO 339 1_555 A N CSD 254 A CSD 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale2 A C CSD 254 A CSD 340 1_555 A N ASP 255 A ASP 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? metalc ? metalc1 A OD1 ASP 452 A ASP 538 1_555 D MG MG . A MG 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? metalc ? metalc2 A OD1 ASN 479 A ASN 565 1_555 D MG MG . A MG 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc3 A O HIS 481 A HIS 567 1_555 D MG MG . A MG 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.366 ? metalc ? metalc4 D MG MG . A MG 699 1_555 E O1A TDM . A TDM 700 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc5 D MG MG . A MG 699 1_555 E O1B TDM . A TDM 700 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? # _chem_comp.formula 'C31 H39 N9 O16 P2' _chem_comp.formula_weight 855.64 _chem_comp.id FAB _chem_comp.mon_nstd_flag . _chem_comp.name 'FLAVIN-ADENINE DINUCLEOTIDE-N5-ISOBUTYL KETONE' _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 FAB doub 133 n n PA O2A FAB sing 134 n n PA O5B FAB sing 135 n n PA O3P FAB sing 136 n n O2A HOA2 FAB sing 137 n n O5B C5B FAB sing 138 n n C5B C4B FAB sing 139 n n C5B H51A FAB sing 140 n n C5B H52A FAB sing 141 n n C4B O4B FAB sing 142 n n C4B C3B FAB sing 143 n n C4B H4B FAB sing 144 n n O4B C1B FAB sing 145 n n C3B O3B FAB sing 146 n n C3B C2B FAB sing 147 n n C3B H3B FAB sing 148 n n O3B HO3A FAB sing 149 n n C2B O2B FAB sing 150 n n C2B C1B FAB sing 151 n n C2B H2B FAB sing 152 n n O2B HO2A FAB sing 153 n n C1B N9A FAB sing 154 n n C1B H1B FAB sing 155 n n N9A C8A FAB sing 156 n y N9A C4A FAB sing 157 n y C8A N7A FAB doub 158 n y C8A H8A FAB sing 159 n n N7A C5A FAB sing 160 n y C5A C6A FAB sing 161 n y C5A C4A FAB doub 162 n y C6A N6A FAB sing 163 n n C6A N1A FAB doub 164 n y N6A H61A FAB sing 165 n n N6A H62A FAB sing 166 n n N1A C2A FAB sing 167 n y C2A N3A FAB doub 168 n y C2A H2A FAB sing 169 n n N3A C4A FAB sing 170 n y N1 C2 FAB sing 171 n n N1 C10 FAB doub 172 n n C2 O2 FAB doub 173 n n C2 N3 FAB sing 174 n n N3 C4 FAB sing 175 n n N3 HN3 FAB sing 176 n n C4 O4 FAB doub 177 n n C4 C4X FAB sing 178 n n C4X N5 FAB doub 179 n n C4X C10 FAB sing 180 n n N5 C5X FAB sing 181 n n N5 C2' FAB sing 182 n n C5X C6 FAB doub 183 n y C5X C9A FAB sing 184 n y C6 C7 FAB sing 185 n y C6 H6 FAB sing 186 n n C7 C7M FAB sing 187 n n C7 C8 FAB doub 188 n y C7M HM71 FAB sing 189 n n C7M HM72 FAB sing 190 n n C7M HM73 FAB sing 191 n n C8 C8M FAB sing 192 n n C8 C9 FAB sing 193 n y C8M HM81 FAB sing 194 n n C8M HM82 FAB sing 195 n n C8M HM83 FAB sing 196 n n C9 C9A FAB doub 197 n y C9 H9 FAB sing 198 n n C9A N10 FAB sing 199 n n N10 C10 FAB sing 200 n n N10 C1' FAB sing 201 n n C1' C2D FAB sing 202 n n C1' "H1'1" FAB sing 203 n n C1' "H1'2" FAB sing 204 n n C2D O2' FAB sing 205 n n C2D C3D FAB sing 206 n n C2D H2' FAB sing 207 n n O2' HO2' FAB sing 208 n n C3D O3D FAB sing 209 n n C3D C4D FAB sing 210 n n C3D H3D FAB sing 211 n n O3D HO3' FAB sing 212 n n C4D O4' FAB sing 213 n n C4D C5D FAB sing 214 n n C4D H4' FAB sing 215 n n O4' HO4' FAB sing 216 n n C5D O5' FAB sing 217 n n C5D "H5'1" FAB sing 218 n n C5D "H5'2" FAB sing 219 n n O5' P FAB sing 220 n n P O1P FAB doub 221 n n P O2P FAB sing 222 n n P O3P FAB sing 223 n n C2' O3' FAB doub 224 n n C2' C3' FAB sing 225 n n C3' C4' FAB sing 226 n n C3' C5' FAB sing 227 n n C3' H3' FAB sing 228 n n C4' "H4'1" FAB sing 229 n n C4' "H4'2" FAB sing 230 n n C4' "H4'3" FAB sing 231 n n C5' H51X FAB sing 232 n n C5' H52X FAB sing 233 n n C5' "H5'3" FAB sing 234 n n # _atom_sites.entry_id 3E9Y _atom_sites.fract_transf_matrix[1][1] 0.005591 _atom_sites.fract_transf_matrix[1][2] 0.003228 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006456 _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] 0.005374 _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 B 2 1MS A 1 695 695 1MS 1MS . C 3 NHE A 1 696 696 NHE NHE . D 4 MG A 1 699 699 MG MG . E 5 TDM A 1 700 700 TDM TDM . F 6 FAB A 1 701 701 FAB FAB . G 7 HOH A 1 702 2 HOH HOH . G 7 HOH A 2 703 3 HOH HOH . G 7 HOH A 3 704 4 HOH HOH . G 7 HOH A 4 705 5 HOH HOH . G 7 HOH A 5 706 6 HOH HOH . G 7 HOH A 6 707 8 HOH HOH . G 7 HOH A 7 708 10 HOH HOH . G 7 HOH A 8 709 12 HOH HOH . G 7 HOH A 9 710 16 HOH HOH . G 7 HOH A 10 711 18 HOH HOH . G 7 HOH A 11 712 19 HOH HOH . G 7 HOH A 12 713 20 HOH HOH . G 7 HOH A 13 714 21 HOH HOH . G 7 HOH A 14 715 23 HOH HOH . G 7 HOH A 15 716 25 HOH HOH . G 7 HOH A 16 717 32 HOH HOH . G 7 HOH A 17 718 34 HOH HOH . G 7 HOH A 18 719 35 HOH HOH . G 7 HOH A 19 720 37 HOH HOH . G 7 HOH A 20 721 38 HOH HOH . G 7 HOH A 21 722 40 HOH HOH . G 7 HOH A 22 723 43 HOH HOH . G 7 HOH A 23 724 44 HOH HOH . G 7 HOH A 24 725 45 HOH HOH . G 7 HOH A 25 726 46 HOH HOH . G 7 HOH A 26 727 47 HOH HOH . G 7 HOH A 27 728 50 HOH HOH . G 7 HOH A 28 729 51 HOH HOH . G 7 HOH A 29 730 53 HOH HOH . G 7 HOH A 30 731 54 HOH HOH . G 7 HOH A 31 732 57 HOH HOH . G 7 HOH A 32 733 60 HOH HOH . G 7 HOH A 33 734 62 HOH HOH . G 7 HOH A 34 735 63 HOH HOH . G 7 HOH A 35 736 67 HOH HOH . G 7 HOH A 36 737 68 HOH HOH . G 7 HOH A 37 738 78 HOH HOH . G 7 HOH A 38 739 82 HOH HOH . G 7 HOH A 39 740 83 HOH HOH . G 7 HOH A 40 741 85 HOH HOH . G 7 HOH A 41 742 90 HOH HOH . G 7 HOH A 42 743 93 HOH HOH . G 7 HOH A 43 744 95 HOH HOH . G 7 HOH A 44 745 96 HOH HOH . G 7 HOH A 45 746 97 HOH HOH . G 7 HOH A 46 747 98 HOH HOH . G 7 HOH A 47 748 102 HOH HOH . G 7 HOH A 48 749 103 HOH HOH . G 7 HOH A 49 750 104 HOH HOH . G 7 HOH A 50 751 107 HOH HOH . G 7 HOH A 51 752 109 HOH HOH . G 7 HOH A 52 753 115 HOH HOH . G 7 HOH A 53 754 120 HOH HOH . G 7 HOH A 54 755 127 HOH HOH . G 7 HOH A 55 756 129 HOH HOH . G 7 HOH A 56 757 131 HOH HOH . G 7 HOH A 57 758 132 HOH HOH . G 7 HOH A 58 759 134 HOH HOH . G 7 HOH A 59 760 141 HOH HOH . G 7 HOH A 60 761 142 HOH HOH . G 7 HOH A 61 762 144 HOH HOH . G 7 HOH A 62 763 146 HOH HOH . G 7 HOH A 63 764 148 HOH HOH . G 7 HOH A 64 765 151 HOH HOH . G 7 HOH A 65 766 154 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 FAB . . . F 6 59.65 70.589 53.139 1 34.19 ? PA FAB 701 A 1 HETATM 2 O O1A FAB . . . F 6 61.016 70.77 53.683 1 32.96 ? O1A FAB 701 A 1 HETATM 3 O O2A FAB . . . F 6 59.443 70.022 51.784 1 33.71 ? O2A FAB 701 A 1 HETATM 4 O O5B FAB . . . F 6 58.928 72.012 53.202 1 34.57 ? O5B FAB 701 A 1 HETATM 5 C C5B FAB . . . F 6 59.148 72.857 54.322 1 34.75 ? C5B FAB 701 A 1 HETATM 6 C C4B FAB . . . F 6 57.858 73.478 54.848 1 34.67 ? C4B FAB 701 A 1 HETATM 7 O O4B FAB . . . F 6 58.332 74.55 55.691 1 35.22 ? O4B FAB 701 A 1 HETATM 8 C C3B FAB . . . F 6 57.009 74.116 53.744 1 35.34 ? C3B FAB 701 A 1 HETATM 9 O O3B FAB . . . F 6 55.62 73.952 54.072 1 35.63 ? O3B FAB 701 A 1 HETATM 10 C C2B FAB . . . F 6 57.409 75.594 53.763 1 35.12 ? C2B FAB 701 A 1 HETATM 11 O O2B FAB . . . F 6 56.284 76.414 53.427 1 34.47 ? O2B FAB 701 A 1 HETATM 12 C C1B FAB . . . F 6 57.778 75.808 55.233 1 35.44 ? C1B FAB 701 A 1 HETATM 13 N N9A FAB . . . F 6 58.832 76.826 55.496 1 35.74 ? N9A FAB 701 A 1 HETATM 14 C C8A FAB . . . F 6 59.905 77.084 54.747 1 36.15 ? C8A FAB 701 A 1 HETATM 15 N N7A FAB . . . F 6 60.618 78.058 55.314 1 36.16 ? N7A FAB 701 A 1 HETATM 16 C C5A FAB . . . F 6 60.003 78.42 56.433 1 35.99 ? C5A FAB 701 A 1 HETATM 17 C C6A FAB . . . F 6 60.303 79.369 57.401 1 35.95 ? C6A FAB 701 A 1 HETATM 18 N N6A FAB . . . F 6 61.35 80.169 57.233 1 36.27 ? N6A FAB 701 A 1 HETATM 19 N N1A FAB . . . F 6 59.522 79.488 58.557 1 36.03 ? N1A FAB 701 A 1 HETATM 20 C C2A FAB . . . F 6 58.343 78.626 58.816 1 36.21 ? C2A FAB 701 A 1 HETATM 21 N N3A FAB . . . F 6 57.999 77.788 57.642 1 36.16 ? N3A FAB 701 A 1 HETATM 22 C C4A FAB . . . F 6 58.867 77.634 56.551 1 36.01 ? C4A FAB 701 A 1 HETATM 23 N N1 FAB . . . F 6 60.807 62.057 54.494 1 43.48 ? N1 FAB 701 A 1 HETATM 24 C C2 FAB . . . F 6 60.709 61.739 55.853 1 43.58 ? C2 FAB 701 A 1 HETATM 25 O O2 FAB . . . F 6 60.672 62.639 56.688 1 43.53 ? O2 FAB 701 A 1 HETATM 26 N N3 FAB . . . F 6 60.651 60.397 56.258 1 43.47 ? N3 FAB 701 A 1 HETATM 27 C C4 FAB . . . F 6 60.698 59.379 55.297 1 43.52 ? C4 FAB 701 A 1 HETATM 28 O O4 FAB . . . F 6 60.65 58.204 55.655 1 43.53 ? O4 FAB 701 A 1 HETATM 29 C C4X FAB . . . F 6 60.794 59.703 53.945 1 43.5 ? C4X FAB 701 A 1 HETATM 30 N N5 FAB . . . F 6 60.837 58.69 52.98 1 43.6 ? N5 FAB 701 A 1 HETATM 31 C C5X FAB . . . F 6 61.32 58.991 51.701 1 43.5 ? C5X FAB 701 A 1 HETATM 32 C C6 FAB . . . F 6 61.737 57.969 50.854 1 43.45 ? C6 FAB 701 A 1 HETATM 33 C C7 FAB . . . F 6 62.226 58.275 49.588 1 43.62 ? C7 FAB 701 A 1 HETATM 34 C C7M FAB . . . F 6 62.674 57.117 48.698 1 43.79 ? C7M FAB 701 A 1 HETATM 35 C C8 FAB . . . F 6 62.291 59.613 49.161 1 43.65 ? C8 FAB 701 A 1 HETATM 36 C C8M FAB . . . F 6 62.818 60.008 47.777 1 43.16 ? C8M FAB 701 A 1 HETATM 37 C C9 FAB . . . F 6 61.87 60.629 50.016 1 43.45 ? C9 FAB 701 A 1 HETATM 38 C C9A FAB . . . F 6 61.374 60.322 51.284 1 43.36 ? C9A FAB 701 A 1 HETATM 39 N N10 FAB . . . F 6 60.965 61.343 52.164 1 43.15 ? N10 FAB 701 A 1 HETATM 40 C C10 FAB . . . F 6 60.839 61.037 53.535 1 43.27 ? C10 FAB 701 A 1 HETATM 41 C C1' FAB . . . F 6 60.787 62.721 51.648 1 41.44 ? C1' FAB 701 A 1 HETATM 42 C C2D FAB . . . F 6 59.371 63.261 51.788 1 40.07 ? C2D FAB 701 A 1 HETATM 43 O O2' FAB . . . F 6 58.593 62.875 50.656 1 40.48 ? O2' FAB 701 A 1 HETATM 44 C C3D FAB . . . F 6 59.39 64.785 51.871 1 39.31 ? C3D FAB 701 A 1 HETATM 45 O O3D FAB . . . F 6 60.434 65.277 51.034 1 39.18 ? O3D FAB 701 A 1 HETATM 46 C C4D FAB . . . F 6 59.614 65.31 53.294 1 38.68 ? C4D FAB 701 A 1 HETATM 47 O O4' FAB . . . F 6 58.91 64.514 54.234 1 39.28 ? O4' FAB 701 A 1 HETATM 48 C C5D FAB . . . F 6 59.103 66.737 53.411 1 38.12 ? C5D FAB 701 A 1 HETATM 49 O O5' FAB . . . F 6 59.92 67.5 54.289 1 36.86 ? O5' FAB 701 A 1 HETATM 50 P P FAB . . . F 6 59.249 68.656 55.199 1 36.16 ? P FAB 701 A 1 HETATM 51 O O1P FAB . . . F 6 58.017 68.119 55.829 1 35.59 ? O1P FAB 701 A 1 HETATM 52 O O2P FAB . . . F 6 60.327 69.246 56.022 1 34.71 ? O2P FAB 701 A 1 HETATM 53 O O3P FAB . . . F 6 58.718 69.741 54.137 1 35.07 ? O3P FAB 701 A 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 53 #