data_1NDA # _model_server_result.job_id UG9IsBddhCpjk-qUdgut2g _model_server_result.datetime_utc '2024-12-26 09:56:15' _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 1nda # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":500}' # _entry.id 1NDA # _exptl.entry_id 1NDA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 785.55 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FLAVIN-ADENINE DINUCLEOTIDE' _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 94 _cell.angle_gamma 90 _cell.entry_id 1NDA _cell.length_a 136.3 _cell.length_b 91.1 _cell.length_c 126 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1NDA _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # 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 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_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,E,F 1 1 C,D,G,H 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H 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 disulf ? disulf1 A SG CYS 52 A CYS 52 1_555 A SG CYS 57 A CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? disulf ? disulf2 B SG CYS 52 B CYS 52 1_555 B SG CYS 57 B CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? disulf ? disulf3 C SG CYS 52 C CYS 52 1_555 C SG CYS 57 C CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? disulf ? disulf4 D SG CYS 52 D CYS 52 1_555 D SG CYS 57 D CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? # _chem_comp.formula 'C27 H33 N9 O15 P2' _chem_comp.formula_weight 785.55 _chem_comp.id FAD _chem_comp.mon_nstd_flag . _chem_comp.name 'FLAVIN-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 FAD doub 83 n n PA O2A FAD sing 84 n n PA O5B FAD sing 85 n n PA O3P FAD sing 86 n n O2A HOA2 FAD sing 87 n n O5B C5B FAD sing 88 n n C5B C4B FAD sing 89 n n C5B H51A FAD sing 90 n n C5B H52A FAD sing 91 n n C4B O4B FAD sing 92 n n C4B C3B FAD sing 93 n n C4B H4B FAD sing 94 n n O4B C1B FAD sing 95 n n C3B O3B FAD sing 96 n n C3B C2B FAD sing 97 n n C3B H3B FAD sing 98 n n O3B HO3A FAD sing 99 n n C2B O2B FAD sing 100 n n C2B C1B FAD sing 101 n n C2B H2B FAD sing 102 n n O2B HO2A FAD sing 103 n n C1B N9A FAD sing 104 n n C1B H1B FAD sing 105 n n N9A C8A FAD sing 106 n y N9A C4A FAD sing 107 n y C8A N7A FAD doub 108 n y C8A H8A FAD sing 109 n n N7A C5A FAD sing 110 n y C5A C6A FAD sing 111 n y C5A C4A FAD doub 112 n y C6A N6A FAD sing 113 n n C6A N1A FAD doub 114 n y N6A H61A FAD sing 115 n n N6A H62A FAD sing 116 n n N1A C2A FAD sing 117 n y C2A N3A FAD doub 118 n y C2A H2A FAD sing 119 n n N3A C4A FAD sing 120 n y N1 C2 FAD sing 121 n n N1 C10 FAD doub 122 n n C2 O2 FAD doub 123 n n C2 N3 FAD sing 124 n n N3 C4 FAD sing 125 n n N3 HN3 FAD sing 126 n n C4 O4 FAD doub 127 n n C4 C4X FAD sing 128 n n C4X N5 FAD doub 129 n n C4X C10 FAD sing 130 n n N5 C5X FAD sing 131 n n C5X C6 FAD doub 132 n y C5X C9A FAD sing 133 n y C6 C7 FAD sing 134 n y C6 H6 FAD sing 135 n n C7 C7M FAD sing 136 n n C7 C8 FAD doub 137 n y C7M HM71 FAD sing 138 n n C7M HM72 FAD sing 139 n n C7M HM73 FAD sing 140 n n C8 C8M FAD sing 141 n n C8 C9 FAD sing 142 n y C8M HM81 FAD sing 143 n n C8M HM82 FAD sing 144 n n C8M HM83 FAD sing 145 n n C9 C9A FAD doub 146 n y C9 H9 FAD sing 147 n n C9A N10 FAD sing 148 n n N10 C10 FAD sing 149 n n N10 C1' FAD sing 150 n n C1' C2' FAD sing 151 n n C1' "H1'1" FAD sing 152 n n C1' "H1'2" FAD sing 153 n n C2' O2' FAD sing 154 n n C2' C3' FAD sing 155 n n C2' H2' FAD sing 156 n n O2' HO2' FAD sing 157 n n C3' O3' FAD sing 158 n n C3' C4' FAD sing 159 n n C3' H3' FAD sing 160 n n O3' HO3' FAD sing 161 n n C4' O4' FAD sing 162 n n C4' C5' FAD sing 163 n n C4' H4' FAD sing 164 n n O4' HO4' FAD sing 165 n n C5' O5' FAD sing 166 n n C5' "H5'1" FAD sing 167 n n C5' "H5'2" FAD sing 168 n n O5' P FAD sing 169 n n P O1P FAD doub 170 n n P O2P FAD sing 171 n n P O3P FAD sing 172 n n O2P HOP2 FAD sing 173 n n # _atom_sites.entry_id 1NDA _atom_sites.fract_transf_matrix[1][1] 0.007337 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000513 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010977 _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] 0.007956 _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 E 2 FAD A 1 500 500 FAD FAD . F 2 FAD B 1 500 500 FAD FAD . G 2 FAD C 1 500 500 FAD FAD . H 2 FAD D 1 500 500 FAD FAD . # 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 FAD . . . E 2 44.232 56.363 42.301 1 6.05 ? PA FAD 500 A 1 HETATM 2 O O1A FAD . . . E 2 45.124 57.526 42.542 1 6.98 ? O1A FAD 500 A 1 HETATM 3 O O2A FAD . . . E 2 43.717 56.137 40.944 1 8.12 ? O2A FAD 500 A 1 HETATM 4 O O5B FAD . . . E 2 42.944 56.544 43.23 1 5.25 ? O5B FAD 500 A 1 HETATM 5 C C5B FAD . . . E 2 42.893 56.522 44.642 1 5.07 ? C5B FAD 500 A 1 HETATM 6 C C4B FAD . . . E 2 41.553 57.043 45.036 1 6.77 ? C4B FAD 500 A 1 HETATM 7 O O4B FAD . . . E 2 41.199 56.79 46.381 1 7.4 ? O4B FAD 500 A 1 HETATM 8 C C3B FAD . . . E 2 41.254 58.471 44.78 1 5.23 ? C3B FAD 500 A 1 HETATM 9 O O3B FAD . . . E 2 40.067 58.434 44.05 1 7.04 ? O3B FAD 500 A 1 HETATM 10 C C2B FAD . . . E 2 41.17 59.037 46.2 1 5.05 ? C2B FAD 500 A 1 HETATM 11 O O2B FAD . . . E 2 40.477 60.265 46.429 1 4.36 ? O2B FAD 500 A 1 HETATM 12 C C1B FAD . . . E 2 40.546 57.9 46.963 1 5.12 ? C1B FAD 500 A 1 HETATM 13 N N9A FAD . . . E 2 40.995 57.838 48.354 1 4.52 ? N9A FAD 500 A 1 HETATM 14 C C8A FAD . . . E 2 42.187 58.241 48.853 1 5.7 ? C8A FAD 500 A 1 HETATM 15 N N7A FAD . . . E 2 42.236 58.333 50.147 1 7.29 ? N7A FAD 500 A 1 HETATM 16 C C5A FAD . . . E 2 41.065 57.729 50.519 1 5.38 ? C5A FAD 500 A 1 HETATM 17 C C6A FAD . . . E 2 40.62 57.402 51.772 1 6.53 ? C6A FAD 500 A 1 HETATM 18 N N6A FAD . . . E 2 41.407 57.433 52.834 1 10.52 ? N6A FAD 500 A 1 HETATM 19 N N1A FAD . . . E 2 39.371 56.98 51.796 1 7.24 ? N1A FAD 500 A 1 HETATM 20 C C2A FAD . . . E 2 38.746 56.683 50.66 1 6.53 ? C2A FAD 500 A 1 HETATM 21 N N3A FAD . . . E 2 39.17 56.773 49.419 1 3.95 ? N3A FAD 500 A 1 HETATM 22 C C4A FAD . . . E 2 40.33 57.378 49.427 1 3.69 ? C4A FAD 500 A 1 HETATM 23 N N1 FAD . . . E 2 49.853 57.595 34.94 1 4.95 ? N1 FAD 500 A 1 HETATM 24 C C2 FAD . . . E 2 49.927 57.146 33.642 1 4.28 ? C2 FAD 500 A 1 HETATM 25 O O2 FAD . . . E 2 49.972 55.975 33.337 1 2.49 ? O2 FAD 500 A 1 HETATM 26 N N3 FAD . . . E 2 49.944 58.059 32.582 1 2.49 ? N3 FAD 500 A 1 HETATM 27 C C4 FAD . . . E 2 49.987 59.415 32.694 1 6.03 ? C4 FAD 500 A 1 HETATM 28 O O4 FAD . . . E 2 50.049 60.188 31.737 1 8.48 ? O4 FAD 500 A 1 HETATM 29 C C4X FAD . . . E 2 49.936 59.934 34.087 1 6.98 ? C4X FAD 500 A 1 HETATM 30 N N5 FAD . . . E 2 49.897 61.206 34.245 1 7.4 ? N5 FAD 500 A 1 HETATM 31 C C5X FAD . . . E 2 49.74 61.652 35.49 1 5.64 ? C5X FAD 500 A 1 HETATM 32 C C6 FAD . . . E 2 49.648 63.025 35.55 1 8.39 ? C6 FAD 500 A 1 HETATM 33 C C7 FAD . . . E 2 49.336 63.691 36.71 1 6.76 ? C7 FAD 500 A 1 HETATM 34 C C7M FAD . . . E 2 49.23 64.677 36.654 1 7.3 ? C7M FAD 500 A 1 HETATM 35 C C8 FAD . . . E 2 49.163 62.862 37.877 1 6.62 ? C8 FAD 500 A 1 HETATM 36 C C8M FAD . . . E 2 48.963 63.224 38.739 1 8.23 ? C8M FAD 500 A 1 HETATM 37 C C9 FAD . . . E 2 49.328 61.467 37.798 1 4.72 ? C9 FAD 500 A 1 HETATM 38 C C9A FAD . . . E 2 49.482 60.827 36.589 1 4.3 ? C9A FAD 500 A 1 HETATM 39 N N10 FAD . . . E 2 49.627 59.444 36.414 1 4.74 ? N10 FAD 500 A 1 HETATM 40 C C10 FAD . . . E 2 49.74 58.92 35.143 1 5.45 ? C10 FAD 500 A 1 HETATM 41 C C1' FAD . . . E 2 49.718 58.469 37.517 1 4.83 ? C1' FAD 500 A 1 HETATM 42 C C2' FAD . . . E 2 48.385 57.802 37.657 1 5.31 ? C2' FAD 500 A 1 HETATM 43 O O2' FAD . . . E 2 47.419 58.822 37.537 1 3.62 ? O2' FAD 500 A 1 HETATM 44 C C3' FAD . . . E 2 48.322 57.021 38.961 1 4.13 ? C3' FAD 500 A 1 HETATM 45 O O3' FAD . . . E 2 49.428 56.19 39.007 1 3.75 ? O3' FAD 500 A 1 HETATM 46 C C4' FAD . . . E 2 47.315 55.952 39.022 1 5.81 ? C4' FAD 500 A 1 HETATM 47 O O4' FAD . . . E 2 46.07 56.499 38.764 1 11.12 ? O4' FAD 500 A 1 HETATM 48 C C5' FAD . . . E 2 47.302 55.228 40.375 1 5.61 ? C5' FAD 500 A 1 HETATM 49 O O5' FAD . . . E 2 46.121 54.464 40.64 1 5.37 ? O5' FAD 500 A 1 HETATM 50 P P FAD . . . E 2 45.698 53.932 42.066 1 5.32 ? P FAD 500 A 1 HETATM 51 O O1P FAD . . . E 2 44.708 52.861 41.87 1 7.17 ? O1P FAD 500 A 1 HETATM 52 O O2P FAD . . . E 2 46.843 53.643 42.951 1 6.44 ? O2P FAD 500 A 1 HETATM 53 O O3P FAD . . . E 2 44.958 55.087 42.743 1 6.43 ? O3P FAD 500 A 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 53 #