data_1OJD # _model_server_result.job_id uB2r6kBzqPvZbfCYqPvOHg _model_server_result.datetime_utc '2024-11-08 03:24:05' _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 1ojd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Y","auth_seq_id":600}' # _entry.id 1OJD # _exptl.entry_id 1OJD _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 10 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90.14 _cell.angle_beta 90.45 _cell.angle_gamma 114.02 _cell.entry_id 1OJD _cell.length_a 108.405 _cell.length_b 132.431 _cell.length_c 154.838 _cell.Z_PDB 10 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1OJD _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 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 PQS dimeric 2 author_and_software_defined_assembly 1 PQS dimeric 2 author_and_software_defined_assembly 2 PQS dimeric 2 author_and_software_defined_assembly 3 PQS dimeric 2 author_and_software_defined_assembly 4 PQS dimeric 2 author_and_software_defined_assembly 5 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,K,L,M,N 1 1 C,D,O,P,Q,R 2 1 E,F,S,T,U,V 3 1 G,H,W,X,Y,Z 4 1 I,J,AA,BA,CA,DA 5 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 K N N ? 2 M N N ? 2 O N N ? 2 Q N N ? 2 S N N ? 2 U N N ? 2 W N N ? 2 Y N N ? 2 AA N N ? 2 CA 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 397 A CYS 397 1_555 K C8M FAD . A FAD 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.603 ? covale ? covale2 B SG CYS 397 B CYS 397 1_555 M C8M FAD . B FAD 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.608 ? covale ? covale3 C SG CYS 397 C CYS 397 1_555 O C8M FAD . C FAD 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.618 ? covale ? covale4 D SG CYS 397 D CYS 397 1_555 Q C8M FAD . D FAD 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.591 ? covale ? covale5 E SG CYS 397 E CYS 397 1_555 S C8M FAD . E FAD 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.614 ? covale ? covale6 F SG CYS 397 F CYS 397 1_555 U C8M FAD . F FAD 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.61 ? covale ? covale7 G SG CYS 397 G CYS 397 1_555 W C8M FAD . G FAD 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.616 ? covale ? covale8 H SG CYS 397 H CYS 397 1_555 Y C8M FAD . H FAD 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.604 ? covale ? covale9 I SG CYS 397 I CYS 397 1_555 AA C8M FAD . I FAD 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.62 ? covale ? covale10 J SG CYS 397 L CYS 397 1_555 CA C8M FAD . L FAD 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.628 ? # _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 1OJD _atom_sites.fract_transf_matrix[1][1] 0.009225 _atom_sites.fract_transf_matrix[1][2] 0.004111 _atom_sites.fract_transf_matrix[1][3] 0.000099 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008267 _atom_sites.fract_transf_matrix[2][3] 0.000052 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.006459 _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 K 2 FAD A 1 600 600 FAD FAD . L 3 LDA A 1 601 601 LDA LDA . M 2 FAD B 1 600 600 FAD FAD . N 3 LDA B 1 601 601 LDA LDA . O 2 FAD C 1 600 600 FAD FAD . P 3 LDA C 1 601 601 LDA LDA . Q 2 FAD D 1 600 600 FAD FAD . R 3 LDA D 1 601 601 LDA LDA . S 2 FAD E 1 600 600 FAD FAD . T 3 LDA E 1 601 601 LDA LDA . U 2 FAD F 1 600 600 FAD FAD . V 3 LDA F 1 601 601 LDA LDA . W 2 FAD G 1 600 600 FAD FAD . X 3 LDA G 1 601 601 LDA LDA . Y 2 FAD H 1 600 600 FAD FAD . Z 3 LDA H 1 601 601 LDA LDA . AA 2 FAD I 1 600 600 FAD FAD . BA 3 LDA I 1 601 601 LDA LDA . CA 2 FAD L 1 600 600 FAD FAD . DA 3 LDA L 1 601 601 LDA LDA . # 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 . . . Y 2 -7.319 67.851 -13.671 1 25.9 ? PA FAD 600 H 1 HETATM 2 O O1A FAD . . . Y 2 -6.953 67.748 -12.257 1 27.82 ? O1A FAD 600 H 1 HETATM 3 O O2A FAD . . . Y 2 -7.476 66.51 -14.364 1 28.47 ? O2A FAD 600 H 1 HETATM 4 O O5B FAD . . . Y 2 -6.209 68.706 -14.414 1 29.81 ? O5B FAD 600 H 1 HETATM 5 C C5B FAD . . . Y 2 -5.435 69.626 -13.69 1 31.63 ? C5B FAD 600 H 1 HETATM 6 C C4B FAD . . . Y 2 -3.952 69.562 -14.001 1 32.84 ? C4B FAD 600 H 1 HETATM 7 O O4B FAD . . . Y 2 -3.353 70.742 -13.532 1 33.04 ? O4B FAD 600 H 1 HETATM 8 C C3B FAD . . . Y 2 -3.294 68.386 -13.321 1 34.05 ? C3B FAD 600 H 1 HETATM 9 O O3B FAD . . . Y 2 -2.49 67.752 -14.273 1 34.95 ? O3B FAD 600 H 1 HETATM 10 C C2B FAD . . . Y 2 -2.403 69.023 -12.294 1 34.55 ? C2B FAD 600 H 1 HETATM 11 O O2B FAD . . . Y 2 -1.194 68.308 -12.123 1 33.5 ? O2B FAD 600 H 1 HETATM 12 C C1B FAD . . . Y 2 -2.158 70.414 -12.886 1 34.94 ? C1B FAD 600 H 1 HETATM 13 N N9A FAD . . . Y 2 -1.802 71.431 -11.863 1 35.93 ? N9A FAD 600 H 1 HETATM 14 C C8A FAD . . . Y 2 -2.38 71.591 -10.629 1 35.55 ? C8A FAD 600 H 1 HETATM 15 N N7A FAD . . . Y 2 -1.769 72.604 -10.002 1 35.95 ? N7A FAD 600 H 1 HETATM 16 C C5A FAD . . . Y 2 -0.817 73.088 -10.8 1 36.92 ? C5A FAD 600 H 1 HETATM 17 C C6A FAD . . . Y 2 0.079 74.126 -10.607 1 37.91 ? C6A FAD 600 H 1 HETATM 18 N N6A FAD . . . Y 2 -0.023 74.856 -9.484 1 39.3 ? N6A FAD 600 H 1 HETATM 19 N N1A FAD . . . Y 2 0.984 74.437 -11.603 1 36.99 ? N1A FAD 600 H 1 HETATM 20 C C2A FAD . . . Y 2 0.946 73.694 -12.764 1 37.07 ? C2A FAD 600 H 1 HETATM 21 N N3A FAD . . . Y 2 0.048 72.663 -12.945 1 36.15 ? N3A FAD 600 H 1 HETATM 22 C C4A FAD . . . Y 2 -0.816 72.365 -11.97 1 36.65 ? C4A FAD 600 H 1 HETATM 23 N N1 FAD . . . Y 2 -14.523 61.271 -14.808 1 47.17 ? N1 FAD 600 H 1 HETATM 24 C C2 FAD . . . Y 2 -15.423 60.68 -15.637 1 46.45 ? C2 FAD 600 H 1 HETATM 25 O O2 FAD . . . Y 2 -15.821 61.29 -16.614 1 46.31 ? O2 FAD 600 H 1 HETATM 26 N N3 FAD . . . Y 2 -15.876 59.415 -15.358 1 47.09 ? N3 FAD 600 H 1 HETATM 27 C C4 FAD . . . Y 2 -15.434 58.711 -14.256 1 47.66 ? C4 FAD 600 H 1 HETATM 28 O O4 FAD . . . Y 2 -15.372 57.491 -14.335 1 49.51 ? O4 FAD 600 H 1 HETATM 29 C C4X FAD . . . Y 2 -14.53 59.317 -13.407 1 46.97 ? C4X FAD 600 H 1 HETATM 30 N N5 FAD . . . Y 2 -14.088 58.648 -12.297 1 46.48 ? N5 FAD 600 H 1 HETATM 31 C C5X FAD . . . Y 2 -13.167 59.248 -11.483 1 45.76 ? C5X FAD 600 H 1 HETATM 32 C C6 FAD . . . Y 2 -12.689 58.567 -10.373 1 46.18 ? C6 FAD 600 H 1 HETATM 33 C C7 FAD . . . Y 2 -11.752 59.116 -9.518 1 45.38 ? C7 FAD 600 H 1 HETATM 34 C C7M FAD . . . Y 2 -11.008 58.141 -8.674 1 46.15 ? C7M FAD 600 H 1 HETATM 35 C C8 FAD . . . Y 2 -11.273 60.393 -9.788 1 45.04 ? C8 FAD 600 H 1 HETATM 36 C C8M FAD . . . Y 2 -9.856 60.741 -9.447 1 41.55 ? C8M FAD 600 H 1 HETATM 37 C C9 FAD . . . Y 2 -11.769 61.062 -10.904 1 45.58 ? C9 FAD 600 H 1 HETATM 38 C C9A FAD . . . Y 2 -12.697 60.509 -11.758 1 45.08 ? C9A FAD 600 H 1 HETATM 39 N N10 FAD . . . Y 2 -13.151 61.207 -12.845 1 44.31 ? N10 FAD 600 H 1 HETATM 40 C C10 FAD . . . Y 2 -14.066 60.601 -13.685 1 46.52 ? C10 FAD 600 H 1 HETATM 41 C C1' FAD . . . Y 2 -13.205 62.694 -12.768 1 41.38 ? C1' FAD 600 H 1 HETATM 42 C C2' FAD . . . Y 2 -12.333 63.229 -13.878 1 38.81 ? C2' FAD 600 H 1 HETATM 43 O O2' FAD . . . Y 2 -11.065 62.69 -13.673 1 38.06 ? O2' FAD 600 H 1 HETATM 44 C C3' FAD . . . Y 2 -12.293 64.751 -13.871 1 37.99 ? C3' FAD 600 H 1 HETATM 45 O O3' FAD . . . Y 2 -13.617 65.219 -14.031 1 38.04 ? O3' FAD 600 H 1 HETATM 46 C C4' FAD . . . Y 2 -11.449 65.355 -14.984 1 36.76 ? C4' FAD 600 H 1 HETATM 47 O O4' FAD . . . Y 2 -10.334 64.554 -15.263 1 37.91 ? O4' FAD 600 H 1 HETATM 48 C C5' FAD . . . Y 2 -10.97 66.724 -14.566 1 35.31 ? C5' FAD 600 H 1 HETATM 49 O O5' FAD . . . Y 2 -9.963 67.149 -15.455 1 33.99 ? O5' FAD 600 H 1 HETATM 50 P P FAD . . . Y 2 -9.406 68.626 -15.338 1 30.03 ? P FAD 600 H 1 HETATM 51 O O1P FAD . . . Y 2 -8.491 68.919 -16.46 1 32.06 ? O1P FAD 600 H 1 HETATM 52 O O2P FAD . . . Y 2 -10.601 69.549 -15.36 1 31.38 ? O2P FAD 600 H 1 HETATM 53 O O3P FAD . . . Y 2 -8.678 68.643 -13.9 1 28.85 ? O3P FAD 600 H 1 # _model_server_stats.io_time_ms 28 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 46 _model_server_stats.query_time_ms 335 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 53 #