data_6GPV # _model_server_result.job_id n5KTVsbufRyK9B4ONHlqPQ _model_server_result.datetime_utc '2024-11-27 17:04:48' _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 6gpv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1001}' # _entry.id 6GPV # _exptl.entry_id 6GPV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 456.344 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FLAVIN MONONUCLEOTIDE' _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 6GPV _cell.length_a 40.5 _cell.length_b 40.5 _cell.length_c 133.76 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GPV _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 2 _struct_asym.id B _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 ASN 72 A ASN 72 1_555 A N F7Q 73 A F7Q 73 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A C F7Q 73 A F7Q 73 1_555 A N THR 74 A THR 74 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.319 ? covale ? covale3 A C PHE 80 A PHE 80 1_555 A N NFK 81 A NFK 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.316 ? covale ? covale4 A C NFK 81 A NFK 81 1_555 A N ASN 82 A ASN 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale5 A C LEU 84 A LEU 84 1_555 A N HOO 85 A HOO 85 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.341 ? covale ? covale6 A C LEU 84 A LEU 84 1_555 A N OHI 85 A OHI 85 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.341 ? covale ? covale7 A C HOO 85 A HOO 85 1_555 A N LEU 86 A LEU 86 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.349 ? covale ? covale8 A C OHI 85 A OHI 85 1_555 A N LEU 86 A LEU 86 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.349 ? metalc ? metalc1 C MG MG . A MG 1002 1_555 F O HOH . A HOH 1104 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.07 ? metalc ? metalc2 C MG MG . A MG 1002 1_555 F O HOH . A HOH 1114 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.366 ? metalc ? metalc3 C MG MG . A MG 1002 1_555 F O HOH . A HOH 1116 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.074 ? metalc ? metalc4 C MG MG . A MG 1002 1_555 F O HOH . A HOH 1212 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.007 ? metalc ? metalc5 C MG MG . A MG 1002 1_555 F O HOH . A HOH 1216 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.048 ? # _chem_comp.formula 'C17 H21 N4 O9 P' _chem_comp.formula_weight 456.344 _chem_comp.id FMN _chem_comp.mon_nstd_flag . _chem_comp.name 'FLAVIN MONONUCLEOTIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'RIBOFLAVIN MONOPHOSPHATE' # 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 N1 C2 FMN sing 109 n n N1 C10 FMN doub 110 n n C2 O2 FMN doub 111 n n C2 N3 FMN sing 112 n n N3 C4 FMN sing 113 n n N3 HN3 FMN sing 114 n n C4 O4 FMN doub 115 n n C4 C4A FMN sing 116 n n C4A N5 FMN doub 117 n n C4A C10 FMN sing 118 n n N5 C5A FMN sing 119 n n C5A C6 FMN doub 120 n y C5A C9A FMN sing 121 n y C6 C7 FMN sing 122 n y C6 H6 FMN sing 123 n n C7 C7M FMN sing 124 n n C7 C8 FMN doub 125 n y C7M HM71 FMN sing 126 n n C7M HM72 FMN sing 127 n n C7M HM73 FMN sing 128 n n C8 C8M FMN sing 129 n n C8 C9 FMN sing 130 n y C8M HM81 FMN sing 131 n n C8M HM82 FMN sing 132 n n C8M HM83 FMN sing 133 n n C9 C9A FMN doub 134 n y C9 H9 FMN sing 135 n n C9A N10 FMN sing 136 n n N10 C10 FMN sing 137 n n N10 C1' FMN sing 138 n n C1' C2' FMN sing 139 n n C1' "H1'1" FMN sing 140 n n C1' "H1'2" FMN sing 141 n n C2' O2' FMN sing 142 n n C2' C3' FMN sing 143 n n C2' H2' FMN sing 144 n n O2' HO2' FMN sing 145 n n C3' O3' FMN sing 146 n n C3' C4' FMN sing 147 n n C3' H3' FMN sing 148 n n O3' HO3' FMN sing 149 n n C4' O4' FMN sing 150 n n C4' C5' FMN sing 151 n n C4' H4' FMN sing 152 n n O4' HO4' FMN sing 153 n n C5' O5' FMN sing 154 n n C5' "H5'1" FMN sing 155 n n C5' "H5'2" FMN sing 156 n n O5' P FMN sing 157 n n P O1P FMN doub 158 n n P O2P FMN sing 159 n n P O3P FMN sing 160 n n O2P HOP2 FMN sing 161 n n O3P HOP3 FMN sing 162 n n # _atom_sites.entry_id 6GPV _atom_sites.fract_transf_matrix[1][1] 0.024691 _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] 0.024691 _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] 0.007476 _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 FMN A 1 1001 1001 FMN FMN . C 3 MG A 1 1002 1 MG MG . D 4 CL A 1 1003 1002 CL CL . E 5 LUM A 1 1004 1 LUM LUM . F 6 HOH A 1 1101 123 HOH HOH . F 6 HOH A 2 1102 55 HOH HOH . F 6 HOH A 3 1103 120 HOH HOH . F 6 HOH A 4 1104 25 HOH HOH . F 6 HOH A 5 1105 38 HOH HOH . F 6 HOH A 6 1106 40 HOH HOH . F 6 HOH A 7 1107 78 HOH HOH . F 6 HOH A 8 1108 61 HOH HOH . F 6 HOH A 9 1109 107 HOH HOH . F 6 HOH A 10 1110 98 HOH HOH . F 6 HOH A 11 1111 114 HOH HOH . F 6 HOH A 12 1112 125 HOH HOH . F 6 HOH A 13 1113 124 HOH HOH . F 6 HOH A 14 1114 17 HOH HOH . F 6 HOH A 15 1115 70 HOH HOH . F 6 HOH A 16 1116 6 HOH HOH . F 6 HOH A 17 1117 100 HOH HOH . F 6 HOH A 18 1118 69 HOH HOH . F 6 HOH A 19 1119 33 HOH HOH . F 6 HOH A 20 1120 44 HOH HOH . F 6 HOH A 21 1121 109 HOH HOH . F 6 HOH A 22 1122 116 HOH HOH . F 6 HOH A 23 1123 64 HOH HOH . F 6 HOH A 24 1124 46 HOH HOH . F 6 HOH A 25 1125 14 HOH HOH . F 6 HOH A 26 1126 26 HOH HOH . F 6 HOH A 27 1127 22 HOH HOH . F 6 HOH A 28 1128 126 HOH HOH . F 6 HOH A 29 1129 21 HOH HOH . F 6 HOH A 30 1130 54 HOH HOH . F 6 HOH A 31 1131 73 HOH HOH . F 6 HOH A 32 1132 92 HOH HOH . F 6 HOH A 33 1133 8 HOH HOH . F 6 HOH A 34 1134 5 HOH HOH . F 6 HOH A 35 1135 18 HOH HOH . F 6 HOH A 36 1136 30 HOH HOH . F 6 HOH A 37 1137 67 HOH HOH . F 6 HOH A 38 1138 96 HOH HOH . F 6 HOH A 39 1139 19 HOH HOH . F 6 HOH A 40 1140 20 HOH HOH . F 6 HOH A 41 1141 117 HOH HOH . F 6 HOH A 42 1142 52 HOH HOH . F 6 HOH A 43 1143 122 HOH HOH . F 6 HOH A 44 1144 62 HOH HOH . F 6 HOH A 45 1145 4 HOH HOH . F 6 HOH A 46 1146 71 HOH HOH . F 6 HOH A 47 1147 59 HOH HOH . F 6 HOH A 48 1148 95 HOH HOH . F 6 HOH A 49 1149 84 HOH HOH . F 6 HOH A 50 1150 9 HOH HOH . F 6 HOH A 51 1151 29 HOH HOH . F 6 HOH A 52 1152 90 HOH HOH . F 6 HOH A 53 1153 103 HOH HOH . F 6 HOH A 54 1154 10 HOH HOH . F 6 HOH A 55 1155 51 HOH HOH . F 6 HOH A 56 1156 93 HOH HOH . F 6 HOH A 57 1157 45 HOH HOH . F 6 HOH A 58 1158 68 HOH HOH . F 6 HOH A 59 1159 1 HOH HOH . F 6 HOH A 60 1160 108 HOH HOH . F 6 HOH A 61 1161 57 HOH HOH . F 6 HOH A 62 1162 104 HOH HOH . F 6 HOH A 63 1163 43 HOH HOH . F 6 HOH A 64 1164 24 HOH HOH . F 6 HOH A 65 1165 36 HOH HOH . F 6 HOH A 66 1166 41 HOH HOH . F 6 HOH A 67 1167 15 HOH HOH . F 6 HOH A 68 1168 49 HOH HOH . F 6 HOH A 69 1169 3 HOH HOH . F 6 HOH A 70 1170 106 HOH HOH . F 6 HOH A 71 1171 7 HOH HOH . F 6 HOH A 72 1172 53 HOH HOH . F 6 HOH A 73 1173 11 HOH HOH . F 6 HOH A 74 1174 85 HOH HOH . F 6 HOH A 75 1175 115 HOH HOH . F 6 HOH A 76 1176 60 HOH HOH . F 6 HOH A 77 1177 12 HOH HOH . F 6 HOH A 78 1178 37 HOH HOH . F 6 HOH A 79 1179 112 HOH HOH . F 6 HOH A 80 1180 47 HOH HOH . F 6 HOH A 81 1181 119 HOH HOH . F 6 HOH A 82 1182 58 HOH HOH . F 6 HOH A 83 1183 74 HOH HOH . F 6 HOH A 84 1184 48 HOH HOH . F 6 HOH A 85 1185 65 HOH HOH . F 6 HOH A 86 1186 31 HOH HOH . F 6 HOH A 87 1187 2 HOH HOH . F 6 HOH A 88 1188 13 HOH HOH . F 6 HOH A 89 1189 102 HOH HOH . F 6 HOH A 90 1190 34 HOH HOH . F 6 HOH A 91 1191 99 HOH HOH . F 6 HOH A 92 1192 28 HOH HOH . F 6 HOH A 93 1193 77 HOH HOH . F 6 HOH A 94 1194 42 HOH HOH . F 6 HOH A 95 1195 66 HOH HOH . F 6 HOH A 96 1196 39 HOH HOH . F 6 HOH A 97 1197 88 HOH HOH . F 6 HOH A 98 1198 97 HOH HOH . F 6 HOH A 99 1199 105 HOH HOH . F 6 HOH A 100 1200 23 HOH HOH . F 6 HOH A 101 1201 16 HOH HOH . F 6 HOH A 102 1202 89 HOH HOH . F 6 HOH A 103 1203 82 HOH HOH . F 6 HOH A 104 1204 63 HOH HOH . F 6 HOH A 105 1205 111 HOH HOH . F 6 HOH A 106 1206 72 HOH HOH . F 6 HOH A 107 1207 50 HOH HOH . F 6 HOH A 108 1208 35 HOH HOH . F 6 HOH A 109 1209 87 HOH HOH . F 6 HOH A 110 1210 80 HOH HOH . F 6 HOH A 111 1211 56 HOH HOH . F 6 HOH A 112 1212 27 HOH HOH . F 6 HOH A 113 1213 81 HOH HOH . F 6 HOH A 114 1214 110 HOH HOH . F 6 HOH A 115 1215 118 HOH HOH . F 6 HOH A 116 1216 32 HOH HOH . F 6 HOH A 117 1217 86 HOH HOH . F 6 HOH A 118 1218 79 HOH HOH . F 6 HOH A 119 1219 113 HOH HOH . F 6 HOH A 120 1220 101 HOH HOH . F 6 HOH A 121 1221 83 HOH HOH . F 6 HOH A 122 1222 121 HOH HOH . F 6 HOH A 123 1223 75 HOH HOH . F 6 HOH A 124 1224 76 HOH HOH . F 6 HOH A 125 1225 91 HOH HOH . F 6 HOH A 126 1226 94 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 N N1 FMN . A . B 2 -1.715 -7.631 -12.899 0.75 26.98 ? N1 FMN 1001 A 1 HETATM 2 C C2 FMN . A . B 2 -1.939 -8.245 -14.077 0.75 28.24 ? C2 FMN 1001 A 1 HETATM 3 O O2 FMN . A . B 2 -2.962 -8.95 -14.128 0.75 29.31 ? O2 FMN 1001 A 1 HETATM 4 N N3 FMN . A . B 2 -1.119 -8.101 -15.151 0.75 28.19 ? N3 FMN 1001 A 1 HETATM 5 C C4 FMN . A . B 2 0.006 -7.341 -15.09 0.75 29.29 ? C4 FMN 1001 A 1 HETATM 6 O O4 FMN . A . B 2 0.798 -7.206 -16.056 0.75 29.61 ? O4 FMN 1001 A 1 HETATM 7 C C4A FMN . A . B 2 0.302 -6.65 -13.819 0.75 28.05 ? C4A FMN 1001 A 1 HETATM 8 N N5 FMN . A . B 2 1.384 -5.874 -13.669 0.75 29.35 ? N5 FMN 1001 A 1 HETATM 9 C C5A FMN . A . B 2 1.659 -5.247 -12.499 0.75 27.75 ? C5A FMN 1001 A 1 HETATM 10 C C6 FMN . A . B 2 2.811 -4.475 -12.406 0.75 26.28 ? C6 FMN 1001 A 1 HETATM 11 C C7 FMN . A . B 2 3.123 -3.825 -11.225 0.75 26.11 ? C7 FMN 1001 A 1 HETATM 12 C C7M FMN . A . B 2 4.373 -2.982 -11.145 0.75 26.49 ? C7M FMN 1001 A 1 HETATM 13 C C8 FMN . A . B 2 2.218 -3.965 -10.053 0.75 26.76 ? C8 FMN 1001 A 1 HETATM 14 C C8M FMN . A . B 2 2.544 -3.287 -8.742 0.75 29.16 ? C8M FMN 1001 A 1 HETATM 15 C C9 FMN . A . B 2 1.076 -4.753 -10.134 0.75 26.22 ? C9 FMN 1001 A 1 HETATM 16 C C9A FMN . A . B 2 0.748 -5.411 -11.323 0.75 28.14 ? C9A FMN 1001 A 1 HETATM 17 N N10 FMN . A . B 2 -0.422 -6.23 -11.475 0.75 28.07 ? N10 FMN 1001 A 1 HETATM 18 C C10 FMN . A . B 2 -0.639 -6.854 -12.707 0.75 26.64 ? C10 FMN 1001 A 1 HETATM 19 C C1' FMN . A . B 2 -1.368 -6.544 -10.387 0.75 26.91 ? C1' FMN 1001 A 1 HETATM 20 C C2' FMN . A . B 2 -2.475 -5.579 -10.1 0.75 27.31 ? C2' FMN 1001 A 1 HETATM 21 O O2' FMN . A . B 2 -1.976 -4.27 -10.239 0.75 26.62 ? O2' FMN 1001 A 1 HETATM 22 C C3' FMN . A . B 2 -2.964 -5.759 -8.67 0.75 27.47 ? C3' FMN 1001 A 1 HETATM 23 O O3' FMN . A . B 2 -1.867 -5.54 -7.793 0.75 25.73 ? O3' FMN 1001 A 1 HETATM 24 C C4' FMN . A . B 2 -3.544 -7.161 -8.419 0.75 27.88 ? C4' FMN 1001 A 1 HETATM 25 O O4' FMN . A . B 2 -4.677 -7.333 -9.285 0.75 29.47 ? O4' FMN 1001 A 1 HETATM 26 C C5' FMN . A . B 2 -3.936 -7.364 -6.947 0.75 28.62 ? C5' FMN 1001 A 1 HETATM 27 O O5' FMN . A . B 2 -4.645 -6.231 -6.392 0.75 26.89 ? O5' FMN 1001 A 1 HETATM 28 P P FMN . A . B 2 -6.252 -6.168 -6.512 0.75 29.91 ? P FMN 1001 A 1 HETATM 29 O O1P FMN . A . B 2 -6.626 -4.905 -5.755 0.75 27.15 ? O1P FMN 1001 A 1 HETATM 30 O O2P FMN . A . B 2 -6.62 -6.177 -7.981 0.75 24.63 ? O2P FMN 1001 A 1 HETATM 31 O O3P FMN . A . B 2 -6.732 -7.417 -5.821 0.75 27.62 ? O3P FMN 1001 A 1 # _model_server_stats.io_time_ms 48 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 250 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #