data_6JP8 # _model_server_result.job_id 6iSB1AjTrI4lKYjGxK-9GA _model_server_result.datetime_utc '2024-11-21 13:41:10' _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 6jp8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":1901}' # _entry.id 6JP8 # _exptl.entry_id 6JP8 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 356.297 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'methyl (4~{S})-2,6-dimethyl-5-nitro-4-[2-(trifluoromethyl)phenyl]-1,4-dihydropyridine-3-carboxylate' _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 6JP8 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6JP8 _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 pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,M,N,O,P,Q,R,S,T,U,V,W,X _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 # _struct_asym.details ? _struct_asym.entity_id 8 _struct_asym.id M _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 5 oligosaccharide 6 oligosaccharide 7 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 5 2 1 NAG NAG C1 O1 . O3 HO3 . sing 2 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 6 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 7 2 1 NAG NAG C1 O1 . O4 HO4 . sing 5 ? 7 3 2 NAG NAG C1 O1 . O3 HO3 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 5 n F NAG 1 D 1 NAG F 1201 NAG 5 n F NAG 2 D 2 NAG F 1202 NAG 5 n G NAG 1 G 1 NAG F 1204 NAG 5 n G NAG 2 G 2 NAG F 1205 NAG 6 n H NAG 1 H 1 NAG F 1209 NAG 6 n H NAG 2 H 2 NAG F 1208 NAG 6 n H BMA 3 H 3 BMA F 1207 BMA 6 n I NAG 1 I 1 NAG F 1210 NAG 6 n I NAG 2 I 2 NAG F 1211 NAG 6 n I BMA 3 I 3 BMA F 1212 BMA 5 n J NAG 1 J 1 NAG F 1215 NAG 5 n J NAG 2 J 2 NAG F 1216 NAG 5 n K NAG 1 K 1 NAG F 1217 NAG 5 n K NAG 2 K 2 NAG F 1218 NAG 7 n L NAG 1 L 1 NAG F 1224 NAG 7 n L NAG 2 L 2 NAG F 1223 NAG 7 n L NAG 3 L 3 NAG F 1222 NAG # 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 57 E CYS 57 1_555 A SG CYS 80 E CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf2 D SG CYS 226 A CYS 226 1_555 D SG CYS 254 A CYS 254 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.912 ? disulf ? disulf3 D SG CYS 245 A CYS 245 1_555 D SG CYS 261 A CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? disulf ? disulf4 D SG CYS 957 A CYS 957 1_555 D SG CYS 968 A CYS 968 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 D SG CYS 1338 A CYS 1338 1_555 D SG CYS 1352 A CYS 1352 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.75 ? disulf ? disulf6 E SG CYS 277 F CYS 305 1_555 E SG CYS 1018 F CYS 1047 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf7 E SG CYS 328 F CYS 356 1_555 E SG CYS 1033 F CYS 1062 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.77 ? disulf ? disulf8 E SG CYS 378 F CYS 406 1_555 E SG CYS 1045 F CYS 1074 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? disulf ? disulf9 E SG CYS 641 F CYS 670 1_555 E SG CYS 671 F CYS 700 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf10 E SG CYS 878 F CYS 907 1_555 E SG CYS 948 F CYS 977 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf11 E SG CYS 970 F CYS 999 1_555 E SG CYS 1000 F CYS 1029 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf12 E SG CYS 973 F CYS 1002 1_555 E SG CYS 998 F CYS 1027 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? covale ? covale1 E ND2 ASN 66 F ASN 92 1_555 T C1 NAG . F NAG 1114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale2 E ND2 ASN 158 F ASN 186 1_555 H C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale3 E ND2 ASN 442 F ASN 470 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.556 ? covale ? covale4 E ND2 ASN 578 F ASN 606 1_555 U C1 NAG . F NAG 1115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale5 E ND2 ASN 587 F ASN 615 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.529 ? covale ? covale6 E ND2 ASN 798 F ASN 827 1_555 L C1 NAG . L NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? covale ? covale7 E ND2 ASN 862 F ASN 891 1_555 S C1 NAG . F NAG 1107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.381 ? covale ? covale8 E ND2 ASN 869 F ASN 898 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.473 ? covale ? covale9 F O3 NAG . D NAG 1 1_555 F C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale10 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale11 H O4 NAG . H NAG 1 1_555 H C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale12 H O4 NAG . H NAG 2 1_555 H C1 BMA . H BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale13 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale14 I O4 NAG . I NAG 2 1_555 I C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale15 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale16 K O3 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale17 L O4 NAG . L NAG 1 1_555 L C1 NAG . L NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.316 ? covale ? covale18 L O3 NAG . L NAG 2 1_555 L C1 NAG . L NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? metalc ? metalc1 D OE1 GLU 292 A GLU 292 1_555 O CA CA . A CA 1903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? metalc ? metalc2 D OE2 GLU 292 A GLU 292 1_555 O CA CA . A CA 1903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.968 ? metalc ? metalc3 D OE1 GLU 614 A GLU 614 1_555 O CA CA . A CA 1903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.12 ? metalc ? metalc4 D OE1 GLU 1014 A GLU 1014 1_555 O CA CA . A CA 1903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.786 ? # _chem_comp.formula 'C16 H15 F3 N2 O4' _chem_comp.formula_weight 356.297 _chem_comp.id C8U _chem_comp.mon_nstd_flag . _chem_comp.name 'methyl (4~{S})-2,6-dimethyl-5-nitro-4-[2-(trifluoromethyl)phenyl]-1,4-dihydropyridine-3-carboxylate' _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 F20 C18 C8U sing 94 n n O10 N09 C8U doub 95 n n F19 C18 C8U sing 96 n n C16 C15 C8U doub 97 n y C16 C17 C8U sing 98 n y C18 C17 C8U sing 99 n n C18 F21 C8U sing 100 n n C15 C14 C8U sing 101 n y C17 C12 C8U doub 102 n y N09 O11 C8U sing 103 n n N09 C05 C8U sing 104 n n C14 C13 C8U doub 105 n y C12 C13 C8U sing 106 n y C12 C04 C8U sing 107 n n C05 C04 C8U sing 108 n n C05 C06 C8U doub 109 n n C08 C06 C8U sing 110 n n C04 C03 C8U sing 111 n n C06 N07 C8U sing 112 n n C03 C22 C8U sing 113 n n C03 C02 C8U doub 114 n n N07 C02 C8U sing 115 n n O24 C25 C8U sing 116 n n O24 C22 C8U sing 117 n n C22 O23 C8U doub 118 n n C02 C01 C8U sing 119 n n C13 H1 C8U sing 120 n n C15 H2 C8U sing 121 n n C01 H3 C8U sing 122 n n C01 H4 C8U sing 123 n n C01 H5 C8U sing 124 n n C04 H6 C8U sing 125 n n N07 H9 C8U sing 126 n n C08 H10 C8U sing 127 n n C08 H11 C8U sing 128 n n C08 H12 C8U sing 129 n n C14 H13 C8U sing 130 n n C16 H14 C8U sing 131 n n C25 H15 C8U sing 132 n n C25 H16 C8U sing 133 n n C25 H17 C8U sing 134 n n # _atom_sites.entry_id 6JP8 _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 M 8 C8U A 1 1901 1 C8U LIG . N 9 NAG A 1 1902 1901 NAG NAG . O 10 CA A 1 1903 1902 CA CA . P 10 CA A 1 1904 1903 CA CA . Q 11 ETA F 1 1101 1075 ETA ETA . R 9 NAG F 1 1104 1203 NAG NAG . S 9 NAG F 1 1107 1206 NAG NAG . T 9 NAG F 1 1114 1213 NAG NAG . U 9 NAG F 1 1115 1214 NAG NAG . V 9 NAG F 1 1120 1219 NAG NAG . W 9 NAG F 1 1121 1220 NAG NAG . X 9 NAG F 1 1122 1221 NAG NAG . # 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 C C13 C8U . . . M 8 163.24 189.047 173.475 1 20 ? C13 C8U 1901 A 1 HETATM 2 C C15 C8U . . . M 8 161.403 189.33 171.972 1 20 ? C15 C8U 1901 A 1 HETATM 3 C C17 C8U . . . M 8 163.002 191.092 172.253 1 20 ? C17 C8U 1901 A 1 HETATM 4 C C22 C8U . . . M 8 164.549 192.184 176.074 1 20 ? C22 C8U 1901 A 1 HETATM 5 C C01 C8U . . . M 8 165.147 189.71 177.705 1 20 ? C01 C8U 1901 A 1 HETATM 6 C C02 C8U . . . M 8 165.112 189.618 176.183 1 20 ? C02 C8U 1901 A 1 HETATM 7 C C03 C8U . . . M 8 164.898 190.883 175.366 1 20 ? C03 C8U 1901 A 1 HETATM 8 C C04 C8U . . . M 8 164.971 190.819 173.843 1 20 ? C04 C8U 1901 A 1 HETATM 9 C C05 C8U . . . M 8 165.991 189.794 173.355 1 20 ? C05 C8U 1901 A 1 HETATM 10 C C06 C8U . . . M 8 166.317 188.596 174.239 1 20 ? C06 C8U 1901 A 1 HETATM 11 N N07 C8U . . . M 8 165.675 188.46 175.526 1 20 ? N07 C8U 1901 A 1 HETATM 12 C C08 C8U . . . M 8 167.091 187.418 173.655 1 20 ? C08 C8U 1901 A 1 HETATM 13 N N09 C8U . . . M 8 166.874 190.13 172.255 1 20 ? N09 C8U 1901 A 1 HETATM 14 O O10 C8U . . . M 8 166.776 189.572 171.231 1 20 ? O10 C8U 1901 A 1 HETATM 15 O O11 C8U . . . M 8 167.847 191.124 172.41 1 20 ? O11 C8U 1901 A 1 HETATM 16 C C12 C8U . . . M 8 163.703 190.314 173.165 1 20 ? C12 C8U 1901 A 1 HETATM 17 C C14 C8U . . . M 8 162.095 188.555 172.879 1 20 ? C14 C8U 1901 A 1 HETATM 18 C C16 C8U . . . M 8 161.856 190.593 171.659 1 20 ? C16 C8U 1901 A 1 HETATM 19 C C18 C8U . . . M 8 163.449 192.495 171.858 1 20 ? C18 C8U 1901 A 1 HETATM 20 F F19 C8U . . . M 8 162.345 193.221 171.569 1 20 ? F19 C8U 1901 A 1 HETATM 21 F F20 C8U . . . M 8 164.222 192.419 170.746 1 20 ? F20 C8U 1901 A 1 HETATM 22 F F21 C8U . . . M 8 164.125 193.132 172.848 1 20 ? F21 C8U 1901 A 1 HETATM 23 O O23 C8U . . . M 8 165.158 192.521 177.025 1 20 ? O23 C8U 1901 A 1 HETATM 24 O O24 C8U . . . M 8 163.506 192.98 175.605 1 20 ? O24 C8U 1901 A 1 HETATM 25 C C25 C8U . . . M 8 163.745 194.349 175.737 1 20 ? C25 C8U 1901 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 47 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 25 #