data_6GPS # _model_server_result.job_id dlQJxopiloeQU-TZrHC-dA _model_server_result.datetime_utc '2024-11-27 20:26:41' _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 6gps # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1102}' # _entry.id 6GPS # _exptl.entry_id 6GPS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 470.548 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(3~{S},4~{S})-3-methoxyoxan-4-yl]-[(1~{R},3~{S})-3-propan-2-yl-3-[[3-(trifluoromethyl)-7,8-dihydro-5~{H}-1,6-naphthyridin-6-yl]carbonyl]cyclopentyl]azanium' _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 97.66 _cell.angle_gamma 90 _cell.entry_id 6GPS _cell.length_a 38.5 _cell.length_b 61.2 _cell.length_c 123.57 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GPS _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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 _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 3 _struct_asym.id C _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 disulf ? disulf1 A SG CYS 112 A CYS 113 1_555 A SG CYS 189 A CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc1 A SG CYS 236 A CYS 1006 1_555 B ZN ZN . A ZN 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.81 ? metalc ? metalc2 A SG CYS 239 A CYS 1009 1_555 B ZN ZN . A ZN 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? metalc ? metalc3 A SG CYS 269 A CYS 1039 1_555 B ZN ZN . A ZN 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.528 ? metalc ? metalc4 A SG CYS 272 A CYS 1042 1_555 B ZN ZN . A ZN 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? # _chem_comp.formula 'C24 H35 F3 N3 O3 1' _chem_comp.formula_weight 470.548 _chem_comp.id F7N _chem_comp.mon_nstd_flag . _chem_comp.name '[(3~{S},4~{S})-3-methoxyoxan-4-yl]-[(1~{R},3~{S})-3-propan-2-yl-3-[[3-(trifluoromethyl)-7,8-dihydro-5~{H}-1,6-naphthyridin-6-yl]carbonyl]cyclopentyl]azanium' _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 C2 O3 F7N sing 83 n n C2 C1 F7N sing 84 n n C4 O3 F7N sing 85 n n C4 C5 F7N sing 86 n n C1 C6 F7N sing 87 n n C1 O7 F7N sing 88 n n C6 C5 F7N sing 89 n n C6 N33 F7N sing 90 n n C19 C20 F7N sing 91 n n C19 C23 F7N sing 92 n n C20 C21 F7N sing 93 n n O28 C24 F7N doub 94 n n N33 C23 F7N sing 95 n n O7 C8 F7N sing 96 n n C23 C22 F7N sing 97 n n C24 C21 F7N sing 98 n n C24 N9 F7N sing 99 n n C21 C22 F7N sing 100 n n C21 C25 F7N sing 101 n n C12 N9 F7N sing 102 n n C12 C13 F7N sing 103 n n C27 C25 F7N sing 104 n n N9 C10 F7N sing 105 n n C25 C26 F7N sing 106 n n C18 C13 F7N doub 107 n y C18 C17 F7N sing 108 n y F30 C29 F7N sing 109 n n C13 C14 F7N sing 110 n y F31 C29 F7N sing 111 n n C10 C11 F7N sing 112 n n C29 C17 F7N sing 113 n n C29 F32 F7N sing 114 n n C17 C16 F7N doub 115 n y C14 C11 F7N sing 116 n n C14 N15 F7N doub 117 n y C16 N15 F7N sing 118 n y C4 H37 F7N sing 119 n n C4 H38 F7N sing 120 n n C5 H39 F7N sing 121 n n C5 H40 F7N sing 122 n n C6 H41 F7N sing 123 n n C8 H42 F7N sing 124 n n C8 H43 F7N sing 125 n n C8 H44 F7N sing 126 n n C10 H45 F7N sing 127 n n C10 H46 F7N sing 128 n n C20 H55 F7N sing 129 n n C20 H56 F7N sing 130 n n C22 H58 F7N sing 131 n n C22 H57 F7N sing 132 n n C26 H62 F7N sing 133 n n C26 H63 F7N sing 134 n n C26 H61 F7N sing 135 n n C1 H34 F7N sing 136 n n C11 H47 F7N sing 137 n n C11 H48 F7N sing 138 n n C12 H49 F7N sing 139 n n C12 H50 F7N sing 140 n n C16 H51 F7N sing 141 n n C18 H52 F7N sing 142 n n C19 H53 F7N sing 143 n n C19 H54 F7N sing 144 n n C2 H36 F7N sing 145 n n C2 H35 F7N sing 146 n n C23 H59 F7N sing 147 n n C25 H60 F7N sing 148 n n C27 H65 F7N sing 149 n n C27 H66 F7N sing 150 n n C27 H64 F7N sing 151 n n N33 H67 F7N sing 152 n n N33 H68 F7N sing 153 n n # _atom_sites.entry_id 6GPS _atom_sites.fract_transf_matrix[1][1] 0.025974 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003493 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01634 _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] 0.008165 _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 ZN A 1 1101 1 ZN ZN . C 3 F7N A 1 1102 1 F7N LIG . # 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 C4 F7N . . . C 3 13.816 -14.543 -15.239 1 96.73 ? C4 F7N 1102 A 1 HETATM 2 C C5 F7N . . . C 3 12.872 -14.032 -14.178 1 96.39 ? C5 F7N 1102 A 1 HETATM 3 C C6 F7N . . . C 3 11.513 -14.709 -14.279 1 96.03 ? C6 F7N 1102 A 1 HETATM 4 C C8 F7N . . . C 3 11.917 -17.939 -12.637 1 95.96 ? C8 F7N 1102 A 1 HETATM 5 C C10 F7N . . . C 3 6.959 -11.925 -10.014 1 100.51 ? C10 F7N 1102 A 1 HETATM 6 C C13 F7N . . . C 3 5.024 -10.015 -10.607 1 101.04 ? C13 F7N 1102 A 1 HETATM 7 C C17 F7N . . . C 3 3.368 -8.469 -9.777 1 102.46 ? C17 F7N 1102 A 1 HETATM 8 C C20 F7N . . . C 3 7.114 -14.925 -13.57 1 96.96 ? C20 F7N 1102 A 1 HETATM 9 C C21 F7N . . . C 3 7.04 -14.178 -12.219 1 97.3 ? C21 F7N 1102 A 1 HETATM 10 C C22 F7N . . . C 3 8.533 -14.151 -11.824 1 97.2 ? C22 F7N 1102 A 1 HETATM 11 C C24 F7N . . . C 3 6.475 -12.752 -12.4 1 98.65 ? C24 F7N 1102 A 1 HETATM 12 C C26 F7N . . . C 3 6.492 -16.389 -10.92 1 96.04 ? C26 F7N 1102 A 1 HETATM 13 C C1 F7N . . . C 3 11.694 -16.222 -14.309 1 96.29 ? C1 F7N 1102 A 1 HETATM 14 C C11 F7N . . . C 3 5.787 -11.874 -9.053 1 101.3 ? C11 F7N 1102 A 1 HETATM 15 C C12 F7N . . . C 3 5.961 -10.488 -11.692 1 99.91 ? C12 F7N 1102 A 1 HETATM 16 C C14 F7N . . . C 3 4.938 -10.668 -9.351 1 101.59 ? C14 F7N 1102 A 1 HETATM 17 C C16 F7N . . . C 3 3.352 -9.171 -8.583 1 102.25 ? C16 F7N 1102 A 1 HETATM 18 C C18 F7N . . . C 3 4.214 -8.903 -10.784 1 101.68 ? C18 F7N 1102 A 1 HETATM 19 C C19 F7N . . . C 3 8.432 -14.46 -14.208 1 96.87 ? C19 F7N 1102 A 1 HETATM 20 C C2 F7N . . . C 3 12.647 -16.599 -15.42 1 96.65 ? C2 F7N 1102 A 1 HETATM 21 C C23 F7N . . . C 3 9.286 -14.779 -12.986 1 96.65 ? C23 F7N 1102 A 1 HETATM 22 C C25 F7N . . . C 3 6.103 -14.927 -11.166 1 96.39 ? C25 F7N 1102 A 1 HETATM 23 C C27 F7N . . . C 3 4.621 -14.863 -11.536 1 96.31 ? C27 F7N 1102 A 1 HETATM 24 C C29 F7N . . . C 3 2.495 -7.272 -9.985 1 103.38 ? C29 F7N 1102 A 1 HETATM 25 F F30 F7N . . . C 3 3.054 -6.357 -10.777 1 102.97 ? F30 F7N 1102 A 1 HETATM 26 F F31 F7N . . . C 3 1.326 -7.58 -10.539 1 103.94 ? F31 F7N 1102 A 1 HETATM 27 F F32 F7N . . . C 3 2.201 -6.641 -8.849 1 103.95 ? F32 F7N 1102 A 1 HETATM 28 N N15 F7N . . . C 3 4.116 -10.254 -8.364 1 101.87 ? N15 F7N 1102 A 1 HETATM 29 N N33 F7N . . . C 3 10.692 -14.259 -13.102 1 95.92 ? N33 F7N 1102 A 1 HETATM 30 N N9 F7N . . . C 3 6.485 -11.834 -11.404 1 99.61 ? N9 F7N 1102 A 1 HETATM 31 O O28 F7N . . . C 3 6.033 -12.439 -13.492 1 98.79 ? O28 F7N 1102 A 1 HETATM 32 O O3 F7N . . . C 3 13.922 -15.972 -15.204 1 97.03 ? O3 F7N 1102 A 1 HETATM 33 O O7 F7N . . . C 3 12.246 -16.62 -13.052 1 96.18 ? O7 F7N 1102 A 1 HETATM 34 H H37 F7N . . . C 3 13.463 -14.313 -16.243 0 96.73 ? H37 F7N 1102 A 1 HETATM 35 H H38 F7N . . . C 3 14.797 -14.078 -15.154 0 96.73 ? H38 F7N 1102 A 1 HETATM 36 H H39 F7N . . . C 3 12.785 -12.951 -14.27 0 96.39 ? H39 F7N 1102 A 1 HETATM 37 H H40 F7N . . . C 3 13.328 -14.199 -13.204 0 96.39 ? H40 F7N 1102 A 1 HETATM 38 H H41 F7N . . . C 3 11.017 -14.399 -15.197 0 96.03 ? H41 F7N 1102 A 1 HETATM 39 H H42 F7N . . . C 3 12.517 -18.295 -11.802 0 95.97 ? H42 F7N 1102 A 1 HETATM 40 H H43 F7N . . . C 3 12.144 -18.57 -13.494 0 95.97 ? H43 F7N 1102 A 1 HETATM 41 H H44 F7N . . . C 3 10.863 -18.031 -12.376 0 95.97 ? H44 F7N 1102 A 1 HETATM 42 H H45 F7N . . . C 3 7.63 -11.087 -9.83 0 100.51 ? H45 F7N 1102 A 1 HETATM 43 H H46 F7N . . . C 3 7.573 -12.791 -9.773 0 100.51 ? H46 F7N 1102 A 1 HETATM 44 H H55 F7N . . . C 3 7.104 -16.007 -13.458 0 96.96 ? H55 F7N 1102 A 1 HETATM 45 H H56 F7N . . . C 3 6.291 -14.737 -14.257 0 96.96 ? H56 F7N 1102 A 1 HETATM 46 H H58 F7N . . . C 3 8.891 -13.145 -11.614 0 97.2 ? H58 F7N 1102 A 1 HETATM 47 H H57 F7N . . . C 3 8.74 -14.672 -10.89 0 97.2 ? H57 F7N 1102 A 1 HETATM 48 H H62 F7N . . . C 3 7.564 -16.572 -10.864 0 96.05 ? H62 F7N 1102 A 1 HETATM 49 H H63 F7N . . . C 3 6.117 -17.04 -11.708 0 96.05 ? H63 F7N 1102 A 1 HETATM 50 H H61 F7N . . . C 3 6.051 -16.772 -10.001 0 96.05 ? H61 F7N 1102 A 1 HETATM 51 H H34 F7N . . . C 3 10.739 -16.711 -14.498 0 96.29 ? H34 F7N 1102 A 1 HETATM 52 H H47 F7N . . . C 3 6.111 -11.834 -8.015 0 101.3 ? H47 F7N 1102 A 1 HETATM 53 H H48 F7N . . . C 3 5.187 -12.78 -9.118 0 101.3 ? H48 F7N 1102 A 1 HETATM 54 H H49 F7N . . . C 3 5.46 -10.334 -12.646 0 99.91 ? H49 F7N 1102 A 1 HETATM 55 H H50 F7N . . . C 3 6.797 -9.791 -11.711 0 99.91 ? H50 F7N 1102 A 1 HETATM 56 H H51 F7N . . . C 3 2.707 -8.91 -7.747 0 102.25 ? H51 F7N 1102 A 1 HETATM 57 H H52 F7N . . . C 3 4.254 -8.376 -11.734 0 101.68 ? H52 F7N 1102 A 1 HETATM 58 H H53 F7N . . . C 3 8.411 -13.408 -14.491 0 96.87 ? H53 F7N 1102 A 1 HETATM 59 H H54 F7N . . . C 3 8.699 -15.017 -15.104 0 96.87 ? H54 F7N 1102 A 1 HETATM 60 H H36 F7N . . . C 3 12.743 -17.679 -15.524 0 96.65 ? H36 F7N 1102 A 1 HETATM 61 H H35 F7N . . . C 3 12.328 -16.237 -16.396 0 96.65 ? H35 F7N 1102 A 1 HETATM 62 H H59 F7N . . . C 3 9.342 -15.854 -12.823 0 96.65 ? H59 F7N 1102 A 1 HETATM 63 H H60 F7N . . . C 3 6.209 -14.494 -10.174 0 96.39 ? H60 F7N 1102 A 1 HETATM 64 H H65 F7N . . . C 3 4.462 -15.038 -12.599 0 96.32 ? H65 F7N 1102 A 1 HETATM 65 H H66 F7N . . . C 3 4.155 -13.905 -11.308 0 96.32 ? H66 F7N 1102 A 1 HETATM 66 H H64 F7N . . . C 3 4.028 -15.613 -11.014 0 96.32 ? H64 F7N 1102 A 1 HETATM 67 H H67 F7N . . . C 3 10.655 -13.245 -13.115 0 95.92 ? H67 F7N 1102 A 1 HETATM 68 H H68 F7N . . . C 3 11.186 -14.511 -12.252 0 95.92 ? H68 F7N 1102 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 68 #