data_6GRA # _model_server_result.job_id BIe_ysyR3zf-kJ5hPRXMuQ _model_server_result.datetime_utc '2024-12-19 03:24:04' _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 6gra # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 6GRA # _exptl.entry_id 6GRA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 590.667 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-[(2~{R},3~{S})-2-[[1,3-benzodioxol-5-ylmethyl(methyl)amino]methyl]-3-methyl-6-oxidanylidene-5-[(2~{S})-1-oxidanylpropan-2-yl]-3,4-dihydro-2~{H}-1,5-benzoxazocin-8-yl]-3-(4-methoxyphenyl)urea _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 120 _cell.entry_id 6GRA _cell.length_a 83.169 _cell.length_b 83.169 _cell.length_c 171.852 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GRA _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 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 _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 # _chem_comp.formula 'C32 H38 N4 O7' _chem_comp.formula_weight 590.667 _chem_comp.id F8Z _chem_comp.mon_nstd_flag . _chem_comp.name 1-[(2~{R},3~{S})-2-[[1,3-benzodioxol-5-ylmethyl(methyl)amino]methyl]-3-methyl-6-oxidanylidene-5-[(2~{S})-1-oxidanylpropan-2-yl]-3,4-dihydro-2~{H}-1,5-benzoxazocin-8-yl]-3-(4-methoxyphenyl)urea _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 CBB CBA F8Z doub 83 n y CBB CBC F8Z sing 84 n y OBF CBA F8Z sing 85 n n OBF CBE F8Z sing 86 n n CBA CAZ F8Z sing 87 n y CBC CAR F8Z doub 88 n y CBE OBD F8Z sing 89 n n CAZ OBD F8Z sing 90 n n CAZ CAY F8Z doub 91 n y CAR CAY F8Z sing 92 n y CAR CAQ F8Z sing 93 n n CAQ NAO F8Z sing 94 n n NAO CAM F8Z sing 95 n n NAO CAP F8Z sing 96 n n CAM CAG F8Z sing 97 n n CAN CAF F8Z sing 98 n n OAH CAG F8Z sing 99 n n OAH CAA F8Z sing 100 n n CAG CAF F8Z sing 101 n n CAF CAE F8Z sing 102 n n CAI CAA F8Z doub 103 n y CAI CAJ F8Z sing 104 n y CAA CAB F8Z sing 105 n y CAJ CAK F8Z doub 106 n y CAE NAD F8Z sing 107 n n CAB CAC F8Z sing 108 n n CAB CAL F8Z doub 109 n y CAV CAU F8Z sing 110 n n NAD CAC F8Z sing 111 n n NAD CAU F8Z sing 112 n n CAK CAL F8Z sing 113 n y CAK NAS F8Z sing 114 n n CAC OAT F8Z doub 115 n n CAU CAW F8Z sing 116 n n NAS CBG F8Z sing 117 n n CAW OAX F8Z sing 118 n n CBG OBI F8Z doub 119 n n CBG NBH F8Z sing 120 n n NBH CBJ F8Z sing 121 n n CBJ CBK F8Z doub 122 n y CBJ CBO F8Z sing 123 n y CBK CBL F8Z sing 124 n y CBO CBN F8Z doub 125 n y CBL CBM F8Z doub 126 n y CBN CBM F8Z sing 127 n y CBM OBP F8Z sing 128 n n OBP CBQ F8Z sing 129 n n CBQ H1 F8Z sing 130 n n CBQ H2 F8Z sing 131 n n CBQ H3 F8Z sing 132 n n CBN H4 F8Z sing 133 n n CBO H5 F8Z sing 134 n n CBL H6 F8Z sing 135 n n CBK H7 F8Z sing 136 n n NBH H8 F8Z sing 137 n n NAS H9 F8Z sing 138 n n CAL H10 F8Z sing 139 n n CAJ H11 F8Z sing 140 n n CAI H12 F8Z sing 141 n n CAU H13 F8Z sing 142 n n CAV H14 F8Z sing 143 n n CAV H15 F8Z sing 144 n n CAV H16 F8Z sing 145 n n CAW H17 F8Z sing 146 n n CAW H18 F8Z sing 147 n n OAX H19 F8Z sing 148 n n CAE H20 F8Z sing 149 n n CAE H21 F8Z sing 150 n n CAF H22 F8Z sing 151 n n CAN H23 F8Z sing 152 n n CAN H24 F8Z sing 153 n n CAN H25 F8Z sing 154 n n CAG H26 F8Z sing 155 n n CAM H27 F8Z sing 156 n n CAM H28 F8Z sing 157 n n CAP H30 F8Z sing 158 n n CAP H31 F8Z sing 159 n n CAP H32 F8Z sing 160 n n CAQ H33 F8Z sing 161 n n CAQ H34 F8Z sing 162 n n CAY H35 F8Z sing 163 n n CBE H36 F8Z sing 164 n n CBE H37 F8Z sing 165 n n CBB H38 F8Z sing 166 n n CBC H39 F8Z sing 167 n n # _atom_sites.entry_id 6GRA _atom_sites.fract_transf_matrix[1][1] 0.012024 _atom_sites.fract_transf_matrix[1][2] 0.006942 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013884 _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] 0.005819 _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 F8Z A 1 501 1 F8Z DRG . C 3 HOH A 1 601 2 HOH HOH . C 3 HOH A 2 602 1 HOH HOH . C 3 HOH A 3 603 3 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 C CBQ F8Z . . . B 2 -14.468 18.344 -9.996 1 95.77 ? CBQ F8Z 501 A 1 HETATM 2 O OBP F8Z . . . B 2 -14.489 19.054 -11.234 1 94.33 ? OBP F8Z 501 A 1 HETATM 3 C CBM F8Z . . . B 2 -13.833 20.252 -11.284 1 88.21 ? CBM F8Z 501 A 1 HETATM 4 C CBN F8Z . . . B 2 -14.429 21.407 -11.777 1 86.7 ? CBN F8Z 501 A 1 HETATM 5 C CBO F8Z . . . B 2 -13.727 22.598 -11.79 1 85.23 ? CBO F8Z 501 A 1 HETATM 6 C CBL F8Z . . . B 2 -12.536 20.298 -10.797 1 84.99 ? CBL F8Z 501 A 1 HETATM 7 C CBK F8Z . . . B 2 -11.835 21.484 -10.809 1 83.53 ? CBK F8Z 501 A 1 HETATM 8 C CBJ F8Z . . . B 2 -12.417 22.64 -11.324 1 83.54 ? CBJ F8Z 501 A 1 HETATM 9 N NBH F8Z . . . B 2 -11.654 23.814 -11.266 1 85.67 ? NBH F8Z 501 A 1 HETATM 10 C CBG F8Z . . . B 2 -10.912 24.205 -10.179 1 82.31 ? CBG F8Z 501 A 1 HETATM 11 O OBI F8Z . . . B 2 -10.662 23.475 -9.225 1 75.74 ? OBI F8Z 501 A 1 HETATM 12 N NAS F8Z . . . B 2 -10.52 25.517 -10.253 1 81.03 ? NAS F8Z 501 A 1 HETATM 13 C CAK F8Z . . . B 2 -10.026 26.304 -9.196 1 75.59 ? CAK F8Z 501 A 1 HETATM 14 C CAL F8Z . . . B 2 -10.388 26.071 -7.866 1 68.61 ? CAL F8Z 501 A 1 HETATM 15 C CAJ F8Z . . . B 2 -9.172 27.357 -9.512 1 74.96 ? CAJ F8Z 501 A 1 HETATM 16 C CAI F8Z . . . B 2 -8.674 28.161 -8.524 1 70.97 ? CAI F8Z 501 A 1 HETATM 17 C CAA F8Z . . . B 2 -9.022 27.944 -7.203 1 68.63 ? CAA F8Z 501 A 1 HETATM 18 O OAH F8Z . . . B 2 -8.465 28.802 -6.299 1 67.43 ? OAH F8Z 501 A 1 HETATM 19 C CAB F8Z . . . B 2 -9.898 26.885 -6.853 1 67.96 ? CAB F8Z 501 A 1 HETATM 20 C CAC F8Z . . . B 2 -10.365 26.47 -5.487 1 62.75 ? CAC F8Z 501 A 1 HETATM 21 O OAT F8Z . . . B 2 -10.058 25.353 -5.085 1 64 ? OAT F8Z 501 A 1 HETATM 22 N NAD F8Z . . . B 2 -11.086 27.344 -4.745 1 63.33 ? NAD F8Z 501 A 1 HETATM 23 C CAU F8Z . . . B 2 -11.565 27.044 -3.383 1 69.47 ? CAU F8Z 501 A 1 HETATM 24 C CAV F8Z . . . B 2 -11.123 28.074 -2.363 1 71.85 ? CAV F8Z 501 A 1 HETATM 25 C CAW F8Z . . . B 2 -12.977 26.631 -3.277 1 72.66 ? CAW F8Z 501 A 1 HETATM 26 O OAX F8Z . . . B 2 -13.554 26.395 -4.559 1 79.81 ? OAX F8Z 501 A 1 HETATM 27 C CAE F8Z . . . B 2 -11.351 28.69 -5.285 1 63.41 ? CAE F8Z 501 A 1 HETATM 28 C CAF F8Z . . . B 2 -10.264 29.704 -4.923 1 64.44 ? CAF F8Z 501 A 1 HETATM 29 C CAN F8Z . . . B 2 -10.304 30.924 -5.843 1 64.35 ? CAN F8Z 501 A 1 HETATM 30 C CAG F8Z . . . B 2 -8.858 29.046 -4.92 1 65.23 ? CAG F8Z 501 A 1 HETATM 31 C CAM F8Z . . . B 2 -7.778 29.963 -4.367 1 64.31 ? CAM F8Z 501 A 1 HETATM 32 N NAO F8Z . . . B 2 -6.621 29.264 -3.804 1 61.4 ? NAO F8Z 501 A 1 HETATM 33 C CAP F8Z . . . B 2 -6.78 27.911 -3.28 1 62.72 ? CAP F8Z 501 A 1 HETATM 34 C CAQ F8Z . . . B 2 -5.228 29.657 -4.033 1 67.77 ? CAQ F8Z 501 A 1 HETATM 35 C CAR F8Z . . . B 2 -5.001 30.425 -5.301 1 64.79 ? CAR F8Z 501 A 1 HETATM 36 C CAY F8Z . . . B 2 -5.289 29.89 -6.561 1 67.24 ? CAY F8Z 501 A 1 HETATM 37 C CAZ F8Z . . . B 2 -4.983 30.653 -7.655 1 70.43 ? CAZ F8Z 501 A 1 HETATM 38 O OBD F8Z . . . B 2 -5.193 30.349 -8.982 1 69.06 ? OBD F8Z 501 A 1 HETATM 39 C CBE F8Z . . . B 2 -4.687 31.462 -9.721 1 68.12 ? CBE F8Z 501 A 1 HETATM 40 O OBF F8Z . . . B 2 -4.186 32.43 -8.794 1 72.29 ? OBF F8Z 501 A 1 HETATM 41 C CBA F8Z . . . B 2 -4.389 31.891 -7.545 1 70.61 ? CBA F8Z 501 A 1 HETATM 42 C CBB F8Z . . . B 2 -4.079 32.424 -6.331 1 65.64 ? CBB F8Z 501 A 1 HETATM 43 C CBC F8Z . . . B 2 -4.378 31.665 -5.206 1 64.73 ? CBC F8Z 501 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 413 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #