data_3U38 # _model_server_result.job_id 4qZ0brMFa6Hq9Wjkc3o_GA _model_server_result.datetime_utc '2024-10-15 11:23:06' _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 3u38 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":101}' # _entry.id 3U38 # _exptl.entry_id 3U38 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.779 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'Lambda-Ru(phen)2(dppz) complex' _entity.pdbx_number_of_molecules 2 _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 3U38 _cell.length_a 52.56 _cell.length_b 52.56 _cell.length_c 32.43 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3U38 _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C 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 metalc ? metalc1 A N7 DG 3 A DG 3 1_555 D BA BA . A BA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.956 ? metalc ? metalc2 A O6 DG 4 A DG 4 1_555 D BA BA . A BA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.836 ? metalc ? metalc3 D BA BA . A BA 103 1_555 E O HOH . A HOH 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.895 ? metalc ? metalc4 D BA BA . A BA 103 1_555 E O HOH . A HOH 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.841 ? metalc ? metalc5 D BA BA . A BA 103 1_555 E O HOH . A HOH 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.768 ? metalc ? metalc6 D BA BA . A BA 103 1_555 E O HOH . A HOH 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.946 ? metalc ? metalc7 D BA BA . A BA 103 1_555 E O HOH . A HOH 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.717 ? hydrog WATSON-CRICK hydrog1 A N3 DC 2 A DC 2 1_555 A N1 DG 9 A DG 9 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N4 DC 2 A DC 2 1_555 A O6 DG 9 A DG 9 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O2 DC 2 A DC 2 1_555 A N2 DG 9 A DG 9 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DG 3 A DG 3 1_555 A N3 DC 8 A DC 8 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N2 DG 3 A DG 3 1_555 A O2 DC 8 A DC 8 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O6 DG 3 A DG 3 1_555 A N4 DC 8 A DC 8 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N1 DG 4 A DG 4 1_555 A N3 DC 7 A DC 7 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N2 DG 4 A DG 4 1_555 A O2 DC 7 A DC 7 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A O6 DG 4 A DG 4 1_555 A N4 DC 7 A DC 7 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N3 DT 5 A DT 5 1_555 A N1 DA 6 A DA 6 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A O4 DT 5 A DT 5 1_555 A N6 DA 6 A DA 6 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N1 DA 6 A DA 6 1_555 A N3 DT 5 A DT 5 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N6 DA 6 A DA 6 1_555 A O4 DT 5 A DT 5 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N3 DC 7 A DC 7 1_555 A N1 DG 4 A DG 4 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N4 DC 7 A DC 7 1_555 A O6 DG 4 A DG 4 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A O2 DC 7 A DC 7 1_555 A N2 DG 4 A DG 4 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N3 DC 8 A DC 8 1_555 A N1 DG 3 A DG 3 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N4 DC 8 A DC 8 1_555 A O6 DG 3 A DG 3 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O2 DC 8 A DC 8 1_555 A N2 DG 3 A DG 3 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N1 DG 9 A DG 9 1_555 A N3 DC 2 A DC 2 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A N2 DG 9 A DG 9 1_555 A O2 DC 2 A DC 2 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A O6 DG 9 A DG 9 1_555 A N4 DC 2 A DC 2 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C42 H26 N8 Ru' _chem_comp.formula_weight 743.779 _chem_comp.id RKP _chem_comp.mon_nstd_flag . _chem_comp.name 'Lambda-Ru(phen)2(dppz) complex' _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 C1 N2 RKP sing 152 n y C1 C5 RKP doub 153 n y C1 C10 RKP sing 154 n y N1 C10 RKP sing 155 n y N1 C12 RKP doub 156 n y C2 N2 RKP doub 157 n y C2 C3 RKP sing 158 n y C3 C4 RKP doub 159 n y N3 C6 RKP sing 160 n y N3 C15 RKP doub 161 n y C4 C5 RKP sing 162 n y N4 C7 RKP sing 163 n y N4 C13 RKP doub 164 n y C5 C6 RKP sing 165 n y N5 C19 RKP sing 166 n y N5 C20 RKP doub 167 n y C6 C7 RKP doub 168 n y C7 C8 RKP sing 169 n y C8 C9 RKP sing 170 n y C8 C10 RKP doub 171 n y N8 C26 RKP sing 172 n y N8 C28 RKP doub 173 n y C9 C11 RKP doub 174 n y N9 C29 RKP sing 175 n y N9 C30 RKP doub 176 n y C11 C12 RKP sing 177 n y N12 C36 RKP sing 178 n y N12 C38 RKP doub 179 n y C13 C14 RKP sing 180 n y C13 C15 RKP sing 181 n y C14 C18 RKP doub 182 n y C15 C16 RKP sing 183 n y C16 C17 RKP doub 184 n y C17 C18 RKP sing 185 n y C19 C22 RKP doub 186 n y C19 C26 RKP sing 187 n y C20 C21 RKP sing 188 n y C21 C41 RKP doub 189 n y C22 C23 RKP sing 190 n y C22 C41 RKP sing 191 n y C23 C24 RKP doub 192 n y C24 C25 RKP sing 193 n y C25 C26 RKP doub 194 n y C25 C42 RKP sing 195 n y C27 C28 RKP sing 196 n y C27 C42 RKP doub 197 n y C29 C32 RKP doub 198 n y C29 C36 RKP sing 199 n y C30 C31 RKP sing 200 n y C31 C43 RKP doub 201 n y C32 C33 RKP sing 202 n y C32 C43 RKP sing 203 n y C33 C34 RKP doub 204 n y C34 C35 RKP sing 205 n y C35 C36 RKP doub 206 n y C35 C44 RKP sing 207 n y C37 C38 RKP sing 208 n y C37 C44 RKP doub 209 n y C2 H2 RKP sing 210 n n C3 H3 RKP sing 211 n n C4 H4 RKP sing 212 n n C9 H9 RKP sing 213 n n C11 H11 RKP sing 214 n n C12 H12 RKP sing 215 n n C14 H14 RKP sing 216 n n C16 H16 RKP sing 217 n n C17 H17 RKP sing 218 n n C18 H18 RKP sing 219 n n C20 H20 RKP sing 220 n n C21 H21 RKP sing 221 n n C23 H23 RKP sing 222 n n C24 H24 RKP sing 223 n n C27 H27 RKP sing 224 n n C28 H28 RKP sing 225 n n C30 H30 RKP sing 226 n n C31 H31 RKP sing 227 n n C33 H33 RKP sing 228 n n C34 H34 RKP sing 229 n n C37 H37 RKP sing 230 n n C38 H38 RKP sing 231 n n C41 H41 RKP sing 232 n n C42 H42 RKP sing 233 n n C43 H43 RKP sing 234 n n C44 H44 RKP sing 235 n n RU N1 RKP sing 236 n n RU N2 RKP sing 237 n n RU N5 RKP sing 238 n n RU N8 RKP sing 239 n n RU N9 RKP sing 240 n n RU N12 RKP sing 241 n n # _atom_sites.entry_id 3U38 _atom_sites.fract_transf_matrix[1][1] 0.019026 _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] 0.019026 _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] 0.030836 _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 RKP A 1 101 14 RKP RKP . C 2 RKP A 1 102 13 RKP RKP . D 3 BA A 1 103 11 BA BA . E 4 HOH A 1 201 12 HOH HOH . E 4 HOH A 2 202 15 HOH HOH . E 4 HOH A 3 203 16 HOH HOH . E 4 HOH A 4 204 17 HOH HOH . E 4 HOH A 5 205 18 HOH HOH . E 4 HOH A 6 206 19 HOH HOH . E 4 HOH A 7 207 20 HOH HOH . E 4 HOH A 8 208 21 HOH HOH . E 4 HOH A 9 209 22 HOH HOH . E 4 HOH A 10 210 23 HOH HOH . E 4 HOH A 11 211 24 HOH HOH . E 4 HOH A 12 212 25 HOH HOH . E 4 HOH A 13 213 26 HOH HOH . E 4 HOH A 14 214 27 HOH HOH . E 4 HOH A 15 215 28 HOH HOH . E 4 HOH A 16 216 32 HOH HOH . E 4 HOH A 17 217 35 HOH HOH . E 4 HOH A 18 218 37 HOH HOH . E 4 HOH A 19 219 38 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 RU RU RKP . . . B 2 27.987 8.137 9.976 1 36.12 ? RU RKP 101 A 1 HETATM 2 C C1 RKP . . . B 2 25.569 8.331 11.473 1 31.28 ? C1 RKP 101 A 1 HETATM 3 N N1 RKP . . . B 2 27.066 6.794 10.981 1 33.66 ? N1 RKP 101 A 1 HETATM 4 C C2 RKP . . . B 2 25.904 10.282 10.383 1 32.11 ? C2 RKP 101 A 1 HETATM 5 N N2 RKP . . . B 2 26.344 9.042 10.595 1 30.3 ? N2 RKP 101 A 1 HETATM 6 C C3 RKP . . . B 2 24.781 10.783 11.015 1 31.42 ? C3 RKP 101 A 1 HETATM 7 N N3 RKP . . . B 2 22.668 8.35 13.633 1 36.62 ? N3 RKP 101 A 1 HETATM 8 C C4 RKP . . . B 2 24.041 10.012 11.886 1 30.33 ? C4 RKP 101 A 1 HETATM 9 N N4 RKP . . . B 2 23.586 5.799 14.056 1 35.71 ? N4 RKP 101 A 1 HETATM 10 C C5 RKP . . . B 2 24.463 8.755 12.131 1 30.57 ? C5 RKP 101 A 1 HETATM 11 N N5 RKP . . . B 2 28.868 8.578 11.631 1 38.24 ? N5 RKP 101 A 1 HETATM 12 C C6 RKP . . . B 2 23.767 7.917 12.994 1 34.21 ? C6 RKP 101 A 1 HETATM 13 C C7 RKP . . . B 2 24.219 6.631 13.216 1 34.18 ? C7 RKP 101 A 1 HETATM 14 C C8 RKP . . . B 2 25.347 6.2 12.549 1 31.63 ? C8 RKP 101 A 1 HETATM 15 N N8 RKP . . . B 2 29.588 7.181 9.73 1 36.37 ? N8 RKP 101 A 1 HETATM 16 C C9 RKP . . . B 2 25.799 4.926 12.699 1 32.2 ? C9 RKP 101 A 1 HETATM 17 N N9 RKP . . . B 2 27.159 7.681 8.244 1 34.38 ? N9 RKP 101 A 1 HETATM 18 C C10 RKP . . . B 2 25.985 7.074 11.696 1 33.99 ? C10 RKP 101 A 1 HETATM 19 C C11 RKP . . . B 2 26.95 4.605 12.012 1 32.82 ? C11 RKP 101 A 1 HETATM 20 C C12 RKP . . . B 2 27.56 5.547 11.172 1 36.79 ? C12 RKP 101 A 1 HETATM 21 N N12 RKP . . . B 2 28.57 9.621 9.01 1 37.13 ? N12 RKP 101 A 1 HETATM 22 C C13 RKP . . . B 2 22.499 6.218 14.706 1 38.54 ? C13 RKP 101 A 1 HETATM 23 C C14 RKP . . . B 2 21.842 5.343 15.592 1 41.66 ? C14 RKP 101 A 1 HETATM 24 C C15 RKP . . . B 2 22.039 7.528 14.507 1 37.42 ? C15 RKP 101 A 1 HETATM 25 C C16 RKP . . . B 2 20.901 7.987 15.192 1 39.2 ? C16 RKP 101 A 1 HETATM 26 C C17 RKP . . . B 2 20.201 7.126 16.045 1 41.1 ? C17 RKP 101 A 1 HETATM 27 C C18 RKP . . . B 2 20.685 5.811 16.253 1 41.16 ? C18 RKP 101 A 1 HETATM 28 C C19 RKP . . . B 2 30.155 8.091 11.726 1 34.36 ? C19 RKP 101 A 1 HETATM 29 C C20 RKP . . . B 2 28.54 9.381 12.635 1 35.65 ? C20 RKP 101 A 1 HETATM 30 C C21 RKP . . . B 2 29.4 9.581 13.678 1 34.02 ? C21 RKP 101 A 1 HETATM 31 C C22 RKP . . . B 2 31.062 8.231 12.774 1 34.34 ? C22 RKP 101 A 1 HETATM 32 C C23 RKP . . . B 2 32.341 7.645 12.796 1 30.18 ? C23 RKP 101 A 1 HETATM 33 C C24 RKP . . . B 2 32.695 6.831 11.709 1 33.2 ? C24 RKP 101 A 1 HETATM 34 C C25 RKP . . . B 2 31.77 6.648 10.655 1 33.72 ? C25 RKP 101 A 1 HETATM 35 C C26 RKP . . . B 2 30.534 7.285 10.671 1 36.32 ? C26 RKP 101 A 1 HETATM 36 C C27 RKP . . . B 2 31.123 5.739 8.579 1 34.8 ? C27 RKP 101 A 1 HETATM 37 C C28 RKP . . . B 2 29.9 6.419 8.658 1 40.61 ? C28 RKP 101 A 1 HETATM 38 C C29 RKP . . . B 2 27.634 8.495 7.259 1 36.7 ? C29 RKP 101 A 1 HETATM 39 C C30 RKP . . . B 2 26.468 6.618 7.808 1 36.26 ? C30 RKP 101 A 1 HETATM 40 C C31 RKP . . . B 2 26.147 6.47 6.455 1 33.19 ? C31 RKP 101 A 1 HETATM 41 C C32 RKP . . . B 2 27.325 8.426 5.903 1 33.99 ? C32 RKP 101 A 1 HETATM 42 C C33 RKP . . . B 2 27.772 9.396 5.006 1 35.96 ? C33 RKP 101 A 1 HETATM 43 C C34 RKP . . . B 2 28.541 10.47 5.435 1 38.09 ? C34 RKP 101 A 1 HETATM 44 C C35 RKP . . . B 2 28.855 10.545 6.825 1 37.93 ? C35 RKP 101 A 1 HETATM 45 C C36 RKP . . . B 2 28.398 9.565 7.696 1 37.8 ? C36 RKP 101 A 1 HETATM 46 C C37 RKP . . . B 2 29.824 11.59 8.693 1 32.22 ? C37 RKP 101 A 1 HETATM 47 C C38 RKP . . . B 2 29.361 10.577 9.52 1 37.48 ? C38 RKP 101 A 1 HETATM 48 C C41 RKP . . . B 2 30.671 9.028 13.783 1 33.14 ? C41 RKP 101 A 1 HETATM 49 C C42 RKP . . . B 2 32.077 5.845 9.562 1 39.02 ? C42 RKP 101 A 1 HETATM 50 C C43 RKP . . . B 2 26.525 7.385 5.47 1 35.08 ? C43 RKP 101 A 1 HETATM 51 C C44 RKP . . . B 2 29.585 11.591 7.338 1 33.84 ? C44 RKP 101 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 51 #