data_165D # _model_server_result.job_id RRXDHmvgHaepO8om7_uP2Q _model_server_result.datetime_utc '2025-01-30 00:39:46' _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 165d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":22}' # _entry.id 165D # _exptl.entry_id 165D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 205.089 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'RHODIUM HEXAMINE ION' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 109.9 _cell.angle_gamma 90 _cell.entry_id 165D _cell.length_a 53.8 _cell.length_b 19.4 _cell.length_c 50.14 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 165D _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F 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 covale ? covale1 A O3' C 8 A C 8 1_555 A P BRU 9 A BRU 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.584 ? covale ? covale2 B O3' C 8 B C 17 1_555 B P BRU 9 B BRU 18 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.617 ? covale ? covale3 B O3' C 8 B C 17 1_555 B P BRU 9 B BRU 18 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.632 ? hydrog WATSON-CRICK hydrog1 A N1 G 1 A G 1 1_555 B N3 C 8 B C 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 G 1 A G 1 1_555 B O2 C 8 B C 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 G 1 A G 1 1_555 B N4 C 8 B C 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N3 C 2 A C 2 1_555 B N1 G 7 B G 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N4 C 2 A C 2 1_555 B O6 G 7 B G 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O2 C 2 A C 2 1_555 B N2 G 7 B G 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog7 A N3 U 3 A U 3 1_555 B O6 G 6 B G 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog8 A O2 U 3 A U 3 1_555 B N1 G 6 B G 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'U-C MISPAIR' hydrog9 A O4 U 4 A U 4 1_555 B N4 C 5 B C 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'C-U MISPAIR' hydrog10 A N4 C 5 A C 5 1_555 B O4 U 4 B U 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog11 A N1 G 6 A G 6 1_555 B O2 U 3 B U 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog12 A O6 G 6 A G 6 1_555 B N3 U 3 B U 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 G 7 A G 7 1_555 B N3 C 2 B C 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N2 G 7 A G 7 1_555 B O2 C 2 B C 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A O6 G 7 A G 7 1_555 B N4 C 2 B C 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N3 C 8 A C 8 1_555 B N1 G 1 B G 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N4 C 8 A C 8 1_555 B O6 G 1 B G 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A O2 C 8 A C 8 1_555 B N2 G 1 B G 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'H18 N6 Rh 3' _chem_comp.formula_weight 205.089 _chem_comp.id RHD _chem_comp.mon_nstd_flag . _chem_comp.name 'RHODIUM HEXAMINE ION' _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 RH N1 RHD sing 113 n n RH N2 RHD sing 114 n n RH N3 RHD sing 115 n n RH N4 RHD sing 116 n n RH N5 RHD sing 117 n n RH N6 RHD sing 118 n n N1 HN11 RHD sing 119 n n N1 HN12 RHD sing 120 n n N1 HN13 RHD sing 121 n n N2 HN21 RHD sing 122 n n N2 HN22 RHD sing 123 n n N2 HN23 RHD sing 124 n n N3 HN31 RHD sing 125 n n N3 HN32 RHD sing 126 n n N3 HN33 RHD sing 127 n n N4 HN41 RHD sing 128 n n N4 HN42 RHD sing 129 n n N4 HN43 RHD sing 130 n n N5 HN51 RHD sing 131 n n N5 HN52 RHD sing 132 n n N5 HN53 RHD sing 133 n n N6 HN61 RHD sing 134 n n N6 HN62 RHD sing 135 n n N6 HN63 RHD sing 136 n n # _atom_sites.entry_id 165D _atom_sites.fract_transf_matrix[1][1] 0.018587 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006729 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.051546 _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] 0.021211 _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 C 2 RHD A 1 19 19 RHD RHD . D 2 RHD A 1 20 20 RHD RHD . E 2 RHD A 1 22 22 RHD RHD . F 2 RHD B 1 21 21 RHD RHD . G 3 HOH A 1 23 23 HOH HOH . G 3 HOH A 2 25 25 HOH HOH . G 3 HOH A 3 26 26 HOH HOH . G 3 HOH A 4 27 27 HOH HOH . G 3 HOH A 5 28 28 HOH HOH . G 3 HOH A 6 29 29 HOH HOH . G 3 HOH A 7 30 30 HOH HOH . G 3 HOH A 8 31 31 HOH HOH . G 3 HOH A 9 33 33 HOH HOH . G 3 HOH A 10 35 35 HOH HOH . G 3 HOH A 11 36 36 HOH HOH . G 3 HOH A 12 37 37 HOH HOH . G 3 HOH A 13 38 38 HOH HOH . G 3 HOH A 14 41 41 HOH HOH . G 3 HOH A 15 43 43 HOH HOH . G 3 HOH A 16 47 47 HOH HOH . G 3 HOH A 17 48 48 HOH HOH . G 3 HOH A 18 51 51 HOH HOH . G 3 HOH A 19 53 53 HOH HOH . G 3 HOH A 20 54 54 HOH HOH . G 3 HOH A 21 56 56 HOH HOH . G 3 HOH A 22 57 57 HOH HOH . G 3 HOH A 23 59 59 HOH HOH . G 3 HOH A 24 60 60 HOH HOH . G 3 HOH A 25 61 61 HOH HOH . G 3 HOH A 26 63 63 HOH HOH . G 3 HOH A 27 64 64 HOH HOH . G 3 HOH A 28 65 65 HOH HOH . G 3 HOH A 29 66 66 HOH HOH . G 3 HOH A 30 73 73 HOH HOH . G 3 HOH A 31 74 74 HOH HOH . H 3 HOH B 1 24 24 HOH HOH . H 3 HOH B 2 32 32 HOH HOH . H 3 HOH B 3 34 34 HOH HOH . H 3 HOH B 4 39 39 HOH HOH . H 3 HOH B 5 40 40 HOH HOH . H 3 HOH B 6 42 42 HOH HOH . H 3 HOH B 7 44 44 HOH HOH . H 3 HOH B 8 45 45 HOH HOH . H 3 HOH B 9 46 46 HOH HOH . H 3 HOH B 10 49 49 HOH HOH . H 3 HOH B 11 50 50 HOH HOH . H 3 HOH B 12 52 52 HOH HOH . H 3 HOH B 13 55 55 HOH HOH . H 3 HOH B 14 58 58 HOH HOH . H 3 HOH B 15 62 62 HOH HOH . H 3 HOH B 16 67 67 HOH HOH . H 3 HOH B 17 68 68 HOH HOH . H 3 HOH B 18 69 69 HOH HOH . H 3 HOH B 19 70 70 HOH HOH . H 3 HOH B 20 71 71 HOH HOH . H 3 HOH B 21 72 72 HOH HOH . H 3 HOH B 22 75 75 HOH HOH . H 3 HOH B 23 76 76 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 RH RH RHD . . . E 2 -6.7 12.013 36.949 0.3 14.62 ? RH RHD 22 A 1 HETATM 2 N N1 RHD . . . E 2 -5.506 13.363 35.871 0.3 14.61 ? N1 RHD 22 A 1 HETATM 3 N N2 RHD . . . E 2 -5.92 10.43 35.816 0.3 14.54 ? N2 RHD 22 A 1 HETATM 4 N N3 RHD . . . E 2 -7.886 10.655 38.019 0.3 14.62 ? N3 RHD 22 A 1 HETATM 5 N N4 RHD . . . E 2 -7.467 13.605 38.082 0.3 14.59 ? N4 RHD 22 A 1 HETATM 6 N N5 RHD . . . E 2 -5.158 11.767 38.356 0.3 14.62 ? N5 RHD 22 A 1 HETATM 7 N N6 RHD . . . E 2 -8.237 12.239 35.542 0.3 14.57 ? N6 RHD 22 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 285 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 7 #