data_4RYG # _model_server_result.job_id S77aUHf9gwt3jykZ1ytffQ _model_server_result.datetime_utc '2024-11-17 08:43:10' _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 4ryg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":1002}' # _entry.id 4RYG # _exptl.entry_id 4RYG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 78.133 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DIMETHYL SULFOXIDE' _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 4RYG _cell.length_a 141.674 _cell.length_b 141.674 _cell.length_c 141.674 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4RYG _symmetry.cell_setting ? _symmetry.Int_Tables_number 198 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 3' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 PISA hexameric 6 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,J 1 1 B,F,G,H,I,K 2 1 A,B,C,D,E,F,G,H,I,J,K 3 1,2,3 # 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_564 -z+1/2,-x+1,y-1/2 0 0 -1 -1 0 0 0 1 0 70.837 141.674 -70.837 3 'crystal symmetry operation' 10_655 -y+1,z+1/2,-x+1/2 0 -1 0 0 0 1 -1 0 0 141.674 70.837 70.837 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 H N N ? 5 I 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 disulf ? disulf1 A SG CYS 51 A CYS 45 1_555 A SG CYS 58 A CYS 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf2 A SG CYS 217 A CYS 206 1_555 A SG CYS 221 A CYS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf3 A SG CYS 259 A CYS 249 1_555 A SG CYS 296 A CYS 282 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 B SG CYS 51 B CYS 45 1_555 B SG CYS 58 B CYS 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf5 B SG CYS 217 B CYS 206 1_555 B SG CYS 221 B CYS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf6 B SG CYS 259 B CYS 249 1_555 B SG CYS 296 B CYS 282 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 75 A ASN 67 1_555 C C1 NAG . A NAG 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale2 B ND2 ASN 75 B ASN 67 1_555 F C1 NAG . B NAG 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? # _chem_comp.formula 'C2 H6 O S' _chem_comp.formula_weight 78.133 _chem_comp.id DMS _chem_comp.mon_nstd_flag . _chem_comp.name 'DIMETHYL SULFOXIDE' _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 S O DMS doub 161 n n S C1 DMS sing 162 n n S C2 DMS sing 163 n n C1 H11 DMS sing 164 n n C1 H12 DMS sing 165 n n C1 H13 DMS sing 166 n n C2 H21 DMS sing 167 n n C2 H22 DMS sing 168 n n C2 H23 DMS sing 169 n n # _atom_sites.entry_id 4RYG _atom_sites.fract_transf_matrix[1][1] 0.007058 _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] 0.007058 _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] 0.007058 _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 NAG A 1 1000 1000 NAG NAG . D 3 3ZJ A 1 1001 1001 3ZJ LI1 . E 4 SO4 A 1 1002 1002 SO4 SO4 . F 2 NAG B 1 1000 1000 NAG NAG . G 3 3ZJ B 1 1001 1001 3ZJ LI1 . H 5 DMS B 1 1002 1002 DMS DMS . I 5 DMS B 1 1003 1003 DMS DMS . J 6 HOH A 1 1101 2 HOH HOH . J 6 HOH A 2 1102 4 HOH HOH . J 6 HOH A 3 1103 6 HOH HOH . J 6 HOH A 4 1104 8 HOH HOH . J 6 HOH A 5 1105 10 HOH HOH . J 6 HOH A 6 1106 11 HOH HOH . J 6 HOH A 7 1107 12 HOH HOH . J 6 HOH A 8 1108 19 HOH HOH . J 6 HOH A 9 1109 21 HOH HOH . J 6 HOH A 10 1110 22 HOH HOH . J 6 HOH A 11 1111 25 HOH HOH . J 6 HOH A 12 1112 26 HOH HOH . J 6 HOH A 13 1113 28 HOH HOH . J 6 HOH A 14 1114 29 HOH HOH . J 6 HOH A 15 1115 30 HOH HOH . J 6 HOH A 16 1116 32 HOH HOH . J 6 HOH A 17 1117 34 HOH HOH . J 6 HOH A 18 1118 35 HOH HOH . J 6 HOH A 19 1119 36 HOH HOH . J 6 HOH A 20 1120 37 HOH HOH . J 6 HOH A 21 1121 38 HOH HOH . J 6 HOH A 22 1122 40 HOH HOH . J 6 HOH A 23 1123 42 HOH HOH . J 6 HOH A 24 1124 43 HOH HOH . J 6 HOH A 25 1125 46 HOH HOH . J 6 HOH A 26 1126 48 HOH HOH . J 6 HOH A 27 1127 49 HOH HOH . J 6 HOH A 28 1128 51 HOH HOH . J 6 HOH A 29 1129 54 HOH HOH . J 6 HOH A 30 1130 55 HOH HOH . J 6 HOH A 31 1131 57 HOH HOH . J 6 HOH A 32 1132 58 HOH HOH . J 6 HOH A 33 1133 60 HOH HOH . J 6 HOH A 34 1134 62 HOH HOH . J 6 HOH A 35 1135 66 HOH HOH . J 6 HOH A 36 1136 69 HOH HOH . J 6 HOH A 37 1137 70 HOH HOH . J 6 HOH A 38 1138 71 HOH HOH . J 6 HOH A 39 1139 72 HOH HOH . J 6 HOH A 40 1140 77 HOH HOH . J 6 HOH A 41 1141 78 HOH HOH . J 6 HOH A 42 1142 81 HOH HOH . J 6 HOH A 43 1143 82 HOH HOH . J 6 HOH A 44 1144 83 HOH HOH . J 6 HOH A 45 1145 85 HOH HOH . J 6 HOH A 46 1146 86 HOH HOH . J 6 HOH A 47 1147 87 HOH HOH . J 6 HOH A 48 1148 88 HOH HOH . J 6 HOH A 49 1149 89 HOH HOH . J 6 HOH A 50 1150 90 HOH HOH . J 6 HOH A 51 1151 91 HOH HOH . J 6 HOH A 52 1152 98 HOH HOH . J 6 HOH A 53 1153 99 HOH HOH . J 6 HOH A 54 1154 101 HOH HOH . J 6 HOH A 55 1155 102 HOH HOH . J 6 HOH A 56 1156 104 HOH HOH . J 6 HOH A 57 1157 106 HOH HOH . J 6 HOH A 58 1158 111 HOH HOH . J 6 HOH A 59 1159 112 HOH HOH . J 6 HOH A 60 1160 113 HOH HOH . J 6 HOH A 61 1161 114 HOH HOH . J 6 HOH A 62 1162 117 HOH HOH . J 6 HOH A 63 1163 118 HOH HOH . J 6 HOH A 64 1164 119 HOH HOH . J 6 HOH A 65 1165 120 HOH HOH . J 6 HOH A 66 1166 122 HOH HOH . J 6 HOH A 67 1167 125 HOH HOH . J 6 HOH A 68 1168 130 HOH HOH . J 6 HOH A 69 1169 135 HOH HOH . J 6 HOH A 70 1170 137 HOH HOH . J 6 HOH A 71 1171 138 HOH HOH . J 6 HOH A 72 1172 139 HOH HOH . J 6 HOH A 73 1173 141 HOH HOH . J 6 HOH A 74 1174 146 HOH HOH . J 6 HOH A 75 1175 147 HOH HOH . K 6 HOH B 1 1101 1 HOH HOH . K 6 HOH B 2 1102 3 HOH HOH . K 6 HOH B 3 1103 5 HOH HOH . K 6 HOH B 4 1104 7 HOH HOH . K 6 HOH B 5 1105 9 HOH HOH . K 6 HOH B 6 1106 13 HOH HOH . K 6 HOH B 7 1107 14 HOH HOH . K 6 HOH B 8 1108 15 HOH HOH . K 6 HOH B 9 1109 16 HOH HOH . K 6 HOH B 10 1110 17 HOH HOH . K 6 HOH B 11 1111 18 HOH HOH . K 6 HOH B 12 1112 20 HOH HOH . K 6 HOH B 13 1113 23 HOH HOH . K 6 HOH B 14 1114 24 HOH HOH . K 6 HOH B 15 1115 27 HOH HOH . K 6 HOH B 16 1116 31 HOH HOH . K 6 HOH B 17 1117 33 HOH HOH . K 6 HOH B 18 1118 39 HOH HOH . K 6 HOH B 19 1119 41 HOH HOH . K 6 HOH B 20 1120 44 HOH HOH . K 6 HOH B 21 1121 45 HOH HOH . K 6 HOH B 22 1122 47 HOH HOH . K 6 HOH B 23 1123 50 HOH HOH . K 6 HOH B 24 1124 52 HOH HOH . K 6 HOH B 25 1125 53 HOH HOH . K 6 HOH B 26 1126 56 HOH HOH . K 6 HOH B 27 1127 59 HOH HOH . K 6 HOH B 28 1128 61 HOH HOH . K 6 HOH B 29 1129 63 HOH HOH . K 6 HOH B 30 1130 64 HOH HOH . K 6 HOH B 31 1131 65 HOH HOH . K 6 HOH B 32 1132 67 HOH HOH . K 6 HOH B 33 1133 68 HOH HOH . K 6 HOH B 34 1134 73 HOH HOH . K 6 HOH B 35 1135 74 HOH HOH . K 6 HOH B 36 1136 75 HOH HOH . K 6 HOH B 37 1137 76 HOH HOH . K 6 HOH B 38 1138 79 HOH HOH . K 6 HOH B 39 1139 80 HOH HOH . K 6 HOH B 40 1140 84 HOH HOH . K 6 HOH B 41 1141 92 HOH HOH . K 6 HOH B 42 1142 93 HOH HOH . K 6 HOH B 43 1143 94 HOH HOH . K 6 HOH B 44 1144 95 HOH HOH . K 6 HOH B 45 1145 96 HOH HOH . K 6 HOH B 46 1146 97 HOH HOH . K 6 HOH B 47 1147 100 HOH HOH . K 6 HOH B 48 1148 103 HOH HOH . K 6 HOH B 49 1149 105 HOH HOH . K 6 HOH B 50 1150 107 HOH HOH . K 6 HOH B 51 1151 108 HOH HOH . K 6 HOH B 52 1152 109 HOH HOH . K 6 HOH B 53 1153 110 HOH HOH . K 6 HOH B 54 1154 115 HOH HOH . K 6 HOH B 55 1155 116 HOH HOH . K 6 HOH B 56 1156 121 HOH HOH . K 6 HOH B 57 1157 123 HOH HOH . K 6 HOH B 58 1158 124 HOH HOH . K 6 HOH B 59 1159 126 HOH HOH . K 6 HOH B 60 1160 127 HOH HOH . K 6 HOH B 61 1161 128 HOH HOH . K 6 HOH B 62 1162 129 HOH HOH . K 6 HOH B 63 1163 131 HOH HOH . K 6 HOH B 64 1164 132 HOH HOH . K 6 HOH B 65 1165 133 HOH HOH . K 6 HOH B 66 1166 134 HOH HOH . K 6 HOH B 67 1167 136 HOH HOH . K 6 HOH B 68 1168 140 HOH HOH . K 6 HOH B 69 1169 142 HOH HOH . K 6 HOH B 70 1170 143 HOH HOH . K 6 HOH B 71 1171 144 HOH HOH . K 6 HOH B 72 1172 145 HOH HOH . K 6 HOH B 73 1173 148 HOH HOH . K 6 HOH B 74 1174 149 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 S S DMS . . . H 5 70.34 85.704 -17.268 1 92.21 ? S DMS 1002 B 1 HETATM 2 O O DMS . . . H 5 70.779 85.767 -18.69 1 92.79 ? O DMS 1002 B 1 HETATM 3 C C1 DMS . . . H 5 69.292 84.281 -17.196 1 92.27 ? C1 DMS 1002 B 1 HETATM 4 C C2 DMS . . . H 5 71.756 85.084 -16.408 1 90.27 ? C2 DMS 1002 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 355 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 4 #