data_2IDV # _model_server_result.job_id mQLmLmgYCZMrkLuw3k9vGw _model_server_result.datetime_utc '2024-12-26 18:01:12' _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 2idv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1000}' # _entry.id 2IDV # _exptl.entry_id 2IDV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 458.235 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE" _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 115.85 _cell.angle_gamma 90 _cell.entry_id 2IDV _cell.length_a 36.651 _cell.length_b 58.227 _cell.length_c 39.063 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2IDV _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 'C11 H18 N5 O11 P2 1' _chem_comp.formula_weight 458.235 _chem_comp.id M7G _chem_comp.mon_nstd_flag . _chem_comp.name "7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE" _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 PA O1A M7G doub 218 n n PA O2A M7G sing 219 n n PA O3A M7G sing 220 n n PA O5' M7G sing 221 n n O2A HOA2 M7G sing 222 n n O3A PB M7G sing 223 n n O5' C5' M7G sing 224 n n PB O1B M7G doub 225 n n PB O2B M7G sing 226 n n PB O3B M7G sing 227 n n O2B HOB2 M7G sing 228 n n O3B HOB3 M7G sing 229 n n C5' C4' M7G sing 230 n n C5' "H5'1" M7G sing 231 n n C5' "H5'2" M7G sing 232 n n C4' O4' M7G sing 233 n n C4' C3' M7G sing 234 n n C4' H4' M7G sing 235 n n O4' C1' M7G sing 236 n n C3' O3' M7G sing 237 n n C3' C2' M7G sing 238 n n C3' H3' M7G sing 239 n n O3' HO3' M7G sing 240 n n C2' O2' M7G sing 241 n n C2' C1' M7G sing 242 n n C2' H2' M7G sing 243 n n O2' HO2' M7G sing 244 n n C1' N9 M7G sing 245 n n C1' H1' M7G sing 246 n n N9 C8 M7G sing 247 n y N9 C4 M7G sing 248 n y C8 N7 M7G doub 249 n y C8 H81 M7G sing 250 n n N7 CM7 M7G sing 251 n n N7 C5 M7G sing 252 n y CM7 HM71 M7G sing 253 n n CM7 HM72 M7G sing 254 n n CM7 HM73 M7G sing 255 n n C5 C6 M7G sing 256 n n C5 C4 M7G doub 257 n y C6 O6 M7G doub 258 n n C6 N1 M7G sing 259 n n N1 C2 M7G sing 260 n n N1 HN1 M7G sing 261 n n C2 N2 M7G sing 262 n n C2 N3 M7G doub 263 n n N2 HN21 M7G sing 264 n n N2 HN22 M7G sing 265 n n N3 C4 M7G sing 266 n n # _atom_sites.entry_id 2IDV _atom_sites.fract_transf_matrix[1][1] 0.027284 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.013219 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017174 _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] 0.028446 _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 M7G A 1 1000 1000 M7G M7G . C 3 HOH A 1 1001 1 HOH HOH . C 3 HOH A 2 1002 2 HOH HOH . C 3 HOH A 3 1003 3 HOH HOH . C 3 HOH A 4 1004 4 HOH HOH . C 3 HOH A 5 1005 5 HOH HOH . C 3 HOH A 6 1006 6 HOH HOH . C 3 HOH A 7 1007 7 HOH HOH . C 3 HOH A 8 1008 8 HOH HOH . C 3 HOH A 9 1009 9 HOH HOH . C 3 HOH A 10 1010 10 HOH HOH . C 3 HOH A 11 1011 11 HOH HOH . C 3 HOH A 12 1012 12 HOH HOH . C 3 HOH A 13 1013 13 HOH HOH . C 3 HOH A 14 1014 14 HOH HOH . C 3 HOH A 15 1015 15 HOH HOH . C 3 HOH A 16 1016 16 HOH HOH . C 3 HOH A 17 1017 17 HOH HOH . C 3 HOH A 18 1018 18 HOH HOH . C 3 HOH A 19 1019 19 HOH HOH . C 3 HOH A 20 1020 20 HOH HOH . C 3 HOH A 21 1021 21 HOH HOH . C 3 HOH A 22 1022 22 HOH HOH . C 3 HOH A 23 1023 23 HOH HOH . C 3 HOH A 24 1024 24 HOH HOH . C 3 HOH A 25 1025 25 HOH HOH . C 3 HOH A 26 1026 26 HOH HOH . C 3 HOH A 27 1027 27 HOH HOH . C 3 HOH A 28 1028 28 HOH HOH . C 3 HOH A 29 1029 29 HOH HOH . C 3 HOH A 30 1030 30 HOH HOH . C 3 HOH A 31 1031 31 HOH HOH . C 3 HOH A 32 1032 32 HOH HOH . C 3 HOH A 33 1033 33 HOH HOH . C 3 HOH A 34 1034 34 HOH HOH . C 3 HOH A 35 1035 35 HOH HOH . C 3 HOH A 36 1036 36 HOH HOH . C 3 HOH A 37 1037 37 HOH HOH . C 3 HOH A 38 1038 38 HOH HOH . C 3 HOH A 39 1039 39 HOH HOH . C 3 HOH A 40 1040 40 HOH HOH . C 3 HOH A 41 1041 41 HOH HOH . C 3 HOH A 42 1042 42 HOH HOH . C 3 HOH A 43 1043 43 HOH HOH . C 3 HOH A 44 1044 44 HOH HOH . C 3 HOH A 45 1045 45 HOH HOH . C 3 HOH A 46 1046 46 HOH HOH . C 3 HOH A 47 1047 47 HOH HOH . C 3 HOH A 48 1048 48 HOH HOH . C 3 HOH A 49 1049 49 HOH HOH . C 3 HOH A 50 1050 50 HOH HOH . C 3 HOH A 51 1051 51 HOH HOH . C 3 HOH A 52 1052 52 HOH HOH . C 3 HOH A 53 1053 53 HOH HOH . C 3 HOH A 54 1054 54 HOH HOH . C 3 HOH A 55 1055 55 HOH HOH . C 3 HOH A 56 1056 56 HOH HOH . C 3 HOH A 57 1057 57 HOH HOH . C 3 HOH A 58 1058 58 HOH HOH . C 3 HOH A 59 1059 59 HOH HOH . C 3 HOH A 60 1060 60 HOH HOH . C 3 HOH A 61 1061 61 HOH HOH . C 3 HOH A 62 1062 62 HOH HOH . C 3 HOH A 63 1063 63 HOH HOH . C 3 HOH A 64 1064 64 HOH HOH . C 3 HOH A 65 1065 65 HOH HOH . C 3 HOH A 66 1066 66 HOH HOH . C 3 HOH A 67 1067 67 HOH HOH . C 3 HOH A 68 1068 68 HOH HOH . C 3 HOH A 69 1069 69 HOH HOH . C 3 HOH A 70 1070 70 HOH HOH . C 3 HOH A 71 1071 71 HOH HOH . C 3 HOH A 72 1072 72 HOH HOH . C 3 HOH A 73 1073 73 HOH HOH . C 3 HOH A 74 1074 74 HOH HOH . C 3 HOH A 75 1075 75 HOH HOH . C 3 HOH A 76 1076 76 HOH HOH . C 3 HOH A 77 1077 77 HOH HOH . C 3 HOH A 78 1078 78 HOH HOH . C 3 HOH A 79 1079 79 HOH HOH . C 3 HOH A 80 1080 80 HOH HOH . C 3 HOH A 81 1081 81 HOH HOH . C 3 HOH A 82 1082 82 HOH HOH . C 3 HOH A 83 1083 83 HOH HOH . C 3 HOH A 84 1084 85 HOH HOH . C 3 HOH A 85 1085 86 HOH HOH . C 3 HOH A 86 1086 87 HOH HOH . C 3 HOH A 87 1087 88 HOH HOH . C 3 HOH A 88 1088 89 HOH HOH . C 3 HOH A 89 1089 90 HOH HOH . C 3 HOH A 90 1090 91 HOH HOH . C 3 HOH A 91 1091 92 HOH HOH . C 3 HOH A 92 1092 93 HOH HOH . C 3 HOH A 93 1093 94 HOH HOH . C 3 HOH A 94 1094 95 HOH HOH . C 3 HOH A 95 1095 96 HOH HOH . C 3 HOH A 96 1096 97 HOH HOH . C 3 HOH A 97 1097 98 HOH HOH . C 3 HOH A 98 1098 99 HOH HOH . C 3 HOH A 99 1099 100 HOH HOH . C 3 HOH A 100 1100 101 HOH HOH . C 3 HOH A 101 1101 102 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 P PA M7G . . . B 2 3.858 2.863 -3.583 1 23.4 ? PA M7G 1000 A 1 HETATM 2 O O1A M7G . . . B 2 2.798 1.942 -4.052 1 23.43 ? O1A M7G 1000 A 1 HETATM 3 O O2A M7G . . . B 2 4.133 2.926 -2.128 1 26.23 ? O2A M7G 1000 A 1 HETATM 4 O O3A M7G . . . B 2 5.237 2.479 -4.332 1 21.69 ? O3A M7G 1000 A 1 HETATM 5 O O5' M7G . . . B 2 3.558 4.355 -4.116 1 23.8 ? O5' M7G 1000 A 1 HETATM 6 P PB M7G . . . B 2 5.224 1.517 -5.631 1 23.38 ? PB M7G 1000 A 1 HETATM 7 O O1B M7G . . . B 2 4.193 1.891 -6.629 1 20.04 ? O1B M7G 1000 A 1 HETATM 8 O O2B M7G . . . B 2 5.038 0.018 -5.062 1 19.82 ? O2B M7G 1000 A 1 HETATM 9 O O3B M7G . . . B 2 6.723 1.578 -6.227 1 21.16 ? O3B M7G 1000 A 1 HETATM 10 C C5' M7G . . . B 2 3.097 4.588 -5.449 1 20.33 ? C5' M7G 1000 A 1 HETATM 11 C C4' M7G . . . B 2 2.559 6.016 -5.57 1 22.67 ? C4' M7G 1000 A 1 HETATM 12 O O4' M7G . . . B 2 1.45 6.253 -4.684 1 21.72 ? O4' M7G 1000 A 1 HETATM 13 C C3' M7G . . . B 2 3.594 7.08 -5.2 1 23.08 ? C3' M7G 1000 A 1 HETATM 14 O O3' M7G . . . B 2 4.454 7.313 -6.318 1 23.57 ? O3' M7G 1000 A 1 HETATM 15 C C2' M7G . . . B 2 2.642 8.266 -5.065 1 23.73 ? C2' M7G 1000 A 1 HETATM 16 O O2' M7G . . . B 2 2.172 8.641 -6.362 1 22.07 ? O2' M7G 1000 A 1 HETATM 17 C C1' M7G . . . B 2 1.511 7.628 -4.253 1 23.24 ? C1' M7G 1000 A 1 HETATM 18 N N9 M7G . . . B 2 1.83 7.658 -2.804 1 25.36 ? N9 M7G 1000 A 1 HETATM 19 C C8 M7G . . . B 2 2.454 6.693 -2.125 1 24.73 ? C8 M7G 1000 A 1 HETATM 20 N N7 M7G . . . B 2 2.535 7.064 -0.85 1 23.64 ? N7 M7G 1000 A 1 HETATM 21 C CM7 M7G . . . B 2 3.169 6.276 0.233 1 22.86 ? CM7 M7G 1000 A 1 HETATM 22 C C5 M7G . . . B 2 1.972 8.256 -0.697 1 23.69 ? C5 M7G 1000 A 1 HETATM 23 C C6 M7G . . . B 2 1.757 9.088 0.396 1 24.63 ? C6 M7G 1000 A 1 HETATM 24 O O6 M7G . . . B 2 2.14 8.755 1.518 1 24.6 ? O6 M7G 1000 A 1 HETATM 25 N N1 M7G . . . B 2 1.085 10.3 0.2 1 24.79 ? N1 M7G 1000 A 1 HETATM 26 C C2 M7G . . . B 2 0.659 10.643 -1.093 1 22.83 ? C2 M7G 1000 A 1 HETATM 27 N N2 M7G . . . B 2 0.015 11.79 -1.288 1 19.97 ? N2 M7G 1000 A 1 HETATM 28 N N3 M7G . . . B 2 0.88 9.809 -2.119 1 23.58 ? N3 M7G 1000 A 1 HETATM 29 C C4 M7G . . . B 2 1.516 8.636 -1.956 1 23.87 ? C4 M7G 1000 A 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 29 #