data_2HVE # _model_server_result.job_id H5DWIQDUsN86kDghCkMD4g _model_server_result.datetime_utc '2024-10-19 14:18:50' _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 2hve # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":160}' # _entry.id 2HVE # _exptl.entry_id 2HVE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 3 _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 2HVE _cell.length_a 114.824 _cell.length_b 114.824 _cell.length_c 89.719 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2HVE _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,F,G,H,I _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' 8_665 -y+1,-x+1,-z+1/2 0 -1 0 -1 0 0 0 0 -1 114.824 114.824 44.8595 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 E N N ? 2 F N N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 4 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 4 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 4 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 4 _struct_conn.ptnr2_symmetry 7_465 _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 2.049 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 2HVE _atom_sites.fract_transf_matrix[1][1] 0.008709 _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] 0.008709 _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] 0.011146 _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 D 2 ADP A 1 160 160 ADP ADP . E 2 ADP B 1 160 160 ADP ADP . F 2 ADP C 1 160 160 ADP ADP . G 3 HOH A 1 161 5 HOH HOH . G 3 HOH A 2 162 7 HOH HOH . G 3 HOH A 3 163 10 HOH HOH . G 3 HOH A 4 164 11 HOH HOH . G 3 HOH A 5 165 12 HOH HOH . G 3 HOH A 6 166 19 HOH HOH . G 3 HOH A 7 167 24 HOH HOH . G 3 HOH A 8 168 25 HOH HOH . G 3 HOH A 9 169 27 HOH HOH . G 3 HOH A 10 170 29 HOH HOH . G 3 HOH A 11 171 31 HOH HOH . G 3 HOH A 12 172 32 HOH HOH . G 3 HOH A 13 173 33 HOH HOH . G 3 HOH A 14 174 34 HOH HOH . G 3 HOH A 15 175 39 HOH HOH . G 3 HOH A 16 176 50 HOH HOH . G 3 HOH A 17 177 54 HOH HOH . G 3 HOH A 18 178 60 HOH HOH . G 3 HOH A 19 179 64 HOH HOH . G 3 HOH A 20 180 66 HOH HOH . G 3 HOH A 21 181 73 HOH HOH . G 3 HOH A 22 182 82 HOH HOH . G 3 HOH A 23 183 84 HOH HOH . G 3 HOH A 24 184 87 HOH HOH . G 3 HOH A 25 185 93 HOH HOH . G 3 HOH A 26 186 98 HOH HOH . G 3 HOH A 27 187 99 HOH HOH . G 3 HOH A 28 188 106 HOH HOH . G 3 HOH A 29 189 108 HOH HOH . G 3 HOH A 30 190 111 HOH HOH . G 3 HOH A 31 191 113 HOH HOH . G 3 HOH A 32 192 121 HOH HOH . G 3 HOH A 33 193 127 HOH HOH . G 3 HOH A 34 194 136 HOH HOH . G 3 HOH A 35 195 140 HOH HOH . G 3 HOH A 36 196 146 HOH HOH . G 3 HOH A 37 197 151 HOH HOH . H 3 HOH B 1 161 1 HOH HOH . H 3 HOH B 2 162 2 HOH HOH . H 3 HOH B 3 163 4 HOH HOH . H 3 HOH B 4 164 6 HOH HOH . H 3 HOH B 5 165 14 HOH HOH . H 3 HOH B 6 166 15 HOH HOH . H 3 HOH B 7 167 16 HOH HOH . H 3 HOH B 8 168 21 HOH HOH . H 3 HOH B 9 169 22 HOH HOH . H 3 HOH B 10 170 26 HOH HOH . H 3 HOH B 11 171 28 HOH HOH . H 3 HOH B 12 172 30 HOH HOH . H 3 HOH B 13 173 36 HOH HOH . H 3 HOH B 14 174 38 HOH HOH . H 3 HOH B 15 175 40 HOH HOH . H 3 HOH B 16 176 41 HOH HOH . H 3 HOH B 17 177 42 HOH HOH . H 3 HOH B 18 178 44 HOH HOH . H 3 HOH B 19 179 46 HOH HOH . H 3 HOH B 20 180 52 HOH HOH . H 3 HOH B 21 181 55 HOH HOH . H 3 HOH B 22 182 56 HOH HOH . H 3 HOH B 23 183 57 HOH HOH . H 3 HOH B 24 184 58 HOH HOH . H 3 HOH B 25 185 61 HOH HOH . H 3 HOH B 26 186 62 HOH HOH . H 3 HOH B 27 187 63 HOH HOH . H 3 HOH B 28 188 65 HOH HOH . H 3 HOH B 29 189 69 HOH HOH . H 3 HOH B 30 190 71 HOH HOH . H 3 HOH B 31 191 72 HOH HOH . H 3 HOH B 32 192 74 HOH HOH . H 3 HOH B 33 193 75 HOH HOH . H 3 HOH B 34 194 76 HOH HOH . H 3 HOH B 35 195 78 HOH HOH . H 3 HOH B 36 196 79 HOH HOH . H 3 HOH B 37 197 80 HOH HOH . H 3 HOH B 38 198 81 HOH HOH . H 3 HOH B 39 199 91 HOH HOH . H 3 HOH B 40 200 96 HOH HOH . H 3 HOH B 41 201 102 HOH HOH . H 3 HOH B 42 202 103 HOH HOH . H 3 HOH B 43 203 107 HOH HOH . H 3 HOH B 44 204 112 HOH HOH . H 3 HOH B 45 205 116 HOH HOH . H 3 HOH B 46 206 117 HOH HOH . H 3 HOH B 47 207 118 HOH HOH . H 3 HOH B 48 208 119 HOH HOH . H 3 HOH B 49 209 120 HOH HOH . H 3 HOH B 50 210 122 HOH HOH . H 3 HOH B 51 211 126 HOH HOH . H 3 HOH B 52 212 131 HOH HOH . H 3 HOH B 53 213 132 HOH HOH . H 3 HOH B 54 214 133 HOH HOH . H 3 HOH B 55 215 134 HOH HOH . H 3 HOH B 56 216 139 HOH HOH . H 3 HOH B 57 217 142 HOH HOH . H 3 HOH B 58 218 145 HOH HOH . H 3 HOH B 59 219 147 HOH HOH . H 3 HOH B 60 220 149 HOH HOH . I 3 HOH C 1 161 3 HOH HOH . I 3 HOH C 2 162 8 HOH HOH . I 3 HOH C 3 163 9 HOH HOH . I 3 HOH C 4 164 13 HOH HOH . I 3 HOH C 5 165 17 HOH HOH . I 3 HOH C 6 166 18 HOH HOH . I 3 HOH C 7 167 20 HOH HOH . I 3 HOH C 8 168 23 HOH HOH . I 3 HOH C 9 169 35 HOH HOH . I 3 HOH C 10 170 37 HOH HOH . I 3 HOH C 11 171 43 HOH HOH . I 3 HOH C 12 172 45 HOH HOH . I 3 HOH C 13 173 47 HOH HOH . I 3 HOH C 14 174 48 HOH HOH . I 3 HOH C 15 175 49 HOH HOH . I 3 HOH C 16 176 51 HOH HOH . I 3 HOH C 17 177 53 HOH HOH . I 3 HOH C 18 178 59 HOH HOH . I 3 HOH C 19 179 67 HOH HOH . I 3 HOH C 20 180 68 HOH HOH . I 3 HOH C 21 181 70 HOH HOH . I 3 HOH C 22 182 77 HOH HOH . I 3 HOH C 23 183 83 HOH HOH . I 3 HOH C 24 184 85 HOH HOH . I 3 HOH C 25 185 86 HOH HOH . I 3 HOH C 26 186 88 HOH HOH . I 3 HOH C 27 187 89 HOH HOH . I 3 HOH C 28 188 90 HOH HOH . I 3 HOH C 29 189 92 HOH HOH . I 3 HOH C 30 190 94 HOH HOH . I 3 HOH C 31 191 95 HOH HOH . I 3 HOH C 32 192 97 HOH HOH . I 3 HOH C 33 193 100 HOH HOH . I 3 HOH C 34 194 101 HOH HOH . I 3 HOH C 35 195 104 HOH HOH . I 3 HOH C 36 196 105 HOH HOH . I 3 HOH C 37 197 109 HOH HOH . I 3 HOH C 38 198 110 HOH HOH . I 3 HOH C 39 199 114 HOH HOH . I 3 HOH C 40 200 115 HOH HOH . I 3 HOH C 41 201 123 HOH HOH . I 3 HOH C 42 202 124 HOH HOH . I 3 HOH C 43 203 125 HOH HOH . I 3 HOH C 44 204 128 HOH HOH . I 3 HOH C 45 205 129 HOH HOH . I 3 HOH C 46 206 130 HOH HOH . I 3 HOH C 47 207 135 HOH HOH . I 3 HOH C 48 208 137 HOH HOH . I 3 HOH C 49 209 138 HOH HOH . I 3 HOH C 50 210 141 HOH HOH . I 3 HOH C 51 211 143 HOH HOH . I 3 HOH C 52 212 144 HOH HOH . I 3 HOH C 53 213 148 HOH HOH . I 3 HOH C 54 214 150 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 PB ADP . . . D 2 -10.165 96.289 15.21 1 78.73 ? PB ADP 160 A 1 HETATM 2 O O1B ADP . . . D 2 -10.59 97.223 14.098 1 79.44 ? O1B ADP 160 A 1 HETATM 3 O O2B ADP . . . D 2 -8.992 95.401 14.861 1 78.65 ? O2B ADP 160 A 1 HETATM 4 O O3B ADP . . . D 2 -10.012 96.976 16.552 1 77.74 ? O3B ADP 160 A 1 HETATM 5 P PA ADP . . . D 2 -12.94 95.476 15.474 1 75.52 ? PA ADP 160 A 1 HETATM 6 O O1A ADP . . . D 2 -13.263 96.803 14.837 1 76.17 ? O1A ADP 160 A 1 HETATM 7 O O2A ADP . . . D 2 -13.64 94.225 14.997 1 74.89 ? O2A ADP 160 A 1 HETATM 8 O O3A ADP . . . D 2 -11.349 95.189 15.346 1 77.81 ? O3A ADP 160 A 1 HETATM 9 O O5' ADP . . . D 2 -13.167 95.643 17.061 1 73.5 ? O5' ADP 160 A 1 HETATM 10 C C5' ADP . . . D 2 -12.908 96.892 17.687 1 72.24 ? C5' ADP 160 A 1 HETATM 11 C C4' ADP . . . D 2 -12.408 96.696 19.111 1 72.07 ? C4' ADP 160 A 1 HETATM 12 O O4' ADP . . . D 2 -13.419 96.048 19.897 1 71.33 ? O4' ADP 160 A 1 HETATM 13 C C3' ADP . . . D 2 -11.15 95.836 19.269 1 71.79 ? C3' ADP 160 A 1 HETATM 14 O O3' ADP . . . D 2 -9.918 96.539 19.038 1 71.02 ? O3' ADP 160 A 1 HETATM 15 C C2' ADP . . . D 2 -11.301 95.353 20.705 1 71.18 ? C2' ADP 160 A 1 HETATM 16 O O2' ADP . . . D 2 -10.823 96.316 21.661 1 70.77 ? O2' ADP 160 A 1 HETATM 17 C C1' ADP . . . D 2 -12.807 95.186 20.863 1 69.99 ? C1' ADP 160 A 1 HETATM 18 N N9 ADP . . . D 2 -13.229 93.792 20.589 1 67.92 ? N9 ADP 160 A 1 HETATM 19 C C8 ADP . . . D 2 -13.341 93.215 19.373 1 66.77 ? C8 ADP 160 A 1 HETATM 20 N N7 ADP . . . D 2 -13.761 91.931 19.49 1 65.79 ? N7 ADP 160 A 1 HETATM 21 C C5 ADP . . . D 2 -13.919 91.682 20.8 1 65.44 ? C5 ADP 160 A 1 HETATM 22 C C6 ADP . . . D 2 -14.345 90.528 21.609 1 65.44 ? C6 ADP 160 A 1 HETATM 23 N N6 ADP . . . D 2 -14.679 89.371 20.991 1 66.33 ? N6 ADP 160 A 1 HETATM 24 N N1 ADP . . . D 2 -14.378 90.669 22.956 1 64.65 ? N1 ADP 160 A 1 HETATM 25 C C2 ADP . . . D 2 -14.042 91.827 23.567 1 65.47 ? C2 ADP 160 A 1 HETATM 26 N N3 ADP . . . D 2 -13.65 92.925 22.89 1 65.69 ? N3 ADP 160 A 1 HETATM 27 C C4 ADP . . . D 2 -13.572 92.908 21.529 1 66.63 ? C4 ADP 160 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #