data_5VSV # _model_server_result.job_id rCgrvT-uExi9zgpCqQNZ9w _model_server_result.datetime_utc '2024-11-25 03:40:20' _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 5vsv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":500}' # _entry.id 5VSV # _exptl.entry_id 5VSV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 348.206 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'INOSINIC ACID' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 110.83 _cell.angle_beta 104.05 _cell.angle_gamma 105.44 _cell.entry_id 5VSV _cell.length_a 62.861 _cell.length_b 77.637 _cell.length_c 78.972 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VSV _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,J,K,L,M,N,O,P _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 E N N ? 2 H N N ? 2 J N N ? 2 L N N # _chem_comp.formula 'C10 H13 N4 O8 P' _chem_comp.formula_weight 348.206 _chem_comp.id IMP _chem_comp.mon_nstd_flag n _chem_comp.name 'INOSINIC ACID' _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 P O1P IMP doub 225 n n P O2P IMP sing 226 n n P O3P IMP sing 227 n n P O5' IMP sing 228 n n O2P HOP2 IMP sing 229 n n O3P HOP3 IMP sing 230 n n O5' C5' IMP sing 231 n n C5' C4' IMP sing 232 n n C5' "H5'1" IMP sing 233 n n C5' "H5'2" IMP sing 234 n n C4' O4' IMP sing 235 n n C4' C3' IMP sing 236 n n C4' H4' IMP sing 237 n n O4' C1' IMP sing 238 n n C3' O3' IMP sing 239 n n C3' C2' IMP sing 240 n n C3' H3' IMP sing 241 n n O3' HO3' IMP sing 242 n n C2' O2' IMP sing 243 n n C2' C1' IMP sing 244 n n C2' H2' IMP sing 245 n n O2' HO2' IMP sing 246 n n C1' N9 IMP sing 247 n n C1' H1' IMP sing 248 n n N9 C8 IMP sing 249 n y N9 C4 IMP sing 250 n y C8 N7 IMP doub 251 n y C8 H8 IMP sing 252 n n N7 C5 IMP sing 253 n y C5 C6 IMP sing 254 n n C5 C4 IMP doub 255 n y C6 O6 IMP doub 256 n n C6 N1 IMP sing 257 n n N1 C2 IMP sing 258 n n N1 HN1 IMP sing 259 n n C2 N3 IMP doub 260 n n C2 H2 IMP sing 261 n n N3 C4 IMP sing 262 n n # _atom_sites.entry_id 5VSV _atom_sites.fract_transf_matrix[1][1] 0.015908 _atom_sites.fract_transf_matrix[1][2] 0.004393 _atom_sites.fract_transf_matrix[1][3] 0.006668 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013363 _atom_sites.fract_transf_matrix[2][3] 0.006724 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.014613 _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 E 2 IMP A 1 501 500 IMP IMP . F 3 8KY A 1 502 501 8KY 225 . G 3 8KY A 1 503 501 8KY 225 . H 2 IMP B 1 500 500 IMP IMP . I 3 8KY B 1 501 501 8KY 225 . J 2 IMP C 1 500 500 IMP IMP . K 3 8KY C 1 501 501 8KY 225 . L 2 IMP D 1 500 500 IMP IMP . M 4 HOH A 1 601 185 HOH HOH . M 4 HOH A 2 602 138 HOH HOH . M 4 HOH A 3 603 144 HOH HOH . M 4 HOH A 4 604 173 HOH HOH . M 4 HOH A 5 605 188 HOH HOH . M 4 HOH A 6 606 187 HOH HOH . M 4 HOH A 7 607 105 HOH HOH . M 4 HOH A 8 608 63 HOH HOH . M 4 HOH A 9 609 9 HOH HOH . M 4 HOH A 10 610 108 HOH HOH . M 4 HOH A 11 611 174 HOH HOH . M 4 HOH A 12 612 153 HOH HOH . M 4 HOH A 13 613 171 HOH HOH . M 4 HOH A 14 614 96 HOH HOH . M 4 HOH A 15 615 197 HOH HOH . M 4 HOH A 16 616 1 HOH HOH . M 4 HOH A 17 617 170 HOH HOH . M 4 HOH A 18 618 60 HOH HOH . M 4 HOH A 19 619 40 HOH HOH . M 4 HOH A 20 620 71 HOH HOH . M 4 HOH A 21 621 10 HOH HOH . M 4 HOH A 22 622 77 HOH HOH . M 4 HOH A 23 623 199 HOH HOH . M 4 HOH A 24 624 59 HOH HOH . M 4 HOH A 25 625 133 HOH HOH . M 4 HOH A 26 626 80 HOH HOH . M 4 HOH A 27 627 118 HOH HOH . M 4 HOH A 28 628 47 HOH HOH . M 4 HOH A 29 629 172 HOH HOH . M 4 HOH A 30 630 177 HOH HOH . M 4 HOH A 31 631 145 HOH HOH . M 4 HOH A 32 632 95 HOH HOH . M 4 HOH A 33 633 117 HOH HOH . M 4 HOH A 34 634 68 HOH HOH . M 4 HOH A 35 635 37 HOH HOH . M 4 HOH A 36 636 104 HOH HOH . M 4 HOH A 37 637 17 HOH HOH . M 4 HOH A 38 638 165 HOH HOH . M 4 HOH A 39 639 180 HOH HOH . M 4 HOH A 40 640 122 HOH HOH . M 4 HOH A 41 641 45 HOH HOH . M 4 HOH A 42 642 39 HOH HOH . M 4 HOH A 43 643 103 HOH HOH . M 4 HOH A 44 644 141 HOH HOH . M 4 HOH A 45 645 5 HOH HOH . M 4 HOH A 46 646 91 HOH HOH . M 4 HOH A 47 647 211 HOH HOH . M 4 HOH A 48 648 79 HOH HOH . M 4 HOH A 49 649 139 HOH HOH . M 4 HOH A 50 650 131 HOH HOH . M 4 HOH A 51 651 154 HOH HOH . M 4 HOH A 52 652 159 HOH HOH . M 4 HOH A 53 653 206 HOH HOH . M 4 HOH A 54 654 200 HOH HOH . M 4 HOH A 55 655 49 HOH HOH . M 4 HOH A 56 656 203 HOH HOH . M 4 HOH A 57 657 31 HOH HOH . N 4 HOH B 1 601 52 HOH HOH . N 4 HOH B 2 602 85 HOH HOH . N 4 HOH B 3 603 134 HOH HOH . N 4 HOH B 4 604 120 HOH HOH . N 4 HOH B 5 605 189 HOH HOH . N 4 HOH B 6 606 135 HOH HOH . N 4 HOH B 7 607 93 HOH HOH . N 4 HOH B 8 608 70 HOH HOH . N 4 HOH B 9 609 92 HOH HOH . N 4 HOH B 10 610 152 HOH HOH . N 4 HOH B 11 611 149 HOH HOH . N 4 HOH B 12 612 69 HOH HOH . N 4 HOH B 13 613 30 HOH HOH . N 4 HOH B 14 614 23 HOH HOH . N 4 HOH B 15 615 212 HOH HOH . N 4 HOH B 16 616 142 HOH HOH . N 4 HOH B 17 617 209 HOH HOH . N 4 HOH B 18 618 191 HOH HOH . N 4 HOH B 19 619 119 HOH HOH . N 4 HOH B 20 620 115 HOH HOH . N 4 HOH B 21 621 136 HOH HOH . N 4 HOH B 22 622 121 HOH HOH . N 4 HOH B 23 623 176 HOH HOH . N 4 HOH B 24 624 51 HOH HOH . N 4 HOH B 25 625 140 HOH HOH . N 4 HOH B 26 626 76 HOH HOH . N 4 HOH B 27 627 46 HOH HOH . N 4 HOH B 28 628 101 HOH HOH . N 4 HOH B 29 629 175 HOH HOH . N 4 HOH B 30 630 62 HOH HOH . N 4 HOH B 31 631 16 HOH HOH . N 4 HOH B 32 632 129 HOH HOH . N 4 HOH B 33 633 26 HOH HOH . N 4 HOH B 34 634 146 HOH HOH . N 4 HOH B 35 635 82 HOH HOH . N 4 HOH B 36 636 86 HOH HOH . N 4 HOH B 37 637 158 HOH HOH . N 4 HOH B 38 638 84 HOH HOH . N 4 HOH B 39 639 184 HOH HOH . N 4 HOH B 40 640 83 HOH HOH . N 4 HOH B 41 641 3 HOH HOH . N 4 HOH B 42 642 36 HOH HOH . N 4 HOH B 43 643 97 HOH HOH . N 4 HOH B 44 644 190 HOH HOH . O 4 HOH C 1 601 137 HOH HOH . O 4 HOH C 2 602 168 HOH HOH . O 4 HOH C 3 603 75 HOH HOH . O 4 HOH C 4 604 88 HOH HOH . O 4 HOH C 5 605 33 HOH HOH . O 4 HOH C 6 606 130 HOH HOH . O 4 HOH C 7 607 19 HOH HOH . O 4 HOH C 8 608 179 HOH HOH . O 4 HOH C 9 609 109 HOH HOH . O 4 HOH C 10 610 72 HOH HOH . O 4 HOH C 11 611 15 HOH HOH . O 4 HOH C 12 612 21 HOH HOH . O 4 HOH C 13 613 181 HOH HOH . O 4 HOH C 14 614 20 HOH HOH . O 4 HOH C 15 615 123 HOH HOH . O 4 HOH C 16 616 12 HOH HOH . O 4 HOH C 17 617 194 HOH HOH . O 4 HOH C 18 618 44 HOH HOH . O 4 HOH C 19 619 210 HOH HOH . O 4 HOH C 20 620 28 HOH HOH . O 4 HOH C 21 621 6 HOH HOH . O 4 HOH C 22 622 182 HOH HOH . O 4 HOH C 23 623 110 HOH HOH . O 4 HOH C 24 624 61 HOH HOH . O 4 HOH C 25 625 116 HOH HOH . O 4 HOH C 26 626 57 HOH HOH . O 4 HOH C 27 627 166 HOH HOH . O 4 HOH C 28 628 148 HOH HOH . O 4 HOH C 29 629 13 HOH HOH . O 4 HOH C 30 630 126 HOH HOH . O 4 HOH C 31 631 178 HOH HOH . O 4 HOH C 32 632 98 HOH HOH . O 4 HOH C 33 633 125 HOH HOH . O 4 HOH C 34 634 156 HOH HOH . O 4 HOH C 35 635 74 HOH HOH . O 4 HOH C 36 636 102 HOH HOH . O 4 HOH C 37 637 34 HOH HOH . O 4 HOH C 38 638 163 HOH HOH . O 4 HOH C 39 639 81 HOH HOH . O 4 HOH C 40 640 53 HOH HOH . O 4 HOH C 41 641 58 HOH HOH . O 4 HOH C 42 642 161 HOH HOH . O 4 HOH C 43 643 106 HOH HOH . O 4 HOH C 44 644 113 HOH HOH . O 4 HOH C 45 645 112 HOH HOH . O 4 HOH C 46 646 66 HOH HOH . O 4 HOH C 47 647 162 HOH HOH . O 4 HOH C 48 648 2 HOH HOH . O 4 HOH C 49 649 183 HOH HOH . O 4 HOH C 50 650 99 HOH HOH . O 4 HOH C 51 651 155 HOH HOH . P 4 HOH D 1 601 114 HOH HOH . P 4 HOH D 2 602 27 HOH HOH . P 4 HOH D 3 603 192 HOH HOH . P 4 HOH D 4 604 38 HOH HOH . P 4 HOH D 5 605 128 HOH HOH . P 4 HOH D 6 606 7 HOH HOH . P 4 HOH D 7 607 14 HOH HOH . P 4 HOH D 8 608 25 HOH HOH . P 4 HOH D 9 609 195 HOH HOH . P 4 HOH D 10 610 143 HOH HOH . P 4 HOH D 11 611 164 HOH HOH . P 4 HOH D 12 612 56 HOH HOH . P 4 HOH D 13 613 202 HOH HOH . P 4 HOH D 14 614 43 HOH HOH . P 4 HOH D 15 615 147 HOH HOH . P 4 HOH D 16 616 48 HOH HOH . P 4 HOH D 17 617 90 HOH HOH . P 4 HOH D 18 618 107 HOH HOH . P 4 HOH D 19 619 65 HOH HOH . P 4 HOH D 20 620 32 HOH HOH . P 4 HOH D 21 621 11 HOH HOH . P 4 HOH D 22 622 208 HOH HOH . P 4 HOH D 23 623 127 HOH HOH . P 4 HOH D 24 624 78 HOH HOH . P 4 HOH D 25 625 198 HOH HOH . P 4 HOH D 26 626 50 HOH HOH . P 4 HOH D 27 627 54 HOH HOH . P 4 HOH D 28 628 29 HOH HOH . P 4 HOH D 29 629 169 HOH HOH . P 4 HOH D 30 630 35 HOH HOH . P 4 HOH D 31 631 207 HOH HOH . P 4 HOH D 32 632 124 HOH HOH . P 4 HOH D 33 633 55 HOH HOH . P 4 HOH D 34 634 94 HOH HOH . P 4 HOH D 35 635 87 HOH HOH . P 4 HOH D 36 636 4 HOH HOH . P 4 HOH D 37 637 150 HOH HOH . P 4 HOH D 38 638 24 HOH HOH . P 4 HOH D 39 639 196 HOH HOH . P 4 HOH D 40 640 67 HOH HOH . P 4 HOH D 41 641 100 HOH HOH . P 4 HOH D 42 642 89 HOH HOH . P 4 HOH D 43 643 132 HOH HOH . P 4 HOH D 44 644 151 HOH HOH . P 4 HOH D 45 645 42 HOH HOH . P 4 HOH D 46 646 18 HOH HOH . P 4 HOH D 47 647 22 HOH HOH . P 4 HOH D 48 648 193 HOH HOH . P 4 HOH D 49 649 73 HOH HOH . P 4 HOH D 50 650 111 HOH HOH . P 4 HOH D 51 651 41 HOH HOH . P 4 HOH D 52 652 204 HOH HOH . P 4 HOH D 53 653 64 HOH HOH . P 4 HOH D 54 654 186 HOH HOH . P 4 HOH D 55 655 8 HOH HOH . P 4 HOH D 56 656 205 HOH HOH . P 4 HOH D 57 657 160 HOH HOH . P 4 HOH D 58 658 167 HOH HOH . P 4 HOH D 59 659 157 HOH HOH . P 4 HOH D 60 660 201 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 P IMP . . . H 2 9.937 14.524 14.918 1 24.81 ? P IMP 500 B 1 HETATM 2 O O1P IMP . . . H 2 9.387 13.554 13.888 1 25.76 ? O1P IMP 500 B 1 HETATM 3 O O2P IMP . . . H 2 10.977 13.92 15.845 1 24.92 ? O2P IMP 500 B 1 HETATM 4 O O3P IMP . . . H 2 8.796 15.107 15.724 1 21.11 ? O3P IMP 500 B 1 HETATM 5 O O5' IMP . . . H 2 10.625 15.693 14.066 1 27.14 ? O5' IMP 500 B 1 HETATM 6 C C5' IMP . . . H 2 11.281 16.808 14.673 1 27.79 ? C5' IMP 500 B 1 HETATM 7 C C4' IMP . . . H 2 12.18 17.502 13.675 1 29.03 ? C4' IMP 500 B 1 HETATM 8 O O4' IMP . . . H 2 11.371 18.118 12.642 1 30.4 ? O4' IMP 500 B 1 HETATM 9 C C3' IMP . . . H 2 13.037 18.646 14.206 1 29.08 ? C3' IMP 500 B 1 HETATM 10 O O3' IMP . . . H 2 14.224 18.193 14.845 1 28.12 ? O3' IMP 500 B 1 HETATM 11 C C2' IMP . . . H 2 13.29 19.503 12.96 1 28.24 ? C2' IMP 500 B 1 HETATM 12 O O2' IMP . . . H 2 14.363 18.978 12.174 1 26.75 ? O2' IMP 500 B 1 HETATM 13 C C1' IMP . . . H 2 11.99 19.301 12.174 1 31.36 ? C1' IMP 500 B 1 HETATM 14 N N9 IMP . . . H 2 11.022 20.413 12.311 1 34.35 ? N9 IMP 500 B 1 HETATM 15 C C8 IMP . . . H 2 10.6 21.073 13.443 1 34.94 ? C8 IMP 500 B 1 HETATM 16 N N7 IMP . . . H 2 9.662 21.991 13.088 1 34.91 ? N7 IMP 500 B 1 HETATM 17 C C5 IMP . . . H 2 9.461 21.918 11.741 1 34.33 ? C5 IMP 500 B 1 HETATM 18 C C6 IMP . . . H 2 8.62 22.612 10.859 1 33.34 ? C6 IMP 500 B 1 HETATM 19 O O6 IMP . . . H 2 7.598 23.171 11.272 1 32.15 ? O6 IMP 500 B 1 HETATM 20 N N1 IMP . . . H 2 8.662 22.29 9.522 1 33.6 ? N1 IMP 500 B 1 HETATM 21 C C2 IMP . . . H 2 9.519 21.305 9.067 1 34.37 ? C2 IMP 500 B 1 HETATM 22 N N3 IMP . . . H 2 10.341 20.619 9.946 1 34.67 ? N3 IMP 500 B 1 HETATM 23 C C4 IMP . . . H 2 10.306 20.921 11.257 1 34.07 ? C4 IMP 500 B 1 # _model_server_stats.io_time_ms 128 _model_server_stats.parse_time_ms 72 _model_server_stats.create_model_time_ms 50 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 23 #