data_5D3Y # _model_server_result.job_id 0wfi9RkDMGUr_S_mZ7C1Ng _model_server_result.datetime_utc '2024-11-26 10:04:13' _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 5d3y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":501}' # _entry.id 5D3Y # _exptl.entry_id 5D3Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 500.075 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description INOSITOL-(1,3,4,5)-TETRAKISPHOSPHATE _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 5D3Y _cell.length_a 59.686 _cell.length_b 72.859 _cell.length_c 77.939 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5D3Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 2 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 # _chem_comp.formula 'C6 H16 O18 P4' _chem_comp.formula_weight 500.075 _chem_comp.id 4IP _chem_comp.mon_nstd_flag . _chem_comp.name INOSITOL-(1,3,4,5)-TETRAKISPHOSPHATE _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 C1 O1 4IP sing 1 n n C1 C2 4IP sing 2 n n C1 C6 4IP sing 3 n n C1 H1 4IP sing 4 n n O1 P1 4IP sing 5 n n C2 O2 4IP sing 6 n n C2 C3 4IP sing 7 n n C2 H2 4IP sing 8 n n O2 HO2 4IP sing 9 n n C3 O3 4IP sing 10 n n C3 C4 4IP sing 11 n n C3 H3 4IP sing 12 n n O3 P3 4IP sing 13 n n C4 O4 4IP sing 14 n n C4 C5 4IP sing 15 n n C4 H4 4IP sing 16 n n O4 P4 4IP sing 17 n n C5 O5 4IP sing 18 n n C5 C6 4IP sing 19 n n C5 H5 4IP sing 20 n n O5 P5 4IP sing 21 n n C6 O6 4IP sing 22 n n C6 H6 4IP sing 23 n n O6 HO6 4IP sing 24 n n P1 O1P 4IP doub 25 n n P1 O2P 4IP sing 26 n n P1 O3P 4IP sing 27 n n O2P HO2P 4IP sing 28 n n O3P HO3P 4IP sing 29 n n P3 O4P 4IP doub 30 n n P3 O5P 4IP sing 31 n n P3 O6P 4IP sing 32 n n O5P HO5P 4IP sing 33 n n O6P HO6P 4IP sing 34 n n P4 O7P 4IP sing 35 n n P4 O8P 4IP sing 36 n n P4 O9P 4IP doub 37 n n O7P HO7P 4IP sing 38 n n O8P HO8P 4IP sing 39 n n P5 OPF 4IP sing 40 n n P5 OPG 4IP doub 41 n n P5 OPH 4IP sing 42 n n OPF HOP1 4IP sing 43 n n OPH HOP3 4IP sing 44 n n # _atom_sites.entry_id 5D3Y _atom_sites.fract_transf_matrix[1][1] 0.016754 _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] 0.013725 _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] 0.012831 _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 4IP A 1 501 2 4IP 4IP . D 2 4IP B 1 501 1 4IP 4IP . E 3 HOH A 1 601 93 HOH HOH . E 3 HOH A 2 602 246 HOH HOH . E 3 HOH A 3 603 216 HOH HOH . E 3 HOH A 4 604 73 HOH HOH . E 3 HOH A 5 605 61 HOH HOH . E 3 HOH A 6 606 186 HOH HOH . E 3 HOH A 7 607 227 HOH HOH . E 3 HOH A 8 608 124 HOH HOH . E 3 HOH A 9 609 57 HOH HOH . E 3 HOH A 10 610 200 HOH HOH . E 3 HOH A 11 611 150 HOH HOH . E 3 HOH A 12 612 38 HOH HOH . E 3 HOH A 13 613 103 HOH HOH . E 3 HOH A 14 614 230 HOH HOH . E 3 HOH A 15 615 126 HOH HOH . E 3 HOH A 16 616 203 HOH HOH . E 3 HOH A 17 617 149 HOH HOH . E 3 HOH A 18 618 21 HOH HOH . E 3 HOH A 19 619 233 HOH HOH . E 3 HOH A 20 620 94 HOH HOH . E 3 HOH A 21 621 17 HOH HOH . E 3 HOH A 22 622 138 HOH HOH . E 3 HOH A 23 623 11 HOH HOH . E 3 HOH A 24 624 78 HOH HOH . E 3 HOH A 25 625 70 HOH HOH . E 3 HOH A 26 626 50 HOH HOH . E 3 HOH A 27 627 139 HOH HOH . E 3 HOH A 28 628 47 HOH HOH . E 3 HOH A 29 629 2 HOH HOH . E 3 HOH A 30 630 101 HOH HOH . E 3 HOH A 31 631 51 HOH HOH . E 3 HOH A 32 632 31 HOH HOH . E 3 HOH A 33 633 115 HOH HOH . E 3 HOH A 34 634 100 HOH HOH . E 3 HOH A 35 635 201 HOH HOH . E 3 HOH A 36 636 30 HOH HOH . E 3 HOH A 37 637 182 HOH HOH . E 3 HOH A 38 638 210 HOH HOH . E 3 HOH A 39 639 6 HOH HOH . E 3 HOH A 40 640 120 HOH HOH . E 3 HOH A 41 641 71 HOH HOH . E 3 HOH A 42 642 91 HOH HOH . E 3 HOH A 43 643 161 HOH HOH . E 3 HOH A 44 644 86 HOH HOH . E 3 HOH A 45 645 179 HOH HOH . E 3 HOH A 46 646 33 HOH HOH . E 3 HOH A 47 647 72 HOH HOH . E 3 HOH A 48 648 165 HOH HOH . E 3 HOH A 49 649 54 HOH HOH . E 3 HOH A 50 650 4 HOH HOH . E 3 HOH A 51 651 133 HOH HOH . E 3 HOH A 52 652 144 HOH HOH . E 3 HOH A 53 653 170 HOH HOH . E 3 HOH A 54 654 166 HOH HOH . E 3 HOH A 55 655 32 HOH HOH . E 3 HOH A 56 656 68 HOH HOH . E 3 HOH A 57 657 99 HOH HOH . E 3 HOH A 58 658 7 HOH HOH . E 3 HOH A 59 659 16 HOH HOH . E 3 HOH A 60 660 89 HOH HOH . E 3 HOH A 61 661 45 HOH HOH . E 3 HOH A 62 662 49 HOH HOH . E 3 HOH A 63 663 164 HOH HOH . E 3 HOH A 64 664 55 HOH HOH . E 3 HOH A 65 665 5 HOH HOH . E 3 HOH A 66 666 157 HOH HOH . E 3 HOH A 67 667 92 HOH HOH . E 3 HOH A 68 668 25 HOH HOH . E 3 HOH A 69 669 235 HOH HOH . E 3 HOH A 70 670 127 HOH HOH . E 3 HOH A 71 671 8 HOH HOH . E 3 HOH A 72 672 88 HOH HOH . E 3 HOH A 73 673 121 HOH HOH . E 3 HOH A 74 674 20 HOH HOH . E 3 HOH A 75 675 1 HOH HOH . E 3 HOH A 76 676 162 HOH HOH . E 3 HOH A 77 677 217 HOH HOH . E 3 HOH A 78 678 53 HOH HOH . E 3 HOH A 79 679 191 HOH HOH . E 3 HOH A 80 680 41 HOH HOH . E 3 HOH A 81 681 113 HOH HOH . E 3 HOH A 82 682 131 HOH HOH . E 3 HOH A 83 683 141 HOH HOH . E 3 HOH A 84 684 104 HOH HOH . E 3 HOH A 85 685 180 HOH HOH . E 3 HOH A 86 686 160 HOH HOH . E 3 HOH A 87 687 82 HOH HOH . E 3 HOH A 88 688 142 HOH HOH . E 3 HOH A 89 689 116 HOH HOH . E 3 HOH A 90 690 60 HOH HOH . E 3 HOH A 91 691 42 HOH HOH . E 3 HOH A 92 692 145 HOH HOH . E 3 HOH A 93 693 196 HOH HOH . E 3 HOH A 94 694 159 HOH HOH . E 3 HOH A 95 695 112 HOH HOH . E 3 HOH A 96 696 192 HOH HOH . E 3 HOH A 97 697 95 HOH HOH . E 3 HOH A 98 698 199 HOH HOH . E 3 HOH A 99 699 212 HOH HOH . E 3 HOH A 100 700 84 HOH HOH . E 3 HOH A 101 701 135 HOH HOH . E 3 HOH A 102 702 173 HOH HOH . E 3 HOH A 103 703 137 HOH HOH . E 3 HOH A 104 704 154 HOH HOH . E 3 HOH A 105 705 106 HOH HOH . E 3 HOH A 106 706 66 HOH HOH . E 3 HOH A 107 707 143 HOH HOH . E 3 HOH A 108 708 215 HOH HOH . E 3 HOH A 109 709 62 HOH HOH . E 3 HOH A 110 710 206 HOH HOH . E 3 HOH A 111 711 128 HOH HOH . E 3 HOH A 112 712 242 HOH HOH . E 3 HOH A 113 713 195 HOH HOH . E 3 HOH A 114 714 237 HOH HOH . E 3 HOH A 115 715 74 HOH HOH . E 3 HOH A 116 716 183 HOH HOH . E 3 HOH A 117 717 156 HOH HOH . E 3 HOH A 118 718 168 HOH HOH . E 3 HOH A 119 719 169 HOH HOH . E 3 HOH A 120 720 35 HOH HOH . E 3 HOH A 121 721 167 HOH HOH . E 3 HOH A 122 722 220 HOH HOH . E 3 HOH A 123 723 172 HOH HOH . E 3 HOH A 124 724 236 HOH HOH . E 3 HOH A 125 725 240 HOH HOH . F 3 HOH B 1 601 213 HOH HOH . F 3 HOH B 2 602 247 HOH HOH . F 3 HOH B 3 603 231 HOH HOH . F 3 HOH B 4 604 208 HOH HOH . F 3 HOH B 5 605 194 HOH HOH . F 3 HOH B 6 606 136 HOH HOH . F 3 HOH B 7 607 39 HOH HOH . F 3 HOH B 8 608 228 HOH HOH . F 3 HOH B 9 609 188 HOH HOH . F 3 HOH B 10 610 219 HOH HOH . F 3 HOH B 11 611 9 HOH HOH . F 3 HOH B 12 612 28 HOH HOH . F 3 HOH B 13 613 18 HOH HOH . F 3 HOH B 14 614 52 HOH HOH . F 3 HOH B 15 615 190 HOH HOH . F 3 HOH B 16 616 177 HOH HOH . F 3 HOH B 17 617 129 HOH HOH . F 3 HOH B 18 618 197 HOH HOH . F 3 HOH B 19 619 232 HOH HOH . F 3 HOH B 20 620 123 HOH HOH . F 3 HOH B 21 621 187 HOH HOH . F 3 HOH B 22 622 238 HOH HOH . F 3 HOH B 23 623 204 HOH HOH . F 3 HOH B 24 624 146 HOH HOH . F 3 HOH B 25 625 174 HOH HOH . F 3 HOH B 26 626 163 HOH HOH . F 3 HOH B 27 627 43 HOH HOH . F 3 HOH B 28 628 23 HOH HOH . F 3 HOH B 29 629 176 HOH HOH . F 3 HOH B 30 630 67 HOH HOH . F 3 HOH B 31 631 152 HOH HOH . F 3 HOH B 32 632 97 HOH HOH . F 3 HOH B 33 633 211 HOH HOH . F 3 HOH B 34 634 184 HOH HOH . F 3 HOH B 35 635 205 HOH HOH . F 3 HOH B 36 636 225 HOH HOH . F 3 HOH B 37 637 80 HOH HOH . F 3 HOH B 38 638 107 HOH HOH . F 3 HOH B 39 639 46 HOH HOH . F 3 HOH B 40 640 175 HOH HOH . F 3 HOH B 41 641 36 HOH HOH . F 3 HOH B 42 642 119 HOH HOH . F 3 HOH B 43 643 134 HOH HOH . F 3 HOH B 44 644 79 HOH HOH . F 3 HOH B 45 645 125 HOH HOH . F 3 HOH B 46 646 19 HOH HOH . F 3 HOH B 47 647 24 HOH HOH . F 3 HOH B 48 648 153 HOH HOH . F 3 HOH B 49 649 76 HOH HOH . F 3 HOH B 50 650 40 HOH HOH . F 3 HOH B 51 651 140 HOH HOH . F 3 HOH B 52 652 13 HOH HOH . F 3 HOH B 53 653 209 HOH HOH . F 3 HOH B 54 654 14 HOH HOH . F 3 HOH B 55 655 29 HOH HOH . F 3 HOH B 56 656 3 HOH HOH . F 3 HOH B 57 657 181 HOH HOH . F 3 HOH B 58 658 58 HOH HOH . F 3 HOH B 59 659 214 HOH HOH . F 3 HOH B 60 660 34 HOH HOH . F 3 HOH B 61 661 65 HOH HOH . F 3 HOH B 62 662 114 HOH HOH . F 3 HOH B 63 663 64 HOH HOH . F 3 HOH B 64 664 12 HOH HOH . F 3 HOH B 65 665 151 HOH HOH . F 3 HOH B 66 666 44 HOH HOH . F 3 HOH B 67 667 147 HOH HOH . F 3 HOH B 68 668 37 HOH HOH . F 3 HOH B 69 669 59 HOH HOH . F 3 HOH B 70 670 105 HOH HOH . F 3 HOH B 71 671 96 HOH HOH . F 3 HOH B 72 672 69 HOH HOH . F 3 HOH B 73 673 27 HOH HOH . F 3 HOH B 74 674 85 HOH HOH . F 3 HOH B 75 675 117 HOH HOH . F 3 HOH B 76 676 26 HOH HOH . F 3 HOH B 77 677 15 HOH HOH . F 3 HOH B 78 678 111 HOH HOH . F 3 HOH B 79 679 102 HOH HOH . F 3 HOH B 80 680 22 HOH HOH . F 3 HOH B 81 681 244 HOH HOH . F 3 HOH B 82 682 185 HOH HOH . F 3 HOH B 83 683 221 HOH HOH . F 3 HOH B 84 684 158 HOH HOH . F 3 HOH B 85 685 108 HOH HOH . F 3 HOH B 86 686 56 HOH HOH . F 3 HOH B 87 687 155 HOH HOH . F 3 HOH B 88 688 87 HOH HOH . F 3 HOH B 89 689 90 HOH HOH . F 3 HOH B 90 690 207 HOH HOH . F 3 HOH B 91 691 10 HOH HOH . F 3 HOH B 92 692 148 HOH HOH . F 3 HOH B 93 693 218 HOH HOH . F 3 HOH B 94 694 189 HOH HOH . F 3 HOH B 95 695 77 HOH HOH . F 3 HOH B 96 696 223 HOH HOH . F 3 HOH B 97 697 81 HOH HOH . F 3 HOH B 98 698 83 HOH HOH . F 3 HOH B 99 699 109 HOH HOH . F 3 HOH B 100 700 118 HOH HOH . F 3 HOH B 101 701 130 HOH HOH . F 3 HOH B 102 702 110 HOH HOH . F 3 HOH B 103 703 63 HOH HOH . F 3 HOH B 104 704 222 HOH HOH . F 3 HOH B 105 705 226 HOH HOH . F 3 HOH B 106 706 132 HOH HOH . F 3 HOH B 107 707 241 HOH HOH . F 3 HOH B 108 708 193 HOH HOH . F 3 HOH B 109 709 98 HOH HOH . F 3 HOH B 110 710 198 HOH HOH . F 3 HOH B 111 711 243 HOH HOH . F 3 HOH B 112 712 178 HOH HOH . F 3 HOH B 113 713 234 HOH HOH . F 3 HOH B 114 714 171 HOH HOH . F 3 HOH B 115 715 75 HOH HOH . F 3 HOH B 116 716 48 HOH HOH . F 3 HOH B 117 717 122 HOH HOH . F 3 HOH B 118 718 229 HOH HOH . F 3 HOH B 119 719 245 HOH HOH . F 3 HOH B 120 720 239 HOH HOH . F 3 HOH B 121 721 224 HOH HOH . F 3 HOH B 122 722 202 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 C C1 4IP . . . D 2 14.308 32.488 44.786 1 14.86 ? C1 4IP 501 B 1 HETATM 2 O O1 4IP . . . D 2 13.746 33.719 44.34 1 13.5 ? O1 4IP 501 B 1 HETATM 3 C C2 4IP . . . D 2 15.725 32.262 44.251 1 10.49 ? C2 4IP 501 B 1 HETATM 4 O O2 4IP . . . D 2 15.636 32.06 42.866 1 8.29 ? O2 4IP 501 B 1 HETATM 5 C C3 4IP . . . D 2 16.403 31.041 44.908 1 12.76 ? C3 4IP 501 B 1 HETATM 6 O O3 4IP . . . D 2 17.625 30.699 44.275 1 10.73 ? O3 4IP 501 B 1 HETATM 7 C C4 4IP . . . D 2 15.457 29.871 45.264 1 14.04 ? C4 4IP 501 B 1 HETATM 8 O O4 4IP . . . D 2 15.816 28.469 45.307 1 13.69 ? O4 4IP 501 B 1 HETATM 9 C C5 4IP . . . D 2 13.93 30.038 45.041 1 13.58 ? C5 4IP 501 B 1 HETATM 10 O O5 4IP . . . D 2 13.257 28.916 44.51 1 15.02 ? O5 4IP 501 B 1 HETATM 11 C C6 4IP . . . D 2 13.37 31.327 44.457 1 16.68 ? C6 4IP 501 B 1 HETATM 12 O O6 4IP . . . D 2 12.104 31.497 45.109 1 14.19 ? O6 4IP 501 B 1 HETATM 13 P P1 4IP . . . D 2 14.139 35.025 45.183 1 21.76 ? P1 4IP 501 B 1 HETATM 14 O O1P 4IP . . . D 2 13.473 36.213 44.55 1 23.19 ? O1P 4IP 501 B 1 HETATM 15 O O2P 4IP . . . D 2 15.655 35.248 45.218 1 23.14 ? O2P 4IP 501 B 1 HETATM 16 O O3P 4IP . . . D 2 13.723 34.874 46.624 1 20.13 ? O3P 4IP 501 B 1 HETATM 17 P P3 4IP . . . D 2 18.911 30.813 45.182 1 10.89 ? P3 4IP 501 B 1 HETATM 18 O O4P 4IP . . . D 2 20.099 30.485 44.302 1 11.41 ? O4P 4IP 501 B 1 HETATM 19 O O5P 4IP . . . D 2 18.8 29.712 46.23 1 6.82 ? O5P 4IP 501 B 1 HETATM 20 O O6P 4IP . . . D 2 19.041 32.156 45.826 1 8.77 ? O6P 4IP 501 B 1 HETATM 21 P P4 4IP . . . D 2 16.782 27.402 44.629 1 10.68 ? P4 4IP 501 B 1 HETATM 22 O O7P 4IP . . . D 2 16.024 26.122 44.851 1 12.98 ? O7P 4IP 501 B 1 HETATM 23 O O8P 4IP . . . D 2 18.072 27.388 45.381 1 7.47 ? O8P 4IP 501 B 1 HETATM 24 O O9P 4IP . . . D 2 16.992 27.693 43.167 1 9 ? O9P 4IP 501 B 1 HETATM 25 P P5 4IP . . . D 2 12.154 28.272 45.473 1 20.47 ? P5 4IP 501 B 1 HETATM 26 O OPF 4IP . . . D 2 11.03 29.276 45.642 1 25.99 ? OPF 4IP 501 B 1 HETATM 27 O OPG 4IP . . . D 2 11.732 26.945 44.898 1 24.88 ? OPG 4IP 501 B 1 HETATM 28 O OPH 4IP . . . D 2 12.703 28.041 46.853 1 16.82 ? OPH 4IP 501 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 445 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 28 #