data_5DL7 # _model_server_result.job_id 4WvchPzia-xmY1dOYLXSFQ _model_server_result.datetime_utc '2024-11-23 08:44:56' _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 5dl7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 5DL7 # _exptl.entry_id 5DL7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _entity.pdbx_number_of_molecules 4 _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 5DL7 _cell.length_a 81.563 _cell.length_b 125.717 _cell.length_c 137.459 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DL7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details 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 _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 B N N ? 2 C N N ? 2 D N N ? 2 E 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 metalc ? metalc1 A OD1 ASP 35 A ASP 20 1_555 D CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? metalc ? metalc2 A O TYR 36 A TYR 21 1_555 D CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc3 A OD1 ASP 39 A ASP 24 1_555 D CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc4 A O THR 44 A THR 29 1_555 D CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? metalc ? metalc5 A OG1 THR 44 A THR 29 1_555 D CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.633 ? metalc ? metalc6 A OD1 ASN 97 A ASN 82 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc7 A O ARG 102 A ARG 87 1_555 E CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? metalc ? metalc8 A OD1 ASP 103 A ASP 88 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.656 ? metalc ? metalc9 A OD2 ASP 103 A ASP 88 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.583 ? metalc ? metalc10 A OD1 ASP 104 A ASP 89 1_555 E CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.647 ? metalc ? metalc11 A OD2 ASP 104 A ASP 89 1_555 E CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.71 ? metalc ? metalc12 A OE1 GLU 253 A GLU 238 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.506 ? metalc ? metalc13 A OE2 GLU 253 A GLU 238 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.536 ? metalc ? metalc14 A OE1 GLU 261 A GLU 246 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.52 ? metalc ? metalc15 A OE2 GLU 261 A GLU 246 1_555 B CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.437 ? metalc ? metalc16 B CA CA . A CA 501 1_555 M O HOH . A HOH 646 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc17 B CA CA . A CA 501 1_555 M O HOH . A HOH 667 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc18 B CA CA . A CA 501 1_555 M O HOH . A HOH 784 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? metalc ? metalc19 B CA CA . A CA 501 1_555 M O HOH . A HOH 792 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc20 C CA CA . A CA 502 1_555 M O HOH . A HOH 763 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? metalc ? metalc21 D CA CA . A CA 503 1_555 M O HOH . A HOH 683 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc22 E CA CA . A CA 504 1_555 M O HOH . A HOH 624 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc23 E CA CA . A CA 504 1_555 M O HOH . A HOH 727 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.197 ? # _chem_comp.formula 'Ca 2' _chem_comp.formula_weight 40.078 _chem_comp.id CA _chem_comp.mon_nstd_flag . _chem_comp.name 'CALCIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5DL7 _atom_sites.fract_transf_matrix[1][1] 0.01226 _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] 0.007954 _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] 0.007275 _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 CA A 1 501 1 CA CA . C 2 CA A 1 502 2 CA CA . D 2 CA A 1 503 3 CA CA . E 2 CA A 1 504 4 CA CA . F 3 C8E A 1 505 1 C8E C8E . G 3 C8E A 1 506 2 C8E C8E . H 3 C8E A 1 507 3 C8E C8E . I 3 C8E A 1 508 4 C8E C8E . J 3 C8E A 1 509 5 C8E C8E . K 3 C8E A 1 510 6 C8E C8E . L 3 C8E A 1 511 7 C8E C8E . M 4 HOH A 1 601 14 HOH HOH . M 4 HOH A 2 602 23 HOH HOH . M 4 HOH A 3 603 155 HOH HOH . M 4 HOH A 4 604 25 HOH HOH . M 4 HOH A 5 605 160 HOH HOH . M 4 HOH A 6 606 104 HOH HOH . M 4 HOH A 7 607 232 HOH HOH . M 4 HOH A 8 608 184 HOH HOH . M 4 HOH A 9 609 60 HOH HOH . M 4 HOH A 10 610 226 HOH HOH . M 4 HOH A 11 611 158 HOH HOH . M 4 HOH A 12 612 231 HOH HOH . M 4 HOH A 13 613 44 HOH HOH . M 4 HOH A 14 614 211 HOH HOH . M 4 HOH A 15 615 87 HOH HOH . M 4 HOH A 16 616 49 HOH HOH . M 4 HOH A 17 617 8 HOH HOH . M 4 HOH A 18 618 134 HOH HOH . M 4 HOH A 19 619 143 HOH HOH . M 4 HOH A 20 620 103 HOH HOH . M 4 HOH A 21 621 215 HOH HOH . M 4 HOH A 22 622 50 HOH HOH . M 4 HOH A 23 623 29 HOH HOH . M 4 HOH A 24 624 217 HOH HOH . M 4 HOH A 25 625 107 HOH HOH . M 4 HOH A 26 626 126 HOH HOH . M 4 HOH A 27 627 70 HOH HOH . M 4 HOH A 28 628 59 HOH HOH . M 4 HOH A 29 629 82 HOH HOH . M 4 HOH A 30 630 52 HOH HOH . M 4 HOH A 31 631 224 HOH HOH . M 4 HOH A 32 632 81 HOH HOH . M 4 HOH A 33 633 2 HOH HOH . M 4 HOH A 34 634 5 HOH HOH . M 4 HOH A 35 635 78 HOH HOH . M 4 HOH A 36 636 100 HOH HOH . M 4 HOH A 37 637 21 HOH HOH . M 4 HOH A 38 638 66 HOH HOH . M 4 HOH A 39 639 186 HOH HOH . M 4 HOH A 40 640 178 HOH HOH . M 4 HOH A 41 641 63 HOH HOH . M 4 HOH A 42 642 167 HOH HOH . M 4 HOH A 43 643 73 HOH HOH . M 4 HOH A 44 644 9 HOH HOH . M 4 HOH A 45 645 84 HOH HOH . M 4 HOH A 46 646 207 HOH HOH . M 4 HOH A 47 647 42 HOH HOH . M 4 HOH A 48 648 67 HOH HOH . M 4 HOH A 49 649 38 HOH HOH . M 4 HOH A 50 650 191 HOH HOH . M 4 HOH A 51 651 214 HOH HOH . M 4 HOH A 52 652 118 HOH HOH . M 4 HOH A 53 653 111 HOH HOH . M 4 HOH A 54 654 1 HOH HOH . M 4 HOH A 55 655 219 HOH HOH . M 4 HOH A 56 656 3 HOH HOH . M 4 HOH A 57 657 132 HOH HOH . M 4 HOH A 58 658 190 HOH HOH . M 4 HOH A 59 659 69 HOH HOH . M 4 HOH A 60 660 16 HOH HOH . M 4 HOH A 61 661 39 HOH HOH . M 4 HOH A 62 662 128 HOH HOH . M 4 HOH A 63 663 28 HOH HOH . M 4 HOH A 64 664 85 HOH HOH . M 4 HOH A 65 665 15 HOH HOH . M 4 HOH A 66 666 122 HOH HOH . M 4 HOH A 67 667 208 HOH HOH . M 4 HOH A 68 668 124 HOH HOH . M 4 HOH A 69 669 94 HOH HOH . M 4 HOH A 70 670 222 HOH HOH . M 4 HOH A 71 671 112 HOH HOH . M 4 HOH A 72 672 233 HOH HOH . M 4 HOH A 73 673 48 HOH HOH . M 4 HOH A 74 674 176 HOH HOH . M 4 HOH A 75 675 101 HOH HOH . M 4 HOH A 76 676 165 HOH HOH . M 4 HOH A 77 677 45 HOH HOH . M 4 HOH A 78 678 86 HOH HOH . M 4 HOH A 79 679 30 HOH HOH . M 4 HOH A 80 680 4 HOH HOH . M 4 HOH A 81 681 127 HOH HOH . M 4 HOH A 82 682 11 HOH HOH . M 4 HOH A 83 683 212 HOH HOH . M 4 HOH A 84 684 209 HOH HOH . M 4 HOH A 85 685 27 HOH HOH . M 4 HOH A 86 686 34 HOH HOH . M 4 HOH A 87 687 55 HOH HOH . M 4 HOH A 88 688 91 HOH HOH . M 4 HOH A 89 689 221 HOH HOH . M 4 HOH A 90 690 79 HOH HOH . M 4 HOH A 91 691 80 HOH HOH . M 4 HOH A 92 692 41 HOH HOH . M 4 HOH A 93 693 98 HOH HOH . M 4 HOH A 94 694 47 HOH HOH . M 4 HOH A 95 695 138 HOH HOH . M 4 HOH A 96 696 19 HOH HOH . M 4 HOH A 97 697 172 HOH HOH . M 4 HOH A 98 698 56 HOH HOH . M 4 HOH A 99 699 88 HOH HOH . M 4 HOH A 100 700 121 HOH HOH . M 4 HOH A 101 701 77 HOH HOH . M 4 HOH A 102 702 65 HOH HOH . M 4 HOH A 103 703 12 HOH HOH . M 4 HOH A 104 704 32 HOH HOH . M 4 HOH A 105 705 168 HOH HOH . M 4 HOH A 106 706 201 HOH HOH . M 4 HOH A 107 707 229 HOH HOH . M 4 HOH A 108 708 13 HOH HOH . M 4 HOH A 109 709 6 HOH HOH . M 4 HOH A 110 710 20 HOH HOH . M 4 HOH A 111 711 93 HOH HOH . M 4 HOH A 112 712 18 HOH HOH . M 4 HOH A 113 713 43 HOH HOH . M 4 HOH A 114 714 210 HOH HOH . M 4 HOH A 115 715 130 HOH HOH . M 4 HOH A 116 716 148 HOH HOH . M 4 HOH A 117 717 72 HOH HOH . M 4 HOH A 118 718 24 HOH HOH . M 4 HOH A 119 719 57 HOH HOH . M 4 HOH A 120 720 40 HOH HOH . M 4 HOH A 121 721 68 HOH HOH . M 4 HOH A 122 722 31 HOH HOH . M 4 HOH A 123 723 196 HOH HOH . M 4 HOH A 124 724 139 HOH HOH . M 4 HOH A 125 725 95 HOH HOH . M 4 HOH A 126 726 142 HOH HOH . M 4 HOH A 127 727 218 HOH HOH . M 4 HOH A 128 728 227 HOH HOH . M 4 HOH A 129 729 129 HOH HOH . M 4 HOH A 130 730 62 HOH HOH . M 4 HOH A 131 731 83 HOH HOH . M 4 HOH A 132 732 125 HOH HOH . M 4 HOH A 133 733 223 HOH HOH . M 4 HOH A 134 734 35 HOH HOH . M 4 HOH A 135 735 92 HOH HOH . M 4 HOH A 136 736 152 HOH HOH . M 4 HOH A 137 737 10 HOH HOH . M 4 HOH A 138 738 58 HOH HOH . M 4 HOH A 139 739 154 HOH HOH . M 4 HOH A 140 740 113 HOH HOH . M 4 HOH A 141 741 102 HOH HOH . M 4 HOH A 142 742 46 HOH HOH . M 4 HOH A 143 743 153 HOH HOH . M 4 HOH A 144 744 51 HOH HOH . M 4 HOH A 145 745 141 HOH HOH . M 4 HOH A 146 746 53 HOH HOH . M 4 HOH A 147 747 26 HOH HOH . M 4 HOH A 148 748 220 HOH HOH . M 4 HOH A 149 749 195 HOH HOH . M 4 HOH A 150 750 76 HOH HOH . M 4 HOH A 151 751 36 HOH HOH . M 4 HOH A 152 752 157 HOH HOH . M 4 HOH A 153 753 171 HOH HOH . M 4 HOH A 154 754 115 HOH HOH . M 4 HOH A 155 755 179 HOH HOH . M 4 HOH A 156 756 147 HOH HOH . M 4 HOH A 157 757 225 HOH HOH . M 4 HOH A 158 758 74 HOH HOH . M 4 HOH A 159 759 110 HOH HOH . M 4 HOH A 160 760 146 HOH HOH . M 4 HOH A 161 761 135 HOH HOH . M 4 HOH A 162 762 99 HOH HOH . M 4 HOH A 163 763 216 HOH HOH . M 4 HOH A 164 764 105 HOH HOH . M 4 HOH A 165 765 89 HOH HOH . M 4 HOH A 166 766 33 HOH HOH . M 4 HOH A 167 767 75 HOH HOH . M 4 HOH A 168 768 90 HOH HOH . M 4 HOH A 169 769 64 HOH HOH . M 4 HOH A 170 770 17 HOH HOH . M 4 HOH A 171 771 156 HOH HOH . M 4 HOH A 172 772 7 HOH HOH . M 4 HOH A 173 773 120 HOH HOH . M 4 HOH A 174 774 166 HOH HOH . M 4 HOH A 175 775 106 HOH HOH . M 4 HOH A 176 776 117 HOH HOH . M 4 HOH A 177 777 162 HOH HOH . M 4 HOH A 178 778 114 HOH HOH . M 4 HOH A 179 779 116 HOH HOH . M 4 HOH A 180 780 175 HOH HOH . M 4 HOH A 181 781 22 HOH HOH . M 4 HOH A 182 782 140 HOH HOH . M 4 HOH A 183 783 54 HOH HOH . M 4 HOH A 184 784 213 HOH HOH . M 4 HOH A 185 785 185 HOH HOH . M 4 HOH A 186 786 193 HOH HOH . M 4 HOH A 187 787 131 HOH HOH . M 4 HOH A 188 788 37 HOH HOH . M 4 HOH A 189 789 230 HOH HOH . M 4 HOH A 190 790 177 HOH HOH . M 4 HOH A 191 791 137 HOH HOH . M 4 HOH A 192 792 206 HOH HOH . M 4 HOH A 193 793 61 HOH HOH . M 4 HOH A 194 794 161 HOH HOH . M 4 HOH A 195 795 108 HOH HOH . M 4 HOH A 196 796 169 HOH HOH . M 4 HOH A 197 797 145 HOH HOH . M 4 HOH A 198 798 202 HOH HOH . M 4 HOH A 199 799 189 HOH HOH . M 4 HOH A 200 800 164 HOH HOH . M 4 HOH A 201 801 228 HOH HOH . M 4 HOH A 202 802 234 HOH HOH . M 4 HOH A 203 803 159 HOH HOH . M 4 HOH A 204 804 123 HOH HOH . M 4 HOH A 205 805 205 HOH HOH . M 4 HOH A 206 806 180 HOH HOH . M 4 HOH A 207 807 151 HOH HOH . M 4 HOH A 208 808 163 HOH HOH . M 4 HOH A 209 809 136 HOH HOH . M 4 HOH A 210 810 174 HOH HOH . M 4 HOH A 211 811 133 HOH HOH . M 4 HOH A 212 812 109 HOH HOH . M 4 HOH A 213 813 183 HOH HOH . M 4 HOH A 214 814 203 HOH HOH . M 4 HOH A 215 815 182 HOH HOH . M 4 HOH A 216 816 204 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CA _atom_site.label_atom_id CA _atom_site.label_comp_id CA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 2 _atom_site.Cartn_x -24.743 _atom_site.Cartn_y -50.62 _atom_site.Cartn_z -21.509 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 35.59 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 503 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #