data_3WHD # _model_server_result.job_id QgoCq1iYNzwnStxENFZwlA _model_server_result.datetime_utc '2024-12-21 14:21:53' _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 3whd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":501}' # _entry.id 3WHD # _exptl.entry_id 3WHD _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 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 3WHD _cell.length_a 85.19 _cell.length_b 96.056 _cell.length_c 104.826 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3WHD _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 PISA dimeric 2 software_defined_assembly 3 # 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 A,B,C,D,E,F 3 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 # 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 disulf ? disulf1 A SG CYS 7 A CYS 66 1_555 A SG CYS 24 A CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf2 A SG CYS 25 A CYS 84 1_555 A SG CYS 36 A CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf3 A SG CYS 53 A CYS 112 1_555 A SG CYS 148 A CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf4 A SG CYS 123 A CYS 182 1_555 A SG CYS 140 A CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf5 B SG CYS 7 C CYS 66 1_555 B SG CYS 24 C CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? disulf ? disulf6 B SG CYS 25 C CYS 84 1_555 B SG CYS 36 C CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf7 B SG CYS 53 C CYS 112 1_555 B SG CYS 148 C CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? disulf ? disulf8 B SG CYS 123 C CYS 182 1_555 B SG CYS 140 C CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc1 A OE1 GLU 114 A GLU 173 1_555 C CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? metalc ? metalc2 A OD1 ASP 116 A ASP 175 1_555 C CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? metalc ? metalc3 A OD1 ASN 136 A ASN 195 1_555 C CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? metalc ? metalc4 A OD1 ASP 137 A ASP 196 1_555 C CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? metalc ? metalc5 A O ASP 137 A ASP 196 1_555 C CA CA . A CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.491 ? metalc ? metalc6 C CA CA . A CA 501 1_555 E O HOH . A HOH 680 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? metalc ? metalc7 C CA CA . A CA 501 1_555 E O HOH . A HOH 687 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc8 B OE1 GLU 114 C GLU 173 1_555 D CA CA . C CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc9 B OD1 ASP 116 C ASP 175 1_555 D CA CA . C CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? metalc ? metalc10 B OD1 ASN 136 C ASN 195 1_555 D CA CA . C CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.446 ? metalc ? metalc11 B O ASP 137 C ASP 196 1_555 D CA CA . C CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc12 B OD1 ASP 137 C ASP 196 1_555 D CA CA . C CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc13 D CA CA . C CA 501 1_555 F O HOH . C HOH 624 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.436 ? metalc ? metalc14 D CA CA . C CA 501 1_555 F O HOH . C HOH 693 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? # _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 3WHD _atom_sites.fract_transf_matrix[1][1] 0.011738 _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] 0.010411 _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] 0.00954 _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 CA A 1 501 501 CA CA . D 2 CA C 1 501 501 CA CA . E 3 HOH A 1 601 3 HOH HOH . E 3 HOH A 2 602 5 HOH HOH . E 3 HOH A 3 603 7 HOH HOH . E 3 HOH A 4 604 12 HOH HOH . E 3 HOH A 5 605 16 HOH HOH . E 3 HOH A 6 606 17 HOH HOH . E 3 HOH A 7 607 21 HOH HOH . E 3 HOH A 8 608 22 HOH HOH . E 3 HOH A 9 609 26 HOH HOH . E 3 HOH A 10 610 31 HOH HOH . E 3 HOH A 11 611 32 HOH HOH . E 3 HOH A 12 612 34 HOH HOH . E 3 HOH A 13 613 41 HOH HOH . E 3 HOH A 14 614 46 HOH HOH . E 3 HOH A 15 615 49 HOH HOH . E 3 HOH A 16 616 54 HOH HOH . E 3 HOH A 17 617 55 HOH HOH . E 3 HOH A 18 618 57 HOH HOH . E 3 HOH A 19 619 58 HOH HOH . E 3 HOH A 20 620 59 HOH HOH . E 3 HOH A 21 621 64 HOH HOH . E 3 HOH A 22 622 65 HOH HOH . E 3 HOH A 23 623 66 HOH HOH . E 3 HOH A 24 624 67 HOH HOH . E 3 HOH A 25 625 69 HOH HOH . E 3 HOH A 26 626 71 HOH HOH . E 3 HOH A 27 627 75 HOH HOH . E 3 HOH A 28 628 76 HOH HOH . E 3 HOH A 29 629 78 HOH HOH . E 3 HOH A 30 630 79 HOH HOH . E 3 HOH A 31 631 83 HOH HOH . E 3 HOH A 32 632 86 HOH HOH . E 3 HOH A 33 633 89 HOH HOH . E 3 HOH A 34 634 91 HOH HOH . E 3 HOH A 35 635 92 HOH HOH . E 3 HOH A 36 636 93 HOH HOH . E 3 HOH A 37 637 94 HOH HOH . E 3 HOH A 38 638 97 HOH HOH . E 3 HOH A 39 639 101 HOH HOH . E 3 HOH A 40 640 102 HOH HOH . E 3 HOH A 41 641 105 HOH HOH . E 3 HOH A 42 642 107 HOH HOH . E 3 HOH A 43 643 108 HOH HOH . E 3 HOH A 44 644 109 HOH HOH . E 3 HOH A 45 645 110 HOH HOH . E 3 HOH A 46 646 111 HOH HOH . E 3 HOH A 47 647 112 HOH HOH . E 3 HOH A 48 648 113 HOH HOH . E 3 HOH A 49 649 114 HOH HOH . E 3 HOH A 50 650 115 HOH HOH . E 3 HOH A 51 651 117 HOH HOH . E 3 HOH A 52 652 118 HOH HOH . E 3 HOH A 53 653 119 HOH HOH . E 3 HOH A 54 654 120 HOH HOH . E 3 HOH A 55 655 121 HOH HOH . E 3 HOH A 56 656 123 HOH HOH . E 3 HOH A 57 657 125 HOH HOH . E 3 HOH A 58 658 126 HOH HOH . E 3 HOH A 59 659 127 HOH HOH . E 3 HOH A 60 660 129 HOH HOH . E 3 HOH A 61 661 131 HOH HOH . E 3 HOH A 62 662 132 HOH HOH . E 3 HOH A 63 663 134 HOH HOH . E 3 HOH A 64 664 135 HOH HOH . E 3 HOH A 65 665 136 HOH HOH . E 3 HOH A 66 666 137 HOH HOH . E 3 HOH A 67 667 138 HOH HOH . E 3 HOH A 68 668 139 HOH HOH . E 3 HOH A 69 669 143 HOH HOH . E 3 HOH A 70 670 145 HOH HOH . E 3 HOH A 71 671 150 HOH HOH . E 3 HOH A 72 672 152 HOH HOH . E 3 HOH A 73 673 153 HOH HOH . E 3 HOH A 74 674 154 HOH HOH . E 3 HOH A 75 675 155 HOH HOH . E 3 HOH A 76 676 157 HOH HOH . E 3 HOH A 77 677 158 HOH HOH . E 3 HOH A 78 678 159 HOH HOH . E 3 HOH A 79 679 160 HOH HOH . E 3 HOH A 80 680 161 HOH HOH . E 3 HOH A 81 681 163 HOH HOH . E 3 HOH A 82 682 165 HOH HOH . E 3 HOH A 83 683 166 HOH HOH . E 3 HOH A 84 684 167 HOH HOH . E 3 HOH A 85 685 169 HOH HOH . E 3 HOH A 86 686 170 HOH HOH . E 3 HOH A 87 687 172 HOH HOH . E 3 HOH A 88 688 173 HOH HOH . E 3 HOH A 89 689 176 HOH HOH . E 3 HOH A 90 690 177 HOH HOH . E 3 HOH A 91 691 178 HOH HOH . E 3 HOH A 92 692 181 HOH HOH . E 3 HOH A 93 693 183 HOH HOH . E 3 HOH A 94 694 184 HOH HOH . E 3 HOH A 95 695 186 HOH HOH . E 3 HOH A 96 696 190 HOH HOH . E 3 HOH A 97 697 191 HOH HOH . E 3 HOH A 98 698 192 HOH HOH . E 3 HOH A 99 699 193 HOH HOH . E 3 HOH A 100 700 197 HOH HOH . E 3 HOH A 101 701 201 HOH HOH . E 3 HOH A 102 702 202 HOH HOH . E 3 HOH A 103 703 203 HOH HOH . E 3 HOH A 104 704 204 HOH HOH . E 3 HOH A 105 705 205 HOH HOH . E 3 HOH A 106 706 206 HOH HOH . E 3 HOH A 107 707 208 HOH HOH . E 3 HOH A 108 708 209 HOH HOH . E 3 HOH A 109 709 211 HOH HOH . E 3 HOH A 110 710 214 HOH HOH . E 3 HOH A 111 711 216 HOH HOH . E 3 HOH A 112 712 217 HOH HOH . E 3 HOH A 113 713 219 HOH HOH . E 3 HOH A 114 714 222 HOH HOH . E 3 HOH A 115 715 223 HOH HOH . E 3 HOH A 116 716 224 HOH HOH . E 3 HOH A 117 717 225 HOH HOH . E 3 HOH A 118 718 227 HOH HOH . E 3 HOH A 119 719 230 HOH HOH . E 3 HOH A 120 720 232 HOH HOH . F 3 HOH C 1 601 1 HOH HOH . F 3 HOH C 2 602 2 HOH HOH . F 3 HOH C 3 603 4 HOH HOH . F 3 HOH C 4 604 6 HOH HOH . F 3 HOH C 5 605 8 HOH HOH . F 3 HOH C 6 606 9 HOH HOH . F 3 HOH C 7 607 10 HOH HOH . F 3 HOH C 8 608 11 HOH HOH . F 3 HOH C 9 609 13 HOH HOH . F 3 HOH C 10 610 14 HOH HOH . F 3 HOH C 11 611 15 HOH HOH . F 3 HOH C 12 612 18 HOH HOH . F 3 HOH C 13 613 19 HOH HOH . F 3 HOH C 14 614 20 HOH HOH . F 3 HOH C 15 615 23 HOH HOH . F 3 HOH C 16 616 24 HOH HOH . F 3 HOH C 17 617 25 HOH HOH . F 3 HOH C 18 618 27 HOH HOH . F 3 HOH C 19 619 28 HOH HOH . F 3 HOH C 20 620 29 HOH HOH . F 3 HOH C 21 621 30 HOH HOH . F 3 HOH C 22 622 33 HOH HOH . F 3 HOH C 23 623 35 HOH HOH . F 3 HOH C 24 624 36 HOH HOH . F 3 HOH C 25 625 37 HOH HOH . F 3 HOH C 26 626 38 HOH HOH . F 3 HOH C 27 627 39 HOH HOH . F 3 HOH C 28 628 40 HOH HOH . F 3 HOH C 29 629 42 HOH HOH . F 3 HOH C 30 630 43 HOH HOH . F 3 HOH C 31 631 44 HOH HOH . F 3 HOH C 32 632 45 HOH HOH . F 3 HOH C 33 633 47 HOH HOH . F 3 HOH C 34 634 48 HOH HOH . F 3 HOH C 35 635 50 HOH HOH . F 3 HOH C 36 636 51 HOH HOH . F 3 HOH C 37 637 52 HOH HOH . F 3 HOH C 38 638 53 HOH HOH . F 3 HOH C 39 639 56 HOH HOH . F 3 HOH C 40 640 60 HOH HOH . F 3 HOH C 41 641 61 HOH HOH . F 3 HOH C 42 642 62 HOH HOH . F 3 HOH C 43 643 63 HOH HOH . F 3 HOH C 44 644 68 HOH HOH . F 3 HOH C 45 645 70 HOH HOH . F 3 HOH C 46 646 72 HOH HOH . F 3 HOH C 47 647 73 HOH HOH . F 3 HOH C 48 648 74 HOH HOH . F 3 HOH C 49 649 77 HOH HOH . F 3 HOH C 50 650 80 HOH HOH . F 3 HOH C 51 651 81 HOH HOH . F 3 HOH C 52 652 82 HOH HOH . F 3 HOH C 53 653 84 HOH HOH . F 3 HOH C 54 654 85 HOH HOH . F 3 HOH C 55 655 87 HOH HOH . F 3 HOH C 56 656 88 HOH HOH . F 3 HOH C 57 657 90 HOH HOH . F 3 HOH C 58 658 95 HOH HOH . F 3 HOH C 59 659 96 HOH HOH . F 3 HOH C 60 660 98 HOH HOH . F 3 HOH C 61 661 99 HOH HOH . F 3 HOH C 62 662 100 HOH HOH . F 3 HOH C 63 663 103 HOH HOH . F 3 HOH C 64 664 104 HOH HOH . F 3 HOH C 65 665 106 HOH HOH . F 3 HOH C 66 666 116 HOH HOH . F 3 HOH C 67 667 122 HOH HOH . F 3 HOH C 68 668 124 HOH HOH . F 3 HOH C 69 669 128 HOH HOH . F 3 HOH C 70 670 133 HOH HOH . F 3 HOH C 71 671 140 HOH HOH . F 3 HOH C 72 672 141 HOH HOH . F 3 HOH C 73 673 142 HOH HOH . F 3 HOH C 74 674 144 HOH HOH . F 3 HOH C 75 675 146 HOH HOH . F 3 HOH C 76 676 147 HOH HOH . F 3 HOH C 77 677 148 HOH HOH . F 3 HOH C 78 678 149 HOH HOH . F 3 HOH C 79 679 151 HOH HOH . F 3 HOH C 80 680 156 HOH HOH . F 3 HOH C 81 681 162 HOH HOH . F 3 HOH C 82 682 164 HOH HOH . F 3 HOH C 83 683 168 HOH HOH . F 3 HOH C 84 684 171 HOH HOH . F 3 HOH C 85 685 174 HOH HOH . F 3 HOH C 86 686 175 HOH HOH . F 3 HOH C 87 687 179 HOH HOH . F 3 HOH C 88 688 180 HOH HOH . F 3 HOH C 89 689 182 HOH HOH . F 3 HOH C 90 690 185 HOH HOH . F 3 HOH C 91 691 187 HOH HOH . F 3 HOH C 92 692 188 HOH HOH . F 3 HOH C 93 693 189 HOH HOH . F 3 HOH C 94 694 194 HOH HOH . F 3 HOH C 95 695 195 HOH HOH . F 3 HOH C 96 696 196 HOH HOH . F 3 HOH C 97 697 198 HOH HOH . F 3 HOH C 98 698 199 HOH HOH . F 3 HOH C 99 699 200 HOH HOH . F 3 HOH C 100 700 207 HOH HOH . F 3 HOH C 101 701 210 HOH HOH . F 3 HOH C 102 702 212 HOH HOH . F 3 HOH C 103 703 213 HOH HOH . F 3 HOH C 104 704 215 HOH HOH . F 3 HOH C 105 705 218 HOH HOH . F 3 HOH C 106 706 220 HOH HOH . F 3 HOH C 107 707 221 HOH HOH . F 3 HOH C 108 708 226 HOH HOH . F 3 HOH C 109 709 228 HOH HOH . F 3 HOH C 110 710 229 HOH HOH . F 3 HOH C 111 711 231 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 -3.559 _atom_site.Cartn_y -41.181 _atom_site.Cartn_z -75.945 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 27.22 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 501 _atom_site.auth_asym_id C _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 257 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 1 #