data_5W78 # _model_server_result.job_id Z8Pa-o3lBO3kt7wWfaoyHA _model_server_result.datetime_utc '2024-11-23 00:34:25' _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 5w78 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":602}' # _entry.id 5W78 # _exptl.entry_id 5W78 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 5 _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 5W78 _cell.length_a 50.402 _cell.length_b 87.356 _cell.length_c 146.51 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5W78 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 5 H N N ? 5 I N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C NAG 1 C 1 NAG C 4 NAG 3 n C NAG 2 C 2 NAG C 5 NAG 3 n D NAG 1 D 1 NAG C 1 NAG 3 n D NAG 2 D 2 NAG C 2 NAG 3 n E NAG 1 E 1 NAG C 3 NAG 3 n E NAG 2 E 2 NAG C 6 NAG # 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 28 A CYS 41 1_555 A SG CYS 101 A CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf2 A SG CYS 31 A CYS 44 1_555 A SG CYS 95 A CYS 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf3 A SG CYS 57 A CYS 70 1_555 A SG CYS 70 A CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf4 A SG CYS 110 A CYS 123 1_555 B SG CYS 301 B CYS 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf5 B SG CYS 8 B CYS 160 1_555 B SG CYS 17 B CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf6 B SG CYS 54 B CYS 206 1_555 B SG CYS 78 B CYS 230 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? disulf ? disulf7 B SG CYS 97 B CYS 249 1_555 B SG CYS 177 B CYS 329 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf8 B SG CYS 224 B CYS 376 1_555 B SG CYS 307 B CYS 459 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? covale ? covale1 A ND2 ASN 46 A ASN 59 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale2 B ND2 ASN 55 B ASN 207 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale3 B ND2 ASN 314 B ASN 466 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale4 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.48 ? covale ? covale5 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale6 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? metalc ? metalc1 B OD1 ASP 53 B ASP 205 1_555 H CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.846 ? metalc ? metalc2 B OD2 ASP 53 B ASP 205 1_555 H CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc3 B O ASN 55 B ASN 207 1_555 H CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.528 ? metalc ? metalc4 B O ASP 58 B ASP 210 1_555 H CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.466 ? metalc ? metalc5 B O VAL 61 B VAL 213 1_555 H CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc6 B OD2 ASP 71 B ASP 223 1_555 I CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc7 B OD2 ASP 75 B ASP 227 1_555 I CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? metalc ? metalc8 B OD1 ASN 77 B ASN 229 1_555 I CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc9 B OD1 ASN 79 B ASN 231 1_555 I CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? metalc ? metalc10 B O ILE 81 B ILE 233 1_555 I CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? metalc ? metalc11 B OE2 GLU 93 B GLU 245 1_555 I CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc12 H CA CA . B CA 601 1_555 M O HOH . B HOH 780 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? # _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 5W78 _atom_sites.fract_transf_matrix[1][1] 0.01984 _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] 0.011447 _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] 0.006825 _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 F 4 MYR A 1 203 1 MYR MYR . G 4 MYR A 1 204 2 MYR MYR . H 5 CA B 1 601 2 CA CA . I 5 CA B 1 602 3 CA CA . J 6 PLM B 1 607 1 PLM PLM . K 7 DAO B 1 608 1 DAO DAO . L 8 HOH A 1 301 54 HOH HOH . L 8 HOH A 2 302 76 HOH HOH . L 8 HOH A 3 303 130 HOH HOH . L 8 HOH A 4 304 90 HOH HOH . L 8 HOH A 5 305 77 HOH HOH . L 8 HOH A 6 306 106 HOH HOH . L 8 HOH A 7 307 46 HOH HOH . L 8 HOH A 8 308 95 HOH HOH . L 8 HOH A 9 309 107 HOH HOH . L 8 HOH A 10 310 111 HOH HOH . L 8 HOH A 11 311 171 HOH HOH . L 8 HOH A 12 312 119 HOH HOH . L 8 HOH A 13 313 117 HOH HOH . L 8 HOH A 14 314 21 HOH HOH . L 8 HOH A 15 315 170 HOH HOH . L 8 HOH A 16 316 97 HOH HOH . L 8 HOH A 17 317 96 HOH HOH . L 8 HOH A 18 318 12 HOH HOH . L 8 HOH A 19 319 55 HOH HOH . L 8 HOH A 20 320 152 HOH HOH . L 8 HOH A 21 321 31 HOH HOH . L 8 HOH A 22 322 50 HOH HOH . L 8 HOH A 23 323 154 HOH HOH . L 8 HOH A 24 324 58 HOH HOH . L 8 HOH A 25 325 98 HOH HOH . L 8 HOH A 26 326 67 HOH HOH . L 8 HOH A 27 327 147 HOH HOH . M 8 HOH B 1 701 66 HOH HOH . M 8 HOH B 2 702 16 HOH HOH . M 8 HOH B 3 703 84 HOH HOH . M 8 HOH B 4 704 13 HOH HOH . M 8 HOH B 5 705 127 HOH HOH . M 8 HOH B 6 706 85 HOH HOH . M 8 HOH B 7 707 88 HOH HOH . M 8 HOH B 8 708 33 HOH HOH . M 8 HOH B 9 709 80 HOH HOH . M 8 HOH B 10 710 122 HOH HOH . M 8 HOH B 11 711 161 HOH HOH . M 8 HOH B 12 712 9 HOH HOH . M 8 HOH B 13 713 4 HOH HOH . M 8 HOH B 14 714 131 HOH HOH . M 8 HOH B 15 715 30 HOH HOH . M 8 HOH B 16 716 65 HOH HOH . M 8 HOH B 17 717 59 HOH HOH . M 8 HOH B 18 718 73 HOH HOH . M 8 HOH B 19 719 2 HOH HOH . M 8 HOH B 20 720 156 HOH HOH . M 8 HOH B 21 721 71 HOH HOH . M 8 HOH B 22 722 89 HOH HOH . M 8 HOH B 23 723 83 HOH HOH . M 8 HOH B 24 724 92 HOH HOH . M 8 HOH B 25 725 17 HOH HOH . M 8 HOH B 26 726 68 HOH HOH . M 8 HOH B 27 727 160 HOH HOH . M 8 HOH B 28 728 118 HOH HOH . M 8 HOH B 29 729 137 HOH HOH . M 8 HOH B 30 730 75 HOH HOH . M 8 HOH B 31 731 6 HOH HOH . M 8 HOH B 32 732 81 HOH HOH . M 8 HOH B 33 733 25 HOH HOH . M 8 HOH B 34 734 11 HOH HOH . M 8 HOH B 35 735 19 HOH HOH . M 8 HOH B 36 736 7 HOH HOH . M 8 HOH B 37 737 15 HOH HOH . M 8 HOH B 38 738 8 HOH HOH . M 8 HOH B 39 739 37 HOH HOH . M 8 HOH B 40 740 99 HOH HOH . M 8 HOH B 41 741 136 HOH HOH . M 8 HOH B 42 742 35 HOH HOH . M 8 HOH B 43 743 52 HOH HOH . M 8 HOH B 44 744 10 HOH HOH . M 8 HOH B 45 745 100 HOH HOH . M 8 HOH B 46 746 69 HOH HOH . M 8 HOH B 47 747 27 HOH HOH . M 8 HOH B 48 748 123 HOH HOH . M 8 HOH B 49 749 146 HOH HOH . M 8 HOH B 50 750 14 HOH HOH . M 8 HOH B 51 751 125 HOH HOH . M 8 HOH B 52 752 166 HOH HOH . M 8 HOH B 53 753 3 HOH HOH . M 8 HOH B 54 754 32 HOH HOH . M 8 HOH B 55 755 41 HOH HOH . M 8 HOH B 56 756 70 HOH HOH . M 8 HOH B 57 757 110 HOH HOH . M 8 HOH B 58 758 24 HOH HOH . M 8 HOH B 59 759 23 HOH HOH . M 8 HOH B 60 760 57 HOH HOH . M 8 HOH B 61 761 86 HOH HOH . M 8 HOH B 62 762 87 HOH HOH . M 8 HOH B 63 763 78 HOH HOH . M 8 HOH B 64 764 163 HOH HOH . M 8 HOH B 65 765 134 HOH HOH . M 8 HOH B 66 766 5 HOH HOH . M 8 HOH B 67 767 53 HOH HOH . M 8 HOH B 68 768 22 HOH HOH . M 8 HOH B 69 769 42 HOH HOH . M 8 HOH B 70 770 113 HOH HOH . M 8 HOH B 71 771 108 HOH HOH . M 8 HOH B 72 772 165 HOH HOH . M 8 HOH B 73 773 79 HOH HOH . M 8 HOH B 74 774 102 HOH HOH . M 8 HOH B 75 775 43 HOH HOH . M 8 HOH B 76 776 151 HOH HOH . M 8 HOH B 77 777 133 HOH HOH . M 8 HOH B 78 778 126 HOH HOH . M 8 HOH B 79 779 121 HOH HOH . M 8 HOH B 80 780 1 HOH HOH . M 8 HOH B 81 781 82 HOH HOH . M 8 HOH B 82 782 39 HOH HOH . M 8 HOH B 83 783 159 HOH HOH . M 8 HOH B 84 784 18 HOH HOH . M 8 HOH B 85 785 51 HOH HOH . M 8 HOH B 86 786 45 HOH HOH . M 8 HOH B 87 787 132 HOH HOH . M 8 HOH B 88 788 72 HOH HOH . M 8 HOH B 89 789 34 HOH HOH . M 8 HOH B 90 790 91 HOH HOH . M 8 HOH B 91 791 114 HOH HOH . M 8 HOH B 92 792 61 HOH HOH . M 8 HOH B 93 793 153 HOH HOH . M 8 HOH B 94 794 109 HOH HOH . M 8 HOH B 95 795 120 HOH HOH . M 8 HOH B 96 796 49 HOH HOH . M 8 HOH B 97 797 63 HOH HOH . M 8 HOH B 98 798 104 HOH HOH . M 8 HOH B 99 799 157 HOH HOH . M 8 HOH B 100 800 26 HOH HOH . M 8 HOH B 101 801 162 HOH HOH . M 8 HOH B 102 802 172 HOH HOH . M 8 HOH B 103 803 149 HOH HOH . M 8 HOH B 104 804 142 HOH HOH . M 8 HOH B 105 805 115 HOH HOH . M 8 HOH B 106 806 44 HOH HOH . M 8 HOH B 107 807 28 HOH HOH . M 8 HOH B 108 808 175 HOH HOH . M 8 HOH B 109 809 148 HOH HOH . M 8 HOH B 110 810 62 HOH HOH . M 8 HOH B 111 811 135 HOH HOH . M 8 HOH B 112 812 20 HOH HOH . M 8 HOH B 113 813 40 HOH HOH . M 8 HOH B 114 814 74 HOH HOH . M 8 HOH B 115 815 176 HOH HOH . M 8 HOH B 116 816 105 HOH HOH . M 8 HOH B 117 817 64 HOH HOH . M 8 HOH B 118 818 167 HOH HOH . M 8 HOH B 119 819 93 HOH HOH . M 8 HOH B 120 820 158 HOH HOH . M 8 HOH B 121 821 155 HOH HOH . M 8 HOH B 122 822 94 HOH HOH . M 8 HOH B 123 823 124 HOH HOH . M 8 HOH B 124 824 60 HOH HOH . M 8 HOH B 125 825 38 HOH HOH . M 8 HOH B 126 826 138 HOH HOH . M 8 HOH B 127 827 168 HOH HOH . M 8 HOH B 128 828 29 HOH HOH . M 8 HOH B 129 829 174 HOH HOH . M 8 HOH B 130 830 56 HOH HOH . M 8 HOH B 131 831 116 HOH HOH . M 8 HOH B 132 832 128 HOH HOH . M 8 HOH B 133 833 129 HOH HOH . M 8 HOH B 134 834 141 HOH HOH . M 8 HOH B 135 835 144 HOH HOH . M 8 HOH B 136 836 150 HOH HOH . M 8 HOH B 137 837 36 HOH HOH . M 8 HOH B 138 838 173 HOH HOH . M 8 HOH B 139 839 139 HOH HOH . M 8 HOH B 140 840 140 HOH HOH . M 8 HOH B 141 841 101 HOH HOH . M 8 HOH B 142 842 164 HOH HOH . M 8 HOH B 143 843 169 HOH HOH . M 8 HOH B 144 844 143 HOH HOH . M 8 HOH B 145 845 47 HOH HOH . M 8 HOH B 146 846 103 HOH HOH . M 8 HOH B 147 847 48 HOH HOH . M 8 HOH B 148 848 112 HOH HOH . M 8 HOH B 149 849 145 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 I _atom_site.label_entity_id 5 _atom_site.Cartn_x 41.571 _atom_site.Cartn_y 79.933 _atom_site.Cartn_z -5.97 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 20.42 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 602 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 285 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #