data_3VRY # _model_server_result.job_id yVsJvnJAeh0jwTvXpCWXmw _model_server_result.datetime_utc '2024-11-22 14:09:24' _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 3vry # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":601}' # _entry.id 3VRY # _exptl.entry_id 3VRY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 4 _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 95.84 _cell.angle_gamma 90 _cell.entry_id 3VRY _cell.length_a 48.59 _cell.length_b 73.88 _cell.length_c 178.47 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VRY _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # 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,D,E,I 1 1 B,F,G,H,J 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 ? 4 E N N ? 4 F 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 covale ? covale1 A C GLN 449 A GLN 526 1_555 A N PTR 450 A PTR 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A C PTR 450 A PTR 527 1_555 A N GLU 451 A GLU 528 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale3 B C GLN 449 B GLN 526 1_555 B N PTR 450 B PTR 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale4 B C PTR 450 B PTR 527 1_555 B N GLU 451 B GLU 528 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? metalc ? metalc1 A OE2 GLU 413 A GLU 490 1_555 E CA CA . A CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.82 ? metalc ? metalc2 A OE1 GLU 413 A GLU 490 1_555 E CA CA . A CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.063 ? metalc ? metalc3 A O GLU 447 A GLU 524 1_555 F CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.794 ? metalc ? metalc4 A O PTR 450 A PTR 527 1_555 F CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.01 ? metalc ? metalc5 E CA CA . A CA 603 1_555 I O HOH . A HOH 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.912 ? metalc ? metalc6 E CA CA . A CA 603 1_555 B O GLU 447 B GLU 524 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.663 ? metalc ? metalc7 E CA CA . A CA 603 1_555 B O PTR 450 B PTR 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.15 ? metalc ? metalc8 B OE1 GLU 413 B GLU 490 1_555 F CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.93 ? metalc ? metalc9 B OE2 GLU 413 B GLU 490 1_555 F CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.975 ? metalc ? metalc10 F CA CA . B CA 601 1_555 J O HOH . B HOH 793 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.133 ? # _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 3VRY _atom_sites.fract_transf_matrix[1][1] 0.02058 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002105 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013535 _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] 0.005632 _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 B43 A 1 601 1 B43 LIG . D 3 CL A 1 602 602 CL CL . E 4 CA A 1 603 601 CA CA . F 4 CA B 1 601 601 CA CA . G 2 B43 B 1 602 1 B43 LIG . H 3 CL B 1 603 602 CL CL . I 5 HOH A 1 701 1 HOH HOH . I 5 HOH A 2 702 3 HOH HOH . I 5 HOH A 3 703 4 HOH HOH . I 5 HOH A 4 704 6 HOH HOH . I 5 HOH A 5 705 9 HOH HOH . I 5 HOH A 6 706 10 HOH HOH . I 5 HOH A 7 707 12 HOH HOH . I 5 HOH A 8 708 14 HOH HOH . I 5 HOH A 9 709 18 HOH HOH . I 5 HOH A 10 710 19 HOH HOH . I 5 HOH A 11 711 20 HOH HOH . I 5 HOH A 12 712 21 HOH HOH . I 5 HOH A 13 713 22 HOH HOH . I 5 HOH A 14 714 23 HOH HOH . I 5 HOH A 15 715 24 HOH HOH . I 5 HOH A 16 716 25 HOH HOH . I 5 HOH A 17 717 28 HOH HOH . I 5 HOH A 18 718 29 HOH HOH . I 5 HOH A 19 719 33 HOH HOH . I 5 HOH A 20 720 37 HOH HOH . I 5 HOH A 21 721 38 HOH HOH . I 5 HOH A 22 722 39 HOH HOH . I 5 HOH A 23 723 40 HOH HOH . I 5 HOH A 24 724 41 HOH HOH . I 5 HOH A 25 725 42 HOH HOH . I 5 HOH A 26 726 45 HOH HOH . I 5 HOH A 27 727 46 HOH HOH . I 5 HOH A 28 728 47 HOH HOH . I 5 HOH A 29 729 48 HOH HOH . I 5 HOH A 30 730 49 HOH HOH . I 5 HOH A 31 731 50 HOH HOH . I 5 HOH A 32 732 51 HOH HOH . I 5 HOH A 33 733 52 HOH HOH . I 5 HOH A 34 734 53 HOH HOH . I 5 HOH A 35 735 54 HOH HOH . I 5 HOH A 36 736 59 HOH HOH . I 5 HOH A 37 737 62 HOH HOH . I 5 HOH A 38 738 63 HOH HOH . I 5 HOH A 39 739 66 HOH HOH . I 5 HOH A 40 740 72 HOH HOH . I 5 HOH A 41 741 74 HOH HOH . I 5 HOH A 42 742 75 HOH HOH . I 5 HOH A 43 743 76 HOH HOH . I 5 HOH A 44 744 77 HOH HOH . I 5 HOH A 45 745 78 HOH HOH . I 5 HOH A 46 746 79 HOH HOH . I 5 HOH A 47 747 80 HOH HOH . I 5 HOH A 48 748 81 HOH HOH . I 5 HOH A 49 749 82 HOH HOH . I 5 HOH A 50 750 83 HOH HOH . I 5 HOH A 51 751 86 HOH HOH . I 5 HOH A 52 752 87 HOH HOH . I 5 HOH A 53 753 88 HOH HOH . I 5 HOH A 54 754 89 HOH HOH . I 5 HOH A 55 755 91 HOH HOH . I 5 HOH A 56 756 93 HOH HOH . I 5 HOH A 57 757 94 HOH HOH . I 5 HOH A 58 758 95 HOH HOH . I 5 HOH A 59 759 97 HOH HOH . I 5 HOH A 60 760 99 HOH HOH . I 5 HOH A 61 761 103 HOH HOH . I 5 HOH A 62 762 104 HOH HOH . I 5 HOH A 63 763 105 HOH HOH . I 5 HOH A 64 764 107 HOH HOH . I 5 HOH A 65 765 109 HOH HOH . I 5 HOH A 66 766 111 HOH HOH . I 5 HOH A 67 767 112 HOH HOH . I 5 HOH A 68 768 114 HOH HOH . I 5 HOH A 69 769 116 HOH HOH . I 5 HOH A 70 770 117 HOH HOH . I 5 HOH A 71 771 118 HOH HOH . I 5 HOH A 72 772 120 HOH HOH . I 5 HOH A 73 773 121 HOH HOH . I 5 HOH A 74 774 123 HOH HOH . I 5 HOH A 75 775 125 HOH HOH . I 5 HOH A 76 776 130 HOH HOH . I 5 HOH A 77 777 131 HOH HOH . I 5 HOH A 78 778 133 HOH HOH . I 5 HOH A 79 779 134 HOH HOH . I 5 HOH A 80 780 135 HOH HOH . I 5 HOH A 81 781 143 HOH HOH . I 5 HOH A 82 782 144 HOH HOH . I 5 HOH A 83 783 149 HOH HOH . I 5 HOH A 84 784 152 HOH HOH . I 5 HOH A 85 785 154 HOH HOH . I 5 HOH A 86 786 155 HOH HOH . I 5 HOH A 87 787 156 HOH HOH . I 5 HOH A 88 788 157 HOH HOH . I 5 HOH A 89 789 158 HOH HOH . I 5 HOH A 90 790 160 HOH HOH . I 5 HOH A 91 791 161 HOH HOH . I 5 HOH A 92 792 164 HOH HOH . I 5 HOH A 93 793 166 HOH HOH . I 5 HOH A 94 794 168 HOH HOH . I 5 HOH A 95 795 169 HOH HOH . I 5 HOH A 96 796 171 HOH HOH . I 5 HOH A 97 797 172 HOH HOH . I 5 HOH A 98 798 173 HOH HOH . I 5 HOH A 99 799 179 HOH HOH . I 5 HOH A 100 800 180 HOH HOH . I 5 HOH A 101 801 181 HOH HOH . I 5 HOH A 102 802 182 HOH HOH . I 5 HOH A 103 803 185 HOH HOH . I 5 HOH A 104 804 188 HOH HOH . I 5 HOH A 105 805 190 HOH HOH . I 5 HOH A 106 806 191 HOH HOH . I 5 HOH A 107 807 194 HOH HOH . I 5 HOH A 108 808 195 HOH HOH . I 5 HOH A 109 809 196 HOH HOH . I 5 HOH A 110 810 198 HOH HOH . I 5 HOH A 111 811 199 HOH HOH . I 5 HOH A 112 812 201 HOH HOH . I 5 HOH A 113 813 203 HOH HOH . I 5 HOH A 114 814 206 HOH HOH . I 5 HOH A 115 815 221 HOH HOH . I 5 HOH A 116 816 232 HOH HOH . I 5 HOH A 117 817 233 HOH HOH . J 5 HOH B 1 701 2 HOH HOH . J 5 HOH B 2 702 5 HOH HOH . J 5 HOH B 3 703 7 HOH HOH . J 5 HOH B 4 704 8 HOH HOH . J 5 HOH B 5 705 11 HOH HOH . J 5 HOH B 6 706 13 HOH HOH . J 5 HOH B 7 707 15 HOH HOH . J 5 HOH B 8 708 16 HOH HOH . J 5 HOH B 9 709 17 HOH HOH . J 5 HOH B 10 710 26 HOH HOH . J 5 HOH B 11 711 27 HOH HOH . J 5 HOH B 12 712 30 HOH HOH . J 5 HOH B 13 713 31 HOH HOH . J 5 HOH B 14 714 32 HOH HOH . J 5 HOH B 15 715 34 HOH HOH . J 5 HOH B 16 716 35 HOH HOH . J 5 HOH B 17 717 36 HOH HOH . J 5 HOH B 18 718 43 HOH HOH . J 5 HOH B 19 719 44 HOH HOH . J 5 HOH B 20 720 55 HOH HOH . J 5 HOH B 21 721 56 HOH HOH . J 5 HOH B 22 722 57 HOH HOH . J 5 HOH B 23 723 58 HOH HOH . J 5 HOH B 24 724 60 HOH HOH . J 5 HOH B 25 725 61 HOH HOH . J 5 HOH B 26 726 64 HOH HOH . J 5 HOH B 27 727 65 HOH HOH . J 5 HOH B 28 728 67 HOH HOH . J 5 HOH B 29 729 68 HOH HOH . J 5 HOH B 30 730 69 HOH HOH . J 5 HOH B 31 731 70 HOH HOH . J 5 HOH B 32 732 71 HOH HOH . J 5 HOH B 33 733 73 HOH HOH . J 5 HOH B 34 734 84 HOH HOH . J 5 HOH B 35 735 85 HOH HOH . J 5 HOH B 36 736 90 HOH HOH . J 5 HOH B 37 737 92 HOH HOH . J 5 HOH B 38 738 96 HOH HOH . J 5 HOH B 39 739 98 HOH HOH . J 5 HOH B 40 740 100 HOH HOH . J 5 HOH B 41 741 101 HOH HOH . J 5 HOH B 42 742 102 HOH HOH . J 5 HOH B 43 743 106 HOH HOH . J 5 HOH B 44 744 108 HOH HOH . J 5 HOH B 45 745 110 HOH HOH . J 5 HOH B 46 746 113 HOH HOH . J 5 HOH B 47 747 115 HOH HOH . J 5 HOH B 48 748 119 HOH HOH . J 5 HOH B 49 749 122 HOH HOH . J 5 HOH B 50 750 124 HOH HOH . J 5 HOH B 51 751 126 HOH HOH . J 5 HOH B 52 752 127 HOH HOH . J 5 HOH B 53 753 128 HOH HOH . J 5 HOH B 54 754 129 HOH HOH . J 5 HOH B 55 755 132 HOH HOH . J 5 HOH B 56 756 136 HOH HOH . J 5 HOH B 57 757 137 HOH HOH . J 5 HOH B 58 758 138 HOH HOH . J 5 HOH B 59 759 139 HOH HOH . J 5 HOH B 60 760 140 HOH HOH . J 5 HOH B 61 761 141 HOH HOH . J 5 HOH B 62 762 142 HOH HOH . J 5 HOH B 63 763 145 HOH HOH . J 5 HOH B 64 764 146 HOH HOH . J 5 HOH B 65 765 147 HOH HOH . J 5 HOH B 66 766 148 HOH HOH . J 5 HOH B 67 767 150 HOH HOH . J 5 HOH B 68 768 151 HOH HOH . J 5 HOH B 69 769 153 HOH HOH . J 5 HOH B 70 770 159 HOH HOH . J 5 HOH B 71 771 162 HOH HOH . J 5 HOH B 72 772 163 HOH HOH . J 5 HOH B 73 773 165 HOH HOH . J 5 HOH B 74 774 167 HOH HOH . J 5 HOH B 75 775 170 HOH HOH . J 5 HOH B 76 776 174 HOH HOH . J 5 HOH B 77 777 175 HOH HOH . J 5 HOH B 78 778 176 HOH HOH . J 5 HOH B 79 779 177 HOH HOH . J 5 HOH B 80 780 178 HOH HOH . J 5 HOH B 81 781 183 HOH HOH . J 5 HOH B 82 782 184 HOH HOH . J 5 HOH B 83 783 186 HOH HOH . J 5 HOH B 84 784 187 HOH HOH . J 5 HOH B 85 785 189 HOH HOH . J 5 HOH B 86 786 192 HOH HOH . J 5 HOH B 87 787 193 HOH HOH . J 5 HOH B 88 788 197 HOH HOH . J 5 HOH B 89 789 200 HOH HOH . J 5 HOH B 90 790 202 HOH HOH . J 5 HOH B 91 791 204 HOH HOH . J 5 HOH B 92 792 205 HOH HOH . J 5 HOH B 93 793 207 HOH HOH . J 5 HOH B 94 794 208 HOH HOH . J 5 HOH B 95 795 209 HOH HOH . J 5 HOH B 96 796 210 HOH HOH . J 5 HOH B 97 797 211 HOH HOH . J 5 HOH B 98 798 212 HOH HOH . J 5 HOH B 99 799 213 HOH HOH . J 5 HOH B 100 800 214 HOH HOH . J 5 HOH B 101 801 215 HOH HOH . J 5 HOH B 102 802 216 HOH HOH . J 5 HOH B 103 803 217 HOH HOH . J 5 HOH B 104 804 218 HOH HOH . J 5 HOH B 105 805 219 HOH HOH . J 5 HOH B 106 806 220 HOH HOH . J 5 HOH B 107 807 222 HOH HOH . J 5 HOH B 108 808 223 HOH HOH . J 5 HOH B 109 809 224 HOH HOH . J 5 HOH B 110 810 225 HOH HOH . J 5 HOH B 111 811 226 HOH HOH . J 5 HOH B 112 812 227 HOH HOH . J 5 HOH B 113 813 228 HOH HOH . J 5 HOH B 114 814 229 HOH HOH . J 5 HOH B 115 815 230 HOH HOH . J 5 HOH B 116 816 231 HOH HOH . J 5 HOH B 117 817 234 HOH HOH . J 5 HOH B 118 818 235 HOH HOH . J 5 HOH B 119 819 236 HOH HOH . J 5 HOH B 120 820 237 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 F _atom_site.label_entity_id 4 _atom_site.Cartn_x 25.372 _atom_site.Cartn_y 5.487 _atom_site.Cartn_z 43.532 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 57.38 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 601 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #