data_6YZ5 # _model_server_result.job_id oHUTAylBdwYnKUg4zuy5TQ _model_server_result.datetime_utc '2024-10-11 19:20:46' _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 6yz5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":603}' # _entry.id 6YZ5 # _exptl.entry_id 6YZ5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-ETHANEDIOL _entity.pdbx_number_of_molecules 12 _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 120 _cell.entry_id 6YZ5 _cell.length_a 78.28 _cell.length_b 78.28 _cell.length_c 127.09 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6YZ5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _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,N,O,P,Q,R,S,T,U _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 ? 4 D N N ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 M N N ? 4 N N N ? 4 O N N ? 4 P N N ? 4 Q 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 E CYS 336 1_555 A SG CYS 32 E CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf2 A SG CYS 50 E CYS 379 1_555 A SG CYS 103 E CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? disulf ? disulf3 A SG CYS 62 E CYS 391 1_555 A SG CYS 196 E CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? disulf ? disulf4 A SG CYS 151 E CYS 480 1_555 A SG CYS 159 E CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? disulf ? disulf5 B SG CYS 22 F CYS 22 1_555 B SG CYS 96 F CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? covale ? covale1 A ND2 ASN 14 E ASN 343 1_555 C C1 NAG . E NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? # _chem_comp.formula 'C2 H6 O2' _chem_comp.formula_weight 62.068 _chem_comp.id EDO _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-ETHANEDIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ETHYLENE GLYCOL' # 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 EDO sing 89 n n C1 C2 EDO sing 90 n n C1 H11 EDO sing 91 n n C1 H12 EDO sing 92 n n O1 HO1 EDO sing 93 n n C2 O2 EDO sing 94 n n C2 H21 EDO sing 95 n n C2 H22 EDO sing 96 n n O2 HO2 EDO sing 97 n n # _atom_sites.entry_id 6YZ5 _atom_sites.fract_transf_matrix[1][1] 0.012775 _atom_sites.fract_transf_matrix[1][2] 0.007375 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014751 _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] 0.007868 _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 3 NAG E 1 601 601 NAG NAG . D 4 EDO E 1 602 701 EDO EDO . E 4 EDO E 1 603 801 EDO EDO . F 4 EDO E 1 604 901 EDO EDO . G 4 EDO E 1 605 1001 EDO EDO . H 4 EDO E 1 606 1101 EDO EDO . I 4 EDO E 1 607 1201 EDO EDO . J 4 EDO E 1 608 1301 EDO EDO . K 5 ACT E 1 609 1401 ACT ACT . L 5 ACT E 1 610 1501 ACT ACT . M 4 EDO E 1 611 1601 EDO EDO . N 4 EDO E 1 612 1701 EDO EDO . O 4 EDO E 1 613 1801 EDO EDO . P 4 EDO E 1 614 1901 EDO EDO . Q 4 EDO F 1 201 201 EDO EDO . R 5 ACT F 1 202 301 ACT ACT . S 5 ACT F 1 203 401 ACT ACT . T 6 HOH E 1 701 157 HOH HOH . T 6 HOH E 2 702 13 HOH HOH . T 6 HOH E 3 703 14 HOH HOH . T 6 HOH E 4 704 1 HOH HOH . T 6 HOH E 5 705 156 HOH HOH . T 6 HOH E 6 706 87 HOH HOH . T 6 HOH E 7 707 187 HOH HOH . T 6 HOH E 8 708 117 HOH HOH . T 6 HOH E 9 709 113 HOH HOH . T 6 HOH E 10 710 29 HOH HOH . T 6 HOH E 11 711 54 HOH HOH . T 6 HOH E 12 712 2 HOH HOH . T 6 HOH E 13 713 161 HOH HOH . T 6 HOH E 14 714 180 HOH HOH . T 6 HOH E 15 715 178 HOH HOH . T 6 HOH E 16 716 20 HOH HOH . T 6 HOH E 17 717 85 HOH HOH . T 6 HOH E 18 718 67 HOH HOH . T 6 HOH E 19 719 143 HOH HOH . T 6 HOH E 20 720 35 HOH HOH . T 6 HOH E 21 721 189 HOH HOH . T 6 HOH E 22 722 188 HOH HOH . T 6 HOH E 23 723 33 HOH HOH . T 6 HOH E 24 724 105 HOH HOH . T 6 HOH E 25 725 68 HOH HOH . T 6 HOH E 26 726 75 HOH HOH . T 6 HOH E 27 727 100 HOH HOH . T 6 HOH E 28 728 24 HOH HOH . T 6 HOH E 29 729 176 HOH HOH . T 6 HOH E 30 730 17 HOH HOH . T 6 HOH E 31 731 70 HOH HOH . T 6 HOH E 32 732 123 HOH HOH . T 6 HOH E 33 733 20 HOH HOH . T 6 HOH E 34 734 15 HOH HOH . T 6 HOH E 35 735 19 HOH HOH . T 6 HOH E 36 736 60 HOH HOH . T 6 HOH E 37 737 197 HOH HOH . T 6 HOH E 38 738 57 HOH HOH . T 6 HOH E 39 739 20 HOH HOH . T 6 HOH E 40 740 47 HOH HOH . T 6 HOH E 41 741 124 HOH HOH . T 6 HOH E 42 742 31 HOH HOH . T 6 HOH E 43 743 162 HOH HOH . T 6 HOH E 44 744 6 HOH HOH . T 6 HOH E 45 745 107 HOH HOH . T 6 HOH E 46 746 21 HOH HOH . T 6 HOH E 47 747 131 HOH HOH . T 6 HOH E 48 748 130 HOH HOH . T 6 HOH E 49 749 90 HOH HOH . T 6 HOH E 50 750 55 HOH HOH . T 6 HOH E 51 751 18 HOH HOH . T 6 HOH E 52 752 109 HOH HOH . T 6 HOH E 53 753 115 HOH HOH . T 6 HOH E 54 754 36 HOH HOH . T 6 HOH E 55 755 66 HOH HOH . T 6 HOH E 56 756 39 HOH HOH . T 6 HOH E 57 757 74 HOH HOH . T 6 HOH E 58 758 26 HOH HOH . T 6 HOH E 59 759 32 HOH HOH . T 6 HOH E 60 760 59 HOH HOH . T 6 HOH E 61 761 7 HOH HOH . T 6 HOH E 62 762 66 HOH HOH . T 6 HOH E 63 763 14 HOH HOH . T 6 HOH E 64 764 52 HOH HOH . T 6 HOH E 65 765 4 HOH HOH . T 6 HOH E 66 766 54 HOH HOH . T 6 HOH E 67 767 82 HOH HOH . T 6 HOH E 68 768 83 HOH HOH . T 6 HOH E 69 769 44 HOH HOH . T 6 HOH E 70 770 96 HOH HOH . T 6 HOH E 71 771 49 HOH HOH . T 6 HOH E 72 772 136 HOH HOH . T 6 HOH E 73 773 13 HOH HOH . T 6 HOH E 74 774 182 HOH HOH . T 6 HOH E 75 775 65 HOH HOH . T 6 HOH E 76 776 53 HOH HOH . T 6 HOH E 77 777 46 HOH HOH . T 6 HOH E 78 778 76 HOH HOH . T 6 HOH E 79 779 77 HOH HOH . T 6 HOH E 80 780 117 HOH HOH . T 6 HOH E 81 781 84 HOH HOH . T 6 HOH E 82 782 104 HOH HOH . T 6 HOH E 83 783 134 HOH HOH . T 6 HOH E 84 784 192 HOH HOH . T 6 HOH E 85 785 33 HOH HOH . T 6 HOH E 86 786 126 HOH HOH . T 6 HOH E 87 787 135 HOH HOH . T 6 HOH E 88 788 40 HOH HOH . T 6 HOH E 89 789 118 HOH HOH . T 6 HOH E 90 790 22 HOH HOH . T 6 HOH E 91 791 48 HOH HOH . T 6 HOH E 92 792 35 HOH HOH . T 6 HOH E 93 793 78 HOH HOH . T 6 HOH E 94 794 10 HOH HOH . T 6 HOH E 95 795 175 HOH HOH . T 6 HOH E 96 796 19 HOH HOH . T 6 HOH E 97 797 71 HOH HOH . T 6 HOH E 98 798 158 HOH HOH . T 6 HOH E 99 799 137 HOH HOH . T 6 HOH E 100 800 101 HOH HOH . T 6 HOH E 101 801 53 HOH HOH . T 6 HOH E 102 802 12 HOH HOH . T 6 HOH E 103 803 30 HOH HOH . T 6 HOH E 104 804 23 HOH HOH . T 6 HOH E 105 805 110 HOH HOH . T 6 HOH E 106 806 92 HOH HOH . T 6 HOH E 107 807 50 HOH HOH . T 6 HOH E 108 808 132 HOH HOH . T 6 HOH E 109 809 50 HOH HOH . T 6 HOH E 110 810 9 HOH HOH . T 6 HOH E 111 811 120 HOH HOH . T 6 HOH E 112 812 46 HOH HOH . T 6 HOH E 113 813 15 HOH HOH . T 6 HOH E 114 814 127 HOH HOH . T 6 HOH E 115 815 121 HOH HOH . T 6 HOH E 116 816 16 HOH HOH . T 6 HOH E 117 817 87 HOH HOH . T 6 HOH E 118 818 42 HOH HOH . T 6 HOH E 119 819 152 HOH HOH . T 6 HOH E 120 820 56 HOH HOH . T 6 HOH E 121 821 55 HOH HOH . T 6 HOH E 122 822 28 HOH HOH . T 6 HOH E 123 823 72 HOH HOH . T 6 HOH E 124 824 18 HOH HOH . T 6 HOH E 125 825 5 HOH HOH . T 6 HOH E 126 826 139 HOH HOH . T 6 HOH E 127 827 154 HOH HOH . T 6 HOH E 128 828 18 HOH HOH . T 6 HOH E 129 829 51 HOH HOH . T 6 HOH E 130 830 31 HOH HOH . T 6 HOH E 131 831 25 HOH HOH . T 6 HOH E 132 832 150 HOH HOH . T 6 HOH E 133 833 125 HOH HOH . T 6 HOH E 134 834 88 HOH HOH . T 6 HOH E 135 835 174 HOH HOH . T 6 HOH E 136 836 112 HOH HOH . T 6 HOH E 137 837 106 HOH HOH . T 6 HOH E 138 838 181 HOH HOH . T 6 HOH E 139 839 3 HOH HOH . T 6 HOH E 140 840 120 HOH HOH . T 6 HOH E 141 841 193 HOH HOH . T 6 HOH E 142 842 151 HOH HOH . T 6 HOH E 143 843 47 HOH HOH . T 6 HOH E 144 844 135 HOH HOH . T 6 HOH E 145 845 95 HOH HOH . T 6 HOH E 146 846 165 HOH HOH . T 6 HOH E 147 847 153 HOH HOH . T 6 HOH E 148 848 191 HOH HOH . T 6 HOH E 149 849 25 HOH HOH . T 6 HOH E 150 850 179 HOH HOH . T 6 HOH E 151 851 64 HOH HOH . T 6 HOH E 152 852 159 HOH HOH . T 6 HOH E 153 853 169 HOH HOH . T 6 HOH E 154 854 168 HOH HOH . T 6 HOH E 155 855 195 HOH HOH . T 6 HOH E 156 856 139 HOH HOH . T 6 HOH E 157 857 100 HOH HOH . T 6 HOH E 158 858 28 HOH HOH . T 6 HOH E 159 859 196 HOH HOH . T 6 HOH E 160 860 137 HOH HOH . T 6 HOH E 161 861 190 HOH HOH . T 6 HOH E 162 862 194 HOH HOH . U 6 HOH F 1 301 22 HOH HOH . U 6 HOH F 2 302 49 HOH HOH . U 6 HOH F 3 303 149 HOH HOH . U 6 HOH F 4 304 108 HOH HOH . U 6 HOH F 5 305 14 HOH HOH . U 6 HOH F 6 306 172 HOH HOH . U 6 HOH F 7 307 99 HOH HOH . U 6 HOH F 8 308 3 HOH HOH . U 6 HOH F 9 309 56 HOH HOH . U 6 HOH F 10 310 63 HOH HOH . U 6 HOH F 11 311 1 HOH HOH . U 6 HOH F 12 312 48 HOH HOH . U 6 HOH F 13 313 8 HOH HOH . U 6 HOH F 14 314 98 HOH HOH . U 6 HOH F 15 315 59 HOH HOH . U 6 HOH F 16 316 34 HOH HOH . U 6 HOH F 17 317 170 HOH HOH . U 6 HOH F 18 318 5 HOH HOH . U 6 HOH F 19 319 62 HOH HOH . U 6 HOH F 20 320 90 HOH HOH . U 6 HOH F 21 321 146 HOH HOH . U 6 HOH F 22 322 81 HOH HOH . U 6 HOH F 23 323 78 HOH HOH . U 6 HOH F 24 324 70 HOH HOH . U 6 HOH F 25 325 17 HOH HOH . U 6 HOH F 26 326 62 HOH HOH . U 6 HOH F 27 327 34 HOH HOH . U 6 HOH F 28 328 138 HOH HOH . U 6 HOH F 29 329 9 HOH HOH . U 6 HOH F 30 330 56 HOH HOH . U 6 HOH F 31 331 23 HOH HOH . U 6 HOH F 32 332 36 HOH HOH . U 6 HOH F 33 333 18 HOH HOH . U 6 HOH F 34 334 72 HOH HOH . U 6 HOH F 35 335 148 HOH HOH . U 6 HOH F 36 336 91 HOH HOH . U 6 HOH F 37 337 21 HOH HOH . U 6 HOH F 38 338 65 HOH HOH . U 6 HOH F 39 339 9 HOH HOH . U 6 HOH F 40 340 93 HOH HOH . U 6 HOH F 41 341 8 HOH HOH . U 6 HOH F 42 342 61 HOH HOH . U 6 HOH F 43 343 38 HOH HOH . U 6 HOH F 44 344 52 HOH HOH . U 6 HOH F 45 345 52 HOH HOH . U 6 HOH F 46 346 133 HOH HOH . U 6 HOH F 47 347 26 HOH HOH . U 6 HOH F 48 348 4 HOH HOH . U 6 HOH F 49 349 155 HOH HOH . U 6 HOH F 50 350 41 HOH HOH . U 6 HOH F 51 351 114 HOH HOH . U 6 HOH F 52 352 122 HOH HOH . U 6 HOH F 53 353 11 HOH HOH . U 6 HOH F 54 354 67 HOH HOH . U 6 HOH F 55 355 129 HOH HOH . U 6 HOH F 56 356 79 HOH HOH . U 6 HOH F 57 357 41 HOH HOH . U 6 HOH F 58 358 68 HOH HOH . U 6 HOH F 59 359 128 HOH HOH . U 6 HOH F 60 360 42 HOH HOH . U 6 HOH F 61 361 173 HOH HOH . U 6 HOH F 62 362 51 HOH HOH . U 6 HOH F 63 363 94 HOH HOH . U 6 HOH F 64 364 37 HOH HOH . U 6 HOH F 65 365 85 HOH HOH . U 6 HOH F 66 366 177 HOH HOH . U 6 HOH F 67 367 167 HOH HOH . U 6 HOH F 68 368 186 HOH HOH . U 6 HOH F 69 369 129 HOH HOH . U 6 HOH F 70 370 103 HOH HOH . U 6 HOH F 71 371 183 HOH HOH . U 6 HOH F 72 372 136 HOH HOH . U 6 HOH F 73 373 145 HOH HOH . U 6 HOH F 74 374 171 HOH HOH . U 6 HOH F 75 375 75 HOH HOH . U 6 HOH F 76 376 185 HOH HOH . U 6 HOH F 77 377 58 HOH HOH . U 6 HOH F 78 378 184 HOH HOH . U 6 HOH F 79 379 138 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 EDO . . . E 4 66.781 22.95 21.442 1 61.03 ? C1 EDO 603 E 1 HETATM 2 O O1 EDO . . . E 4 67.201 24.262 21.78 1 43.92 ? O1 EDO 603 E 1 HETATM 3 C C2 EDO . . . E 4 67.194 22.438 20.1 1 50.46 ? C2 EDO 603 E 1 HETATM 4 O O2 EDO . . . E 4 67.5 21.049 20.099 1 66.32 ? O2 EDO 603 E 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 4 #