data_7DL4 # _model_server_result.job_id 7qU_WBi0CteZStxr1AdLWA _model_server_result.datetime_utc '2024-11-07 08:56:17' _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 7dl4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":616}' # _entry.id 7DL4 # _exptl.entry_id 7DL4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 105.53 _cell.angle_gamma 90 _cell.entry_id 7DL4 _cell.length_a 184.983 _cell.length_b 38.494 _cell.length_c 95.516 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7DL4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,V,W,X _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 ? 6 I N N ? 6 O N N ? 6 P N N ? 6 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 53 A CYS 53 1_555 A SG CYS 62 A CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf2 A SG CYS 75 A CYS 75 1_555 A SG CYS 91 A CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? disulf ? disulf3 A SG CYS 90 A CYS 90 1_555 A SG CYS 101 A CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 A SG CYS 124 A CYS 124 1_555 A SG CYS 169 A CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf5 A SG CYS 168 A CYS 168 1_555 A SG CYS 177 A CYS 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf6 A SG CYS 200 A CYS 200 1_555 A SG CYS 246 A CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf7 A SG CYS 245 A CYS 245 1_555 A SG CYS 253 A CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 A SG CYS 265 A CYS 265 1_555 A SG CYS 279 A CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf9 A SG CYS 278 A CYS 278 1_555 A SG CYS 289 A CYS 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? disulf ? disulf10 A SG CYS 316 A CYS 316 1_555 A SG CYS 361 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf11 A SG CYS 360 A CYS 360 1_555 A SG CYS 369 A CYS 369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf12 A SG CYS 392 A CYS 392 1_555 A SG CYS 438 A CYS 438 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf13 A SG CYS 437 A CYS 437 1_555 A SG CYS 448 A CYS 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf14 A SG CYS 461 A CYS 461 1_555 A SG CYS 477 A CYS 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf15 A SG CYS 476 A CYS 476 1_555 A SG CYS 487 A CYS 487 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf16 A SG CYS 514 A CYS 514 1_555 A SG CYS 559 A CYS 559 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? disulf ? disulf17 A SG CYS 558 A CYS 558 1_555 A SG CYS 567 A CYS 567 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? metalc ? metalc1 B RU RU . A RU 601 1_555 C N6 HZQ . A HZQ 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? metalc ? metalc2 B RU RU . A RU 601 1_555 C O11 HZQ . A HZQ 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.991 ? metalc ? metalc3 B RU RU . A RU 601 1_555 G N NO . A NO 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.751 ? metalc ? metalc4 H RU RU . A RU 607 1_555 I O2 GOL . A GOL 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? metalc ? metalc5 H RU RU . A RU 607 1_555 I O1 GOL . A GOL 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? metalc ? metalc6 H RU RU . A RU 607 1_555 M N NO . A NO 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.752 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 GOL sing 138 n n C1 C2 GOL sing 139 n n C1 H11 GOL sing 140 n n C1 H12 GOL sing 141 n n O1 HO1 GOL sing 142 n n C2 O2 GOL sing 143 n n C2 C3 GOL sing 144 n n C2 H2 GOL sing 145 n n O2 HO2 GOL sing 146 n n C3 O3 GOL sing 147 n n C3 H31 GOL sing 148 n n C3 H32 GOL sing 149 n n O3 HO3 GOL sing 150 n n # _atom_sites.entry_id 7DL4 _atom_sites.fract_transf_matrix[1][1] 0.005406 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001502 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.025978 _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] 0.010866 _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 RU A 1 601 1 RU RU . C 3 HZQ A 1 602 2 HZQ HZQ . D 4 CL A 1 603 3 CL CL . E 4 CL A 1 604 4 CL CL . F 4 CL A 1 605 5 CL CL . G 5 NO A 1 606 6 NO NO . H 2 RU A 1 607 1 RU RU . I 6 GOL A 1 608 2 GOL GOL . J 4 CL A 1 609 3 CL CL . K 4 CL A 1 610 4 CL CL . L 4 CL A 1 611 5 CL CL . M 5 NO A 1 612 6 NO NO . N 7 DMS A 1 613 1 DMS DMS . O 6 GOL A 1 614 1 GOL GOL . P 6 GOL A 1 615 2 GOL GOL . Q 6 GOL A 1 616 3 GOL GOL . R 8 PLM A 1 617 1 PLM PLM . S 8 PLM A 1 618 2 PLM PLM . T 8 PLM A 1 619 3 PLM PLM . U 8 PLM A 1 620 4 PLM PLM . V 8 PLM A 1 621 5 PLM PLM . W 4 CL A 1 622 2 CL CL . X 9 HOH A 1 701 3 HOH HOH . X 9 HOH A 2 702 127 HOH HOH . X 9 HOH A 3 703 23 HOH HOH . X 9 HOH A 4 704 79 HOH HOH . X 9 HOH A 5 705 74 HOH HOH . X 9 HOH A 6 706 20 HOH HOH . X 9 HOH A 7 707 60 HOH HOH . X 9 HOH A 8 708 68 HOH HOH . X 9 HOH A 9 709 38 HOH HOH . X 9 HOH A 10 710 44 HOH HOH . X 9 HOH A 11 711 75 HOH HOH . X 9 HOH A 12 712 82 HOH HOH . X 9 HOH A 13 713 67 HOH HOH . X 9 HOH A 14 714 19 HOH HOH . X 9 HOH A 15 715 18 HOH HOH . X 9 HOH A 16 716 10 HOH HOH . X 9 HOH A 17 717 57 HOH HOH . X 9 HOH A 18 718 70 HOH HOH . X 9 HOH A 19 719 108 HOH HOH . X 9 HOH A 20 720 45 HOH HOH . X 9 HOH A 21 721 73 HOH HOH . X 9 HOH A 22 722 43 HOH HOH . X 9 HOH A 23 723 22 HOH HOH . X 9 HOH A 24 724 48 HOH HOH . X 9 HOH A 25 725 1 HOH HOH . X 9 HOH A 26 726 91 HOH HOH . X 9 HOH A 27 727 96 HOH HOH . X 9 HOH A 28 728 29 HOH HOH . X 9 HOH A 29 729 136 HOH HOH . X 9 HOH A 30 730 63 HOH HOH . X 9 HOH A 31 731 85 HOH HOH . X 9 HOH A 32 732 72 HOH HOH . X 9 HOH A 33 733 59 HOH HOH . X 9 HOH A 34 734 14 HOH HOH . X 9 HOH A 35 735 58 HOH HOH . X 9 HOH A 36 736 41 HOH HOH . X 9 HOH A 37 737 4 HOH HOH . X 9 HOH A 38 738 25 HOH HOH . X 9 HOH A 39 739 94 HOH HOH . X 9 HOH A 40 740 49 HOH HOH . X 9 HOH A 41 741 92 HOH HOH . X 9 HOH A 42 742 98 HOH HOH . X 9 HOH A 43 743 131 HOH HOH . X 9 HOH A 44 744 61 HOH HOH . X 9 HOH A 45 745 16 HOH HOH . X 9 HOH A 46 746 5 HOH HOH . X 9 HOH A 47 747 15 HOH HOH . X 9 HOH A 48 748 99 HOH HOH . X 9 HOH A 49 749 135 HOH HOH . X 9 HOH A 50 750 76 HOH HOH . X 9 HOH A 51 751 118 HOH HOH . X 9 HOH A 52 752 26 HOH HOH . X 9 HOH A 53 753 125 HOH HOH . X 9 HOH A 54 754 37 HOH HOH . X 9 HOH A 55 755 50 HOH HOH . X 9 HOH A 56 756 132 HOH HOH . X 9 HOH A 57 757 53 HOH HOH . X 9 HOH A 58 758 66 HOH HOH . X 9 HOH A 59 759 31 HOH HOH . X 9 HOH A 60 760 46 HOH HOH . X 9 HOH A 61 761 130 HOH HOH . X 9 HOH A 62 762 6 HOH HOH . X 9 HOH A 63 763 42 HOH HOH . X 9 HOH A 64 764 32 HOH HOH . X 9 HOH A 65 765 119 HOH HOH . X 9 HOH A 66 766 36 HOH HOH . X 9 HOH A 67 767 64 HOH HOH . X 9 HOH A 68 768 2 HOH HOH . X 9 HOH A 69 769 52 HOH HOH . X 9 HOH A 70 770 86 HOH HOH . X 9 HOH A 71 771 101 HOH HOH . X 9 HOH A 72 772 81 HOH HOH . X 9 HOH A 73 773 111 HOH HOH . X 9 HOH A 74 774 39 HOH HOH . X 9 HOH A 75 775 69 HOH HOH . X 9 HOH A 76 776 55 HOH HOH . X 9 HOH A 77 777 87 HOH HOH . X 9 HOH A 78 778 21 HOH HOH . X 9 HOH A 79 779 56 HOH HOH . X 9 HOH A 80 780 7 HOH HOH . X 9 HOH A 81 781 12 HOH HOH . X 9 HOH A 82 782 93 HOH HOH . X 9 HOH A 83 783 128 HOH HOH . X 9 HOH A 84 784 124 HOH HOH . X 9 HOH A 85 785 62 HOH HOH . X 9 HOH A 86 786 107 HOH HOH . X 9 HOH A 87 787 89 HOH HOH . X 9 HOH A 88 788 122 HOH HOH . X 9 HOH A 89 789 120 HOH HOH . X 9 HOH A 90 790 106 HOH HOH . X 9 HOH A 91 791 83 HOH HOH . X 9 HOH A 92 792 71 HOH HOH . X 9 HOH A 93 793 54 HOH HOH . X 9 HOH A 94 794 65 HOH HOH . X 9 HOH A 95 795 27 HOH HOH . X 9 HOH A 96 796 78 HOH HOH . X 9 HOH A 97 797 114 HOH HOH . X 9 HOH A 98 798 104 HOH HOH . X 9 HOH A 99 799 34 HOH HOH . X 9 HOH A 100 800 133 HOH HOH . X 9 HOH A 101 801 97 HOH HOH . X 9 HOH A 102 802 110 HOH HOH . X 9 HOH A 103 803 115 HOH HOH . X 9 HOH A 104 804 88 HOH HOH . X 9 HOH A 105 805 30 HOH HOH . X 9 HOH A 106 806 103 HOH HOH . X 9 HOH A 107 807 28 HOH HOH . X 9 HOH A 108 808 40 HOH HOH . X 9 HOH A 109 809 126 HOH HOH . X 9 HOH A 110 810 105 HOH HOH . X 9 HOH A 111 811 129 HOH HOH . X 9 HOH A 112 812 121 HOH HOH . X 9 HOH A 113 813 47 HOH HOH . X 9 HOH A 114 814 109 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 GOL . . . Q 6 46.549 -6.696 18.409 1 72.86 ? C1 GOL 616 A 1 HETATM 2 O O1 GOL . . . Q 6 45.4 -6.312 19.156 1 70.12 ? O1 GOL 616 A 1 HETATM 3 C C2 GOL . . . Q 6 47.724 -5.733 18.568 1 64.03 ? C2 GOL 616 A 1 HETATM 4 O O2 GOL . . . Q 6 47.507 -4.793 19.596 1 58.14 ? O2 GOL 616 A 1 HETATM 5 C C3 GOL . . . Q 6 48.966 -6.553 18.912 1 70.75 ? C3 GOL 616 A 1 HETATM 6 O O3 GOL . . . Q 6 49.955 -5.673 19.41 1 72.15 ? O3 GOL 616 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 232 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #