data_6ULZ # _model_server_result.job_id GdKR49DPgoc3CP2K6kUPkw _model_server_result.datetime_utc '2024-10-12 19:25:42' _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 6ulz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":704}' # _entry.id 6ULZ # _exptl.entry_id 6ULZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER' _entity.pdbx_number_of_molecules 1 _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 6ULZ _cell.length_a 161.18 _cell.length_b 161.18 _cell.length_c 138.63 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6ULZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall 'P 4abw 2nw' _symmetry.space_group_name_H-M 'P 41 21 2' # _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 _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C11 H18 N5 O12 P3' _chem_comp.formula_weight 505.208 _chem_comp.id APC _chem_comp.mon_nstd_flag . _chem_comp.name 'DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE" # 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 PG O1G APC doub 13 n n PG O2G APC sing 14 n n PG O3G APC sing 15 n n PG O3B APC sing 16 n n O2G HOG2 APC sing 17 n n O3G HOG3 APC sing 18 n n PB O1B APC doub 19 n n PB O2B APC sing 20 n n PB O3B APC sing 21 n n PB C3A APC sing 22 n n O2B HOB2 APC sing 23 n n PA O1A APC doub 24 n n PA O2A APC sing 25 n n PA C3A APC sing 26 n n PA O5' APC sing 27 n n O2A HOA2 APC sing 28 n n C3A H3A1 APC sing 29 n n C3A H3A2 APC sing 30 n n O5' C5' APC sing 31 n n C5' C4' APC sing 32 n n C5' "H5'1" APC sing 33 n n C5' "H5'2" APC sing 34 n n C4' O4' APC sing 35 n n C4' C3' APC sing 36 n n C4' H4' APC sing 37 n n O4' C1' APC sing 38 n n C3' O3' APC sing 39 n n C3' C2' APC sing 40 n n C3' H3' APC sing 41 n n O3' HO3' APC sing 42 n n C2' O2' APC sing 43 n n C2' C1' APC sing 44 n n C2' H2' APC sing 45 n n O2' HO2' APC sing 46 n n C1' N9 APC sing 47 n n C1' H1' APC sing 48 n n N9 C8 APC sing 49 n y N9 C4 APC sing 50 n y C8 N7 APC doub 51 n y C8 H8 APC sing 52 n n N7 C5 APC sing 53 n y C5 C6 APC sing 54 n y C5 C4 APC doub 55 n y C6 N6 APC sing 56 n n C6 N1 APC doub 57 n y N6 HN61 APC sing 58 n n N6 HN62 APC sing 59 n n N1 C2 APC sing 60 n y C2 N3 APC doub 61 n y C2 H2 APC sing 62 n n N3 C4 APC sing 63 n y # _atom_sites.entry_id 6ULZ _atom_sites.fract_transf_matrix[1][1] 0.006204 _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] 0.006204 _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] 0.007213 _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 FMT A 1 701 701 FMT FMT . C 2 FMT A 1 702 702 FMT FMT . D 2 FMT A 1 703 703 FMT FMT . E 3 APC A 1 704 801 APC APC . F 4 KIV A 1 705 901 KIV KIV . G 5 HOH A 1 801 7 HOH HOH . G 5 HOH A 2 802 2 HOH HOH . G 5 HOH A 3 803 13 HOH HOH . G 5 HOH A 4 804 20 HOH HOH . G 5 HOH A 5 805 8 HOH HOH . G 5 HOH A 6 806 1 HOH HOH . G 5 HOH A 7 807 17 HOH HOH . G 5 HOH A 8 808 9 HOH HOH . G 5 HOH A 9 809 14 HOH HOH . G 5 HOH A 10 810 5 HOH HOH . G 5 HOH A 11 811 21 HOH HOH . G 5 HOH A 12 812 10 HOH HOH . G 5 HOH A 13 813 19 HOH HOH . G 5 HOH A 14 814 11 HOH HOH . G 5 HOH A 15 815 6 HOH HOH . G 5 HOH A 16 816 12 HOH HOH . G 5 HOH A 17 817 4 HOH HOH . G 5 HOH A 18 818 3 HOH HOH . G 5 HOH A 19 819 18 HOH HOH . G 5 HOH A 20 820 16 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 P PG APC . . . E 3 184.924 -16.446 19.492 1 153.12 ? PG APC 704 A 1 HETATM 2 O O1G APC . . . E 3 184.858 -15.25 20.409 1 130.6 ? O1G APC 704 A 1 HETATM 3 O O2G APC . . . E 3 183.673 -17.291 19.557 1 122.93 ? O2G APC 704 A 1 HETATM 4 O O3G APC . . . E 3 186.178 -17.26 19.697 1 138.93 ? O3G APC 704 A 1 HETATM 5 P PB APC . . . E 3 186.095 -15.232 16.997 1 149.27 ? PB APC 704 A 1 HETATM 6 O O1B APC . . . E 3 187.297 -16.129 16.891 1 143.78 ? O1B APC 704 A 1 HETATM 7 O O2B APC . . . E 3 185.42 -14.915 15.691 1 111.72 ? O2B APC 704 A 1 HETATM 8 O O3B APC . . . E 3 185.007 -15.881 17.971 1 164.88 ? O3B APC 704 A 1 HETATM 9 P PA APC . . . E 3 188.059 -13.697 18.842 1 129.19 ? PA APC 704 A 1 HETATM 10 O O1A APC . . . E 3 189.28 -13.24 18.091 1 85.18 ? O1A APC 704 A 1 HETATM 11 O O2A APC . . . E 3 188.12 -15.093 19.397 1 152.85 ? O2A APC 704 A 1 HETATM 12 C C3A APC . . . E 3 186.652 -13.629 17.679 1 129.66 ? C3A APC 704 A 1 HETATM 13 O O5' APC . . . E 3 187.812 -12.686 20.046 1 112.51 ? O5' APC 704 A 1 HETATM 14 C C5' APC . . . E 3 186.664 -12.768 20.933 1 107.86 ? C5' APC 704 A 1 HETATM 15 C C4' APC . . . E 3 185.553 -11.889 20.405 1 117.62 ? C4' APC 704 A 1 HETATM 16 O O4' APC . . . E 3 184.646 -11.552 21.481 1 104.18 ? O4' APC 704 A 1 HETATM 17 C C3' APC . . . E 3 186.016 -10.562 19.79 1 99.76 ? C3' APC 704 A 1 HETATM 18 O O3' APC . . . E 3 185.943 -10.599 18.367 1 92.62 ? O3' APC 704 A 1 HETATM 19 C C2' APC . . . E 3 185.078 -9.508 20.374 1 78.14 ? C2' APC 704 A 1 HETATM 20 O O2' APC . . . E 3 183.983 -9.242 19.521 1 80.03 ? O2' APC 704 A 1 HETATM 21 C C1' APC . . . E 3 184.591 -10.158 21.664 1 68.52 ? C1' APC 704 A 1 HETATM 22 N N9 APC . . . E 3 185.359 -9.806 22.855 1 71.07 ? N9 APC 704 A 1 HETATM 23 C C8 APC . . . E 3 186.719 -9.654 22.974 1 71.35 ? C8 APC 704 A 1 HETATM 24 N N7 APC . . . E 3 187.1 -9.323 24.184 1 60.78 ? N7 APC 704 A 1 HETATM 25 C C5 APC . . . E 3 185.919 -9.239 24.908 1 61.78 ? C5 APC 704 A 1 HETATM 26 C C6 APC . . . E 3 185.647 -8.921 26.254 1 56.81 ? C6 APC 704 A 1 HETATM 27 N N6 APC . . . E 3 186.582 -8.612 27.147 1 61.88 ? N6 APC 704 A 1 HETATM 28 N N1 APC . . . E 3 184.352 -8.924 26.647 1 57.29 ? N1 APC 704 A 1 HETATM 29 C C2 APC . . . E 3 183.412 -9.234 25.747 1 61.15 ? C2 APC 704 A 1 HETATM 30 N N3 APC . . . E 3 183.547 -9.551 24.463 1 60.4 ? N3 APC 704 A 1 HETATM 31 C C4 APC . . . E 3 184.839 -9.534 24.098 1 70.55 ? C4 APC 704 A 1 HETATM 32 H H3A1 APC . . . E 3 185.895 -13.21 18.135 1 155.74 ? H3A1 APC 704 A 1 HETATM 33 H H3A2 APC . . . E 3 186.896 -13.046 16.933 1 155.74 ? H3A2 APC 704 A 1 HETATM 34 H "H5'1" APC . . . E 3 186.92 -12.469 21.841 1 129.59 ? "H5'1" APC 704 A 1 HETATM 35 H "H5'2" APC . . . E 3 186.349 -13.703 20.989 1 129.59 ? "H5'2" APC 704 A 1 HETATM 36 H H4' APC . . . E 3 185.036 -12.392 19.74 1 141.3 ? H4' APC 704 A 1 HETATM 37 H H3' APC . . . E 3 186.941 -10.373 20.095 1 119.86 ? H3' APC 704 A 1 HETATM 38 H HO3' APC . . . E 3 185.147 -10.786 18.14 1 111.3 ? HO3' APC 704 A 1 HETATM 39 H H2' APC . . . E 3 185.598 -8.687 20.581 1 93.92 ? H2' APC 704 A 1 HETATM 40 H HO2' APC . . . E 3 183.522 -9.95 19.433 1 96.19 ? HO2' APC 704 A 1 HETATM 41 H H1' APC . . . E 3 183.653 -9.891 21.794 1 82.38 ? H1' APC 704 A 1 HETATM 42 H H8 APC . . . E 3 187.317 -9.776 22.257 1 85.77 ? H8 APC 704 A 1 HETATM 43 H HN61 APC . . . E 3 186.35 -8.423 27.972 1 74.41 ? HN61 APC 704 A 1 HETATM 44 H HN62 APC . . . E 3 187.426 -8.6 26.908 1 74.41 ? HN62 APC 704 A 1 HETATM 45 H H2 APC . . . E 3 182.524 -9.225 26.07 1 73.54 ? H2 APC 704 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 294 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 45 #