data_8KHL # _model_server_result.job_id lz49OAJZHNW9GnzlwmxpcQ _model_server_result.datetime_utc '2024-12-26 11:44:43' _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 8khl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 8KHL # _exptl.entry_id 8KHL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 767.534 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'COENZYME A' _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 102.089 _cell.angle_gamma 90 _cell.entry_id 8KHL _cell.length_a 96.107 _cell.length_b 79.067 _cell.length_c 121.783 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8KHL _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y (x,y,-x+z)' _symmetry.space_group_name_H-M 'I 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 ? 2 D N N ? 2 E N N ? 2 F N N # _chem_comp.formula 'C21 H36 N7 O16 P3 S' _chem_comp.formula_weight 767.534 _chem_comp.id COA _chem_comp.mon_nstd_flag . _chem_comp.name 'COENZYME A' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 N1A C2A COA sing 70 n y N1A C6A COA doub 71 n y C2A N3A COA doub 72 n y C2A H2A COA sing 73 n n N3A C4A COA sing 74 n y C4A C5A COA doub 75 n y C4A N9A COA sing 76 n y C5A C6A COA sing 77 n y C5A N7A COA sing 78 n y C6A N6A COA sing 79 n n N6A H61A COA sing 80 n n N6A H62A COA sing 81 n n N7A C8A COA doub 82 n y C8A N9A COA sing 83 n y C8A H8A COA sing 84 n n N9A C1B COA sing 85 n n C1B C2B COA sing 86 n n C1B O4B COA sing 87 n n C1B H1B COA sing 88 n n C2B O2B COA sing 89 n n C2B C3B COA sing 90 n n C2B H2B COA sing 91 n n O2B HO2A COA sing 92 n n C3B O3B COA sing 93 n n C3B C4B COA sing 94 n n C3B H3B COA sing 95 n n O3B P3B COA sing 96 n n P3B O7A COA doub 97 n n P3B O8A COA sing 98 n n P3B O9A COA sing 99 n n O8A HOA8 COA sing 100 n n O9A HOA9 COA sing 101 n n C4B O4B COA sing 102 n n C4B C5B COA sing 103 n n C4B H4B COA sing 104 n n C5B O5B COA sing 105 n n C5B H51A COA sing 106 n n C5B H52A COA sing 107 n n O5B P1A COA sing 108 n n P1A O1A COA doub 109 n n P1A O2A COA sing 110 n n P1A O3A COA sing 111 n n O2A HOA2 COA sing 112 n n O3A P2A COA sing 113 n n P2A O4A COA doub 114 n n P2A O5A COA sing 115 n n P2A O6A COA sing 116 n n O5A HOA5 COA sing 117 n n O6A CCP COA sing 118 n n CBP CCP COA sing 119 n n CBP CDP COA sing 120 n n CBP CEP COA sing 121 n n CBP CAP COA sing 122 n n CCP H121 COA sing 123 n n CCP H122 COA sing 124 n n CDP H131 COA sing 125 n n CDP H132 COA sing 126 n n CDP H133 COA sing 127 n n CEP H141 COA sing 128 n n CEP H142 COA sing 129 n n CEP H143 COA sing 130 n n CAP OAP COA sing 131 n n CAP C9P COA sing 132 n n CAP H10 COA sing 133 n n OAP HO1 COA sing 134 n n C9P O9P COA doub 135 n n C9P N8P COA sing 136 n n N8P C7P COA sing 137 n n N8P HN8 COA sing 138 n n C7P C6P COA sing 139 n n C7P H71 COA sing 140 n n C7P H72 COA sing 141 n n C6P C5P COA sing 142 n n C6P H61 COA sing 143 n n C6P H62 COA sing 144 n n C5P O5P COA doub 145 n n C5P N4P COA sing 146 n n N4P C3P COA sing 147 n n N4P HN4 COA sing 148 n n C3P C2P COA sing 149 n n C3P H31 COA sing 150 n n C3P H32 COA sing 151 n n C2P S1P COA sing 152 n n C2P H21 COA sing 153 n n C2P H22 COA sing 154 n n S1P HS1 COA sing 155 n n # _atom_sites.entry_id 8KHL _atom_sites.fract_transf_matrix[1][1] 0.010405 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002229 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012648 _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] 0.008398 _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 D 2 COA A 1 301 301 COA COA . E 2 COA B 1 301 301 COA COA . F 2 COA C 1 301 302 COA COA . G 3 HOH A 1 401 5 HOH HOH . G 3 HOH A 2 402 21 HOH HOH . G 3 HOH A 3 403 31 HOH HOH . G 3 HOH A 4 404 26 HOH HOH . G 3 HOH A 5 405 15 HOH HOH . G 3 HOH A 6 406 29 HOH HOH . G 3 HOH A 7 407 23 HOH HOH . G 3 HOH A 8 408 14 HOH HOH . G 3 HOH A 9 409 27 HOH HOH . G 3 HOH A 10 410 8 HOH HOH . G 3 HOH A 11 411 9 HOH HOH . H 3 HOH B 1 401 18 HOH HOH . H 3 HOH B 2 402 11 HOH HOH . H 3 HOH B 3 403 12 HOH HOH . H 3 HOH B 4 404 24 HOH HOH . H 3 HOH B 5 405 22 HOH HOH . H 3 HOH B 6 406 28 HOH HOH . H 3 HOH B 7 407 16 HOH HOH . H 3 HOH B 8 408 10 HOH HOH . H 3 HOH B 9 409 30 HOH HOH . H 3 HOH B 10 410 32 HOH HOH . I 3 HOH C 1 401 7 HOH HOH . I 3 HOH C 2 402 6 HOH HOH . I 3 HOH C 3 403 2 HOH HOH . I 3 HOH C 4 404 1 HOH HOH . I 3 HOH C 5 405 3 HOH HOH . I 3 HOH C 6 406 13 HOH HOH . I 3 HOH C 7 407 20 HOH HOH . I 3 HOH C 8 408 19 HOH HOH . I 3 HOH C 9 409 17 HOH HOH . I 3 HOH C 10 410 4 HOH HOH . I 3 HOH C 11 411 25 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 N N1A COA . . . E 2 -11.582 -32.255 -74.973 1 21.68 ? N1A COA 301 B 1 HETATM 2 C C2A COA . . . E 2 -11.354 -33.332 -75.734 1 22.03 ? C2A COA 301 B 1 HETATM 3 N N3A COA . . . E 2 -10.618 -33.446 -76.834 1 25.14 ? N3A COA 301 B 1 HETATM 4 C C4A COA . . . E 2 -10.071 -32.266 -77.157 1 25.42 ? C4A COA 301 B 1 HETATM 5 C C5A COA . . . E 2 -10.214 -31.074 -76.485 1 22.94 ? C5A COA 301 B 1 HETATM 6 C C6A COA . . . E 2 -11.019 -31.079 -75.332 1 20.86 ? C6A COA 301 B 1 HETATM 7 N N6A COA . . . E 2 -11.235 -30.009 -74.577 1 21.68 ? N6A COA 301 B 1 HETATM 8 N N7A COA . . . E 2 -9.491 -30.077 -77.12 1 26 ? N7A COA 301 B 1 HETATM 9 C C8A COA . . . E 2 -8.935 -30.673 -78.148 1 33.06 ? C8A COA 301 B 1 HETATM 10 N N9A COA . . . E 2 -9.258 -32.003 -78.222 1 30.04 ? N9A COA 301 B 1 HETATM 11 C C1B COA . . . E 2 -8.798 -32.971 -79.199 1 29.15 ? C1B COA 301 B 1 HETATM 12 C C2B COA . . . E 2 -9.574 -32.994 -80.514 1 32.93 ? C2B COA 301 B 1 HETATM 13 O O2B COA . . . E 2 -10.59 -33.969 -80.543 1 37.15 ? O2B COA 301 B 1 HETATM 14 C C3B COA . . . E 2 -8.462 -33.339 -81.498 1 37.23 ? C3B COA 301 B 1 HETATM 15 O O3B COA . . . E 2 -8.099 -34.71 -81.441 1 41.31 ? O3B COA 301 B 1 HETATM 16 P P3B COA . . . E 2 -8.217 -35.365 -82.902 1 52.29 ? P3B COA 301 B 1 HETATM 17 O O7A COA . . . E 2 -8.134 -36.855 -82.679 1 44.27 ? O7A COA 301 B 1 HETATM 18 O O8A COA . . . E 2 -7.037 -34.837 -83.684 1 45.35 ? O8A COA 301 B 1 HETATM 19 O O9A COA . . . E 2 -9.539 -34.962 -83.516 1 42.56 ? O9A COA 301 B 1 HETATM 20 C C4B COA . . . E 2 -7.355 -32.474 -80.952 1 34.52 ? C4B COA 301 B 1 HETATM 21 O O4B COA . . . E 2 -7.468 -32.635 -79.52 1 30.25 ? O4B COA 301 B 1 HETATM 22 C C5B COA . . . E 2 -7.514 -31.028 -81.332 1 28.97 ? C5B COA 301 B 1 HETATM 23 O O5B COA . . . E 2 -6.424 -30.257 -80.824 1 25.99 ? O5B COA 301 B 1 HETATM 24 P P1A COA . . . E 2 -6.474 -28.745 -81.311 1 33.02 ? P1A COA 301 B 1 HETATM 25 O O1A COA . . . E 2 -6.496 -28.708 -82.798 1 36.46 ? O1A COA 301 B 1 HETATM 26 O O2A COA . . . E 2 -5.443 -27.952 -80.591 1 32.29 ? O2A COA 301 B 1 HETATM 27 O O3A COA . . . E 2 -7.913 -28.298 -80.786 1 36.87 ? O3A COA 301 B 1 HETATM 28 P P2A COA . . . E 2 -8.953 -27.199 -81.299 1 27.58 ? P2A COA 301 B 1 HETATM 29 O O4A COA . . . E 2 -8.211 -25.973 -81.699 1 25.91 ? O4A COA 301 B 1 HETATM 30 O O5A COA . . . E 2 -9.895 -27.823 -82.266 1 22.77 ? O5A COA 301 B 1 HETATM 31 O O6A COA . . . E 2 -9.749 -26.891 -79.951 1 31.19 ? O6A COA 301 B 1 HETATM 32 C CBP COA . . . E 2 -10.169 -25.797 -77.852 1 27.51 ? CBP COA 301 B 1 HETATM 33 C CCP COA . . . E 2 -9.13 -26.074 -78.928 1 26.59 ? CCP COA 301 B 1 HETATM 34 C CDP COA . . . E 2 -9.642 -24.715 -76.909 1 26.49 ? CDP COA 301 B 1 HETATM 35 C CEP COA . . . E 2 -11.447 -25.287 -78.513 1 25.57 ? CEP COA 301 B 1 HETATM 36 C CAP COA . . . E 2 -10.459 -27.083 -77.074 1 25.33 ? CAP COA 301 B 1 HETATM 37 O OAP COA . . . E 2 -9.304 -27.413 -76.328 1 29.14 ? OAP COA 301 B 1 HETATM 38 C C9P COA . . . E 2 -11.648 -26.986 -76.141 1 26.4 ? C9P COA 301 B 1 HETATM 39 O O9P COA . . . E 2 -12.792 -27.019 -76.579 1 22.03 ? O9P COA 301 B 1 HETATM 40 N N8P COA . . . E 2 -11.375 -26.862 -74.854 1 20.88 ? N8P COA 301 B 1 HETATM 41 C C7P COA . . . E 2 -11.827 -25.731 -74.066 1 21.08 ? C7P COA 301 B 1 HETATM 42 C C6P COA . . . E 2 -12.648 -26.173 -72.9 1 26.75 ? C6P COA 301 B 1 HETATM 43 C C5P COA . . . E 2 -13.769 -25.201 -72.625 1 18.22 ? C5P COA 301 B 1 HETATM 44 O O5P COA . . . E 2 -14.931 -25.5 -72.871 1 22.5 ? O5P COA 301 B 1 HETATM 45 N N4P COA . . . E 2 -13.425 -24.021 -72.105 1 17.88 ? N4P COA 301 B 1 HETATM 46 C C3P COA . . . E 2 -14.337 -23.164 -71.365 1 23.25 ? C3P COA 301 B 1 HETATM 47 C C2P COA . . . E 2 -14.119 -23.248 -69.879 1 18.93 ? C2P COA 301 B 1 HETATM 48 S S1P COA . . . E 2 -12.677 -22.295 -69.344 1 20.92 ? S1P COA 301 B 1 HETATM 49 H H2A COA . . . E 2 -11.835 -34.242 -75.403 1 26.53 ? H2A COA 301 B 1 HETATM 50 H H61A COA . . . E 2 -12.116 -29.509 -74.65 1 26.11 ? H61A COA 301 B 1 HETATM 51 H H62A COA . . . E 2 -10.512 -29.691 -73.937 1 26.11 ? H62A COA 301 B 1 HETATM 52 H H8A COA . . . E 2 -8.294 -30.158 -78.85 1 39.77 ? H8A COA 301 B 1 HETATM 53 H H1B COA . . . E 2 -8.829 -33.965 -78.757 1 35.09 ? H1B COA 301 B 1 HETATM 54 H H2B COA . . . E 2 -9.99 -32.012 -80.733 1 39.61 ? H2B COA 301 B 1 HETATM 55 H HO2A COA . . . E 2 -10.184 -34.835 -80.7 1 44.68 ? HO2A COA 301 B 1 HETATM 56 H H3B COA . . . E 2 -8.723 -33.033 -82.509 1 44.78 ? H3B COA 301 B 1 HETATM 57 H H4B COA . . . E 2 -6.388 -32.837 -81.297 1 41.53 ? H4B COA 301 B 1 HETATM 58 H H51A COA . . . E 2 -8.451 -30.648 -80.93 1 34.87 ? H51A COA 301 B 1 HETATM 59 H H52A COA . . . E 2 -7.55 -30.945 -82.417 1 34.87 ? H52A COA 301 B 1 HETATM 60 H H121 COA . . . E 2 -8.783 -25.134 -79.354 1 32.02 ? H121 COA 301 B 1 HETATM 61 H H122 COA . . . E 2 -8.277 -26.596 -78.497 1 32.02 ? H122 COA 301 B 1 HETATM 62 H H131 COA . . . E 2 -8.559 -24.792 -76.839 1 31.89 ? H131 COA 301 B 1 HETATM 63 H H132 COA . . . E 2 -10.079 -24.844 -75.92 1 31.89 ? H132 COA 301 B 1 HETATM 64 H H133 COA . . . E 2 -9.912 -23.734 -77.297 1 31.89 ? H133 COA 301 B 1 HETATM 65 H H141 COA . . . E 2 -12.033 -26.131 -78.872 1 30.79 ? H141 COA 301 B 1 HETATM 66 H H142 COA . . . E 2 -11.189 -24.642 -79.351 1 30.79 ? H142 COA 301 B 1 HETATM 67 H H143 COA . . . E 2 -12.031 -24.722 -77.787 1 30.79 ? H143 COA 301 B 1 HETATM 68 H H10 COA . . . E 2 -10.65 -27.875 -77.797 1 30.5 ? H10 COA 301 B 1 HETATM 69 H HO1 COA . . . E 2 -8.828 -28.13 -76.775 1 35.07 ? HO1 COA 301 B 1 HETATM 70 H HN8 COA . . . E 2 -10.805 -27.569 -74.401 1 25.16 ? HN8 COA 301 B 1 HETATM 71 H H71 COA . . . E 2 -12.421 -25.07 -74.694 1 25.4 ? H71 COA 301 B 1 HETATM 72 H H72 COA . . . E 2 -10.962 -25.175 -73.708 1 25.4 ? H72 COA 301 B 1 HETATM 73 H H61 COA . . . E 2 -12.015 -26.249 -72.017 1 32.21 ? H61 COA 301 B 1 HETATM 74 H H62 COA . . . E 2 -13.067 -27.157 -73.103 1 32.21 ? H62 COA 301 B 1 HETATM 75 H HN4 COA . . . E 2 -12.466 -23.713 -72.233 1 21.56 ? HN4 COA 301 B 1 HETATM 76 H H31 COA . . . E 2 -15.364 -23.448 -71.588 1 28 ? H31 COA 301 B 1 HETATM 77 H H32 COA . . . E 2 -14.195 -22.133 -71.684 1 28 ? H32 COA 301 B 1 HETATM 78 H H21 COA . . . E 2 -13.978 -24.291 -69.6 1 22.82 ? H21 COA 301 B 1 HETATM 79 H H22 COA . . . E 2 -15.003 -22.871 -69.368 1 22.82 ? H22 COA 301 B 1 HETATM 80 H HS1 COA . . . E 2 -12.139 -22.123 -70.557 1 25.21 ? HS1 COA 301 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 34 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 916 _model_server_stats.encode_time_ms 35 _model_server_stats.element_count 80 #