data_8VLI # _model_server_result.job_id y66FsgV6GbarFY57_vysTg _model_server_result.datetime_utc '2025-02-05 14:49:45' _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 8vli # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":703}' # _entry.id 8VLI # _exptl.entry_id 8VLI _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 767.534 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'COENZYME A' _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 90 _cell.angle_gamma 90 _cell.entry_id 8VLI _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VLI _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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 _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 ? _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 F N N ? 4 K N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n C NAG 1 C 1 NAG A 786 NAG 2 n C NAG 2 C 2 NAG A 787 NAG # 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 104 A CYS 104 1_555 A SG CYS 107 A CYS 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 A SG CYS 151 A CYS 151 1_555 A SG CYS 179 A CYS 179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 A SG CYS 443 A CYS 443 1_555 A SG CYS 462 A CYS 462 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf4 B SG CYS 104 B CYS 104 1_555 B SG CYS 107 B CYS 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf5 B SG CYS 151 B CYS 151 1_555 B SG CYS 179 B CYS 179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 B SG CYS 443 B CYS 443 1_555 B SG CYS 462 B CYS 462 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? covale ? covale1 A ND2 ASN 94 A ASN 94 1_555 E C1 NAG . A NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale2 A ND2 ASN 142 A ASN 142 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale3 A ND2 ASN 162 A ASN 162 1_555 D C1 NAG . A NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 B ND2 ASN 94 B ASN 94 1_555 I C1 NAG . B NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale5 B ND2 ASN 142 B ASN 142 1_555 J C1 NAG . B NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale6 B ND2 ASN 162 B ASN 162 1_555 H C1 NAG . B NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale7 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? # _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 120 n y N1A C6A COA doub 121 n y C2A N3A COA doub 122 n y C2A H2A COA sing 123 n n N3A C4A COA sing 124 n y C4A C5A COA doub 125 n y C4A N9A COA sing 126 n y C5A C6A COA sing 127 n y C5A N7A COA sing 128 n y C6A N6A COA sing 129 n n N6A H61A COA sing 130 n n N6A H62A COA sing 131 n n N7A C8A COA doub 132 n y C8A N9A COA sing 133 n y C8A H8A COA sing 134 n n N9A C1B COA sing 135 n n C1B C2B COA sing 136 n n C1B O4B COA sing 137 n n C1B H1B COA sing 138 n n C2B O2B COA sing 139 n n C2B C3B COA sing 140 n n C2B H2B COA sing 141 n n O2B HO2A COA sing 142 n n C3B O3B COA sing 143 n n C3B C4B COA sing 144 n n C3B H3B COA sing 145 n n O3B P3B COA sing 146 n n P3B O7A COA doub 147 n n P3B O8A COA sing 148 n n P3B O9A COA sing 149 n n O8A HOA8 COA sing 150 n n O9A HOA9 COA sing 151 n n C4B O4B COA sing 152 n n C4B C5B COA sing 153 n n C4B H4B COA sing 154 n n C5B O5B COA sing 155 n n C5B H51A COA sing 156 n n C5B H52A COA sing 157 n n O5B P1A COA sing 158 n n P1A O1A COA doub 159 n n P1A O2A COA sing 160 n n P1A O3A COA sing 161 n n O2A HOA2 COA sing 162 n n O3A P2A COA sing 163 n n P2A O4A COA doub 164 n n P2A O5A COA sing 165 n n P2A O6A COA sing 166 n n O5A HOA5 COA sing 167 n n O6A CCP COA sing 168 n n CBP CCP COA sing 169 n n CBP CDP COA sing 170 n n CBP CEP COA sing 171 n n CBP CAP COA sing 172 n n CCP H121 COA sing 173 n n CCP H122 COA sing 174 n n CDP H131 COA sing 175 n n CDP H132 COA sing 176 n n CDP H133 COA sing 177 n n CEP H141 COA sing 178 n n CEP H142 COA sing 179 n n CEP H143 COA sing 180 n n CAP OAP COA sing 181 n n CAP C9P COA sing 182 n n CAP H10 COA sing 183 n n OAP HO1 COA sing 184 n n C9P O9P COA doub 185 n n C9P N8P COA sing 186 n n N8P C7P COA sing 187 n n N8P HN8 COA sing 188 n n C7P C6P COA sing 189 n n C7P H71 COA sing 190 n n C7P H72 COA sing 191 n n C6P C5P COA sing 192 n n C6P H61 COA sing 193 n n C6P H62 COA sing 194 n n C5P O5P COA doub 195 n n C5P N4P COA sing 196 n n N4P C3P COA sing 197 n n N4P HN4 COA sing 198 n n C3P C2P COA sing 199 n n C3P H31 COA sing 200 n n C3P H32 COA sing 201 n n C2P S1P COA sing 202 n n C2P H21 COA sing 203 n n C2P H22 COA sing 204 n n S1P HS1 COA sing 205 n n # _atom_sites.entry_id 8VLI _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 3 NAG A 1 701 778 NAG NAG . E 3 NAG A 1 702 785 NAG NAG . F 4 COA A 1 703 788 COA COA . G 5 A1AC0 A 1 704 789 A1AC0 MUG . H 3 NAG B 1 701 777 NAG NAG . I 3 NAG B 1 702 782 NAG NAG . J 3 NAG B 1 703 783 NAG NAG . K 4 COA B 1 704 784 COA COA . L 5 A1AC0 B 1 705 785 A1AC0 MUG . # 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 . . . F 4 195.083 170.027 195.353 1 44.66 ? N1A COA 703 A 1 HETATM 2 C C2A COA . . . F 4 195.634 171.277 195.128 1 40.55 ? C2A COA 703 A 1 HETATM 3 N N3A COA . . . F 4 195.101 172.348 194.532 1 34.09 ? N3A COA 703 A 1 HETATM 4 C C4A COA . . . F 4 193.817 172.127 194.095 1 32.1 ? C4A COA 703 A 1 HETATM 5 C C5A COA . . . F 4 193.117 170.891 194.254 1 34.5 ? C5A COA 703 A 1 HETATM 6 C C6A COA . . . F 4 193.811 169.856 194.902 1 36.33 ? C6A COA 703 A 1 HETATM 7 N N6A COA . . . F 4 193.199 168.637 195.09 1 34.35 ? N6A COA 703 A 1 HETATM 8 N N7A COA . . . F 4 191.835 170.973 193.707 1 35.73 ? N7A COA 703 A 1 HETATM 9 C C8A COA . . . F 4 191.774 172.238 193.231 1 38.76 ? C8A COA 703 A 1 HETATM 10 N N9A COA . . . F 4 192.95 172.972 193.441 1 30.06 ? N9A COA 703 A 1 HETATM 11 C C1B COA . . . F 4 193.172 174.378 193.033 1 30 ? C1B COA 703 A 1 HETATM 12 C C2B COA . . . F 4 194.132 174.585 191.784 1 40.51 ? C2B COA 703 A 1 HETATM 13 O O2B COA . . . F 4 195.032 175.607 192.008 1 48.27 ? O2B COA 703 A 1 HETATM 14 C C3B COA . . . F 4 192.996 174.871 190.686 1 38.33 ? C3B COA 703 A 1 HETATM 15 O O3B COA . . . F 4 193.552 175.687 189.768 1 37.03 ? O3B COA 703 A 1 HETATM 16 P P3B COA . . . F 4 195.072 175.279 188.812 1 67.69 ? P3B COA 703 A 1 HETATM 17 O O7A COA . . . F 4 194.868 173.783 188.749 1 42.68 ? O7A COA 703 A 1 HETATM 18 O O8A COA . . . F 4 196.18 175.747 189.733 1 45.05 ? O8A COA 703 A 1 HETATM 19 O O9A COA . . . F 4 194.882 176.138 187.59 1 46.2 ? O9A COA 703 A 1 HETATM 20 C C4B COA . . . F 4 192.028 175.674 191.572 1 35.32 ? C4B COA 703 A 1 HETATM 21 O O4B COA . . . F 4 191.914 174.907 192.728 1 24.73 ? O4B COA 703 A 1 HETATM 22 C C5B COA . . . F 4 190.628 175.841 190.943 1 35.15 ? C5B COA 703 A 1 HETATM 23 O O5B COA . . . F 4 189.934 174.693 191.231 1 35.1 ? O5B COA 703 A 1 HETATM 24 P P1A COA . . . F 4 188.76 173.981 190.307 1 47.43 ? P1A COA 703 A 1 HETATM 25 O O1A COA . . . F 4 188.072 174.961 189.41 1 35.22 ? O1A COA 703 A 1 HETATM 26 O O2A COA . . . F 4 189.233 172.617 189.922 1 35.23 ? O2A COA 703 A 1 HETATM 27 O O3A COA . . . F 4 187.63 173.928 191.444 1 43.97 ? O3A COA 703 A 1 HETATM 28 P P2A COA . . . F 4 187.526 174.352 192.949 1 52.28 ? P2A COA 703 A 1 HETATM 29 O O4A COA . . . F 4 187.585 173.189 193.888 1 34.67 ? O4A COA 703 A 1 HETATM 30 O O5A COA . . . F 4 187.944 175.728 193.349 1 38.79 ? O5A COA 703 A 1 HETATM 31 O O6A COA . . . F 4 185.786 174.637 192.856 1 37.86 ? O6A COA 703 A 1 HETATM 32 C CBP COA . . . F 4 184.165 175.431 191.319 1 24.19 ? CBP COA 703 A 1 HETATM 33 C CCP COA . . . F 4 185.251 175.786 192.401 1 33.45 ? CCP COA 703 A 1 HETATM 34 C CDP COA . . . F 4 183.274 176.638 191.069 1 29.41 ? CDP COA 703 A 1 HETATM 35 C CEP COA . . . F 4 184.884 175.044 190.05 1 31.28 ? CEP COA 703 A 1 HETATM 36 C CAP COA . . . F 4 183.271 174.299 191.879 1 30.77 ? CAP COA 703 A 1 HETATM 37 O OAP COA . . . F 4 183.011 174.426 193.247 1 39.66 ? OAP COA 703 A 1 HETATM 38 C C9P COA . . . F 4 182.033 174.075 191.018 1 38.68 ? C9P COA 703 A 1 HETATM 39 O O9P COA . . . F 4 182.042 173.454 189.972 1 37.98 ? O9P COA 703 A 1 HETATM 40 N N8P COA . . . F 4 180.826 174.619 191.489 1 40.38 ? N8P COA 703 A 1 HETATM 41 C C7P COA . . . F 4 179.58 174.488 190.778 1 33.57 ? C7P COA 703 A 1 HETATM 42 C C6P COA . . . F 4 178.827 173.299 191.379 1 28.49 ? C6P COA 703 A 1 HETATM 43 C C5P COA . . . F 4 177.928 173.764 192.493 1 29.43 ? C5P COA 703 A 1 HETATM 44 O O5P COA . . . F 4 178.161 174.708 193.23 1 30.22 ? O5P COA 703 A 1 HETATM 45 N N4P COA . . . F 4 176.761 173.021 192.647 1 32.85 ? N4P COA 703 A 1 HETATM 46 C C3P COA . . . F 4 175.791 173.333 193.671 1 25.96 ? C3P COA 703 A 1 HETATM 47 C C2P COA . . . F 4 174.486 172.622 193.344 1 26.67 ? C2P COA 703 A 1 HETATM 48 S S1P COA . . . F 4 173.889 173.322 191.777 1 45.6 ? S1P COA 703 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 344 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 48 #