data_1WDM # _model_server_result.job_id kykcQapcpC1x0lrcTnp4UA _model_server_result.datetime_utc '2025-02-16 22:46:58' _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 1wdm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1002}' # _entry.id 1WDM # _exptl.entry_id 1WDM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 809.571 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ACETYL 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 111.79 _cell.angle_gamma 90 _cell.entry_id 1WDM _cell.length_a 181.453 _cell.length_b 95.462 _cell.length_c 161.325 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1WDM _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 tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 F N N ? 4 I N N ? 4 J 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 metalc ? metalc1 A NE2 HIS 550 A HIS 550 1_555 E ZN ZN . A ZN 716 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.215 ? metalc ? metalc2 E ZN ZN . A ZN 716 1_555 D OE2 GLU 265 D GLU 266 3_445 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? # _chem_comp.formula 'C23 H38 N7 O17 P3 S' _chem_comp.formula_weight 809.571 _chem_comp.id ACO _chem_comp.mon_nstd_flag . _chem_comp.name 'ACETYL 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 ACO sing 1 n y N1A C6A ACO doub 2 n y C2A N3A ACO doub 3 n y C2A H2A ACO sing 4 n n N3A C4A ACO sing 5 n y C4A C5A ACO doub 6 n y C4A N9A ACO sing 7 n y C5A C6A ACO sing 8 n y C5A N7A ACO sing 9 n y C6A N6A ACO sing 10 n n N6A H61A ACO sing 11 n n N6A H62A ACO sing 12 n n N7A C8A ACO doub 13 n y C8A N9A ACO sing 14 n y C8A H8A ACO sing 15 n n N9A C1B ACO sing 16 n n C1B C2B ACO sing 17 n n C1B O4B ACO sing 18 n n C1B H1B ACO sing 19 n n C2B O2B ACO sing 20 n n C2B C3B ACO sing 21 n n C2B H2B ACO sing 22 n n O2B HO2A ACO sing 23 n n C3B O3B ACO sing 24 n n C3B C4B ACO sing 25 n n C3B H3B ACO sing 26 n n O3B P3B ACO sing 27 n n P3B O7A ACO doub 28 n n P3B O8A ACO sing 29 n n P3B O9A ACO sing 30 n n O8A HOA8 ACO sing 31 n n O9A HOA9 ACO sing 32 n n C4B O4B ACO sing 33 n n C4B C5B ACO sing 34 n n C4B H4B ACO sing 35 n n C5B O5B ACO sing 36 n n C5B H51A ACO sing 37 n n C5B H52A ACO sing 38 n n O5B P1A ACO sing 39 n n P1A O1A ACO doub 40 n n P1A O2A ACO sing 41 n n P1A O3A ACO sing 42 n n O2A HOA2 ACO sing 43 n n O3A P2A ACO sing 44 n n P2A O4A ACO doub 45 n n P2A O5A ACO sing 46 n n P2A O6A ACO sing 47 n n O5A HOA5 ACO sing 48 n n O6A CCP ACO sing 49 n n CBP CCP ACO sing 50 n n CBP CDP ACO sing 51 n n CBP CEP ACO sing 52 n n CBP CAP ACO sing 53 n n CCP H121 ACO sing 54 n n CCP H122 ACO sing 55 n n CDP H131 ACO sing 56 n n CDP H132 ACO sing 57 n n CDP H133 ACO sing 58 n n CEP H141 ACO sing 59 n n CEP H142 ACO sing 60 n n CEP H143 ACO sing 61 n n CAP OAP ACO sing 62 n n CAP C9P ACO sing 63 n n CAP H10 ACO sing 64 n n OAP HO1 ACO sing 65 n n C9P O9P ACO doub 66 n n C9P N8P ACO sing 67 n n N8P C7P ACO sing 68 n n N8P HN8 ACO sing 69 n n C7P C6P ACO sing 70 n n C7P H71 ACO sing 71 n n C7P H72 ACO sing 72 n n C6P C5P ACO sing 73 n n C6P H61 ACO sing 74 n n C6P H62 ACO sing 75 n n C5P O5P ACO doub 76 n n C5P N4P ACO sing 77 n n N4P C3P ACO sing 78 n n N4P HN4 ACO sing 79 n n C3P C2P ACO sing 80 n n C3P H31 ACO sing 81 n n C3P H32 ACO sing 82 n n C2P S1P ACO sing 83 n n C2P H21 ACO sing 84 n n C2P H22 ACO sing 85 n n S1P C ACO sing 86 n n C O ACO doub 87 n n C CH3 ACO sing 88 n n CH3 HH31 ACO sing 89 n n CH3 HH32 ACO sing 90 n n CH3 HH33 ACO sing 91 n n # _atom_sites.entry_id 1WDM _atom_sites.fract_transf_matrix[1][1] 0.005511 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002203 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010475 _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] 0.006676 _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 E 3 ZN A 1 716 1 ZN ZN2 . F 4 ACO A 1 1002 1002 ACO ACC . G 5 NAD A 1 1001 1001 NAD NAD . H 5 NAD B 1 2001 1001 NAD NAD . I 4 ACO C 1 3001 1001 ACO ACC . J 4 ACO D 1 4001 1001 ACO ACC . # 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 ACO . . . F 4 -21.03 45.102 96.641 1 160.21 ? N1A ACO 1002 A 1 HETATM 2 C C2A ACO . . . F 4 -21.457 45.218 97.927 1 160.21 ? C2A ACO 1002 A 1 HETATM 3 N N3A ACO . . . F 4 -22.719 45.432 98.372 1 160.21 ? N3A ACO 1002 A 1 HETATM 4 C C4A ACO . . . F 4 -23.615 45.522 97.33 1 160.21 ? C4A ACO 1002 A 1 HETATM 5 C C5A ACO . . . F 4 -23.314 45.428 95.962 1 160.21 ? C5A ACO 1002 A 1 HETATM 6 C C6A ACO . . . F 4 -21.948 45.199 95.621 1 160.21 ? C6A ACO 1002 A 1 HETATM 7 N N6A ACO . . . F 4 -21.513 45.083 94.364 1 160.21 ? N6A ACO 1002 A 1 HETATM 8 N N7A ACO . . . F 4 -24.461 45.569 95.197 1 160.21 ? N7A ACO 1002 A 1 HETATM 9 C C8A ACO . . . F 4 -25.411 45.75 96.082 1 160.21 ? C8A ACO 1002 A 1 HETATM 10 N N9A ACO . . . F 4 -24.98 45.737 97.399 1 160.21 ? N9A ACO 1002 A 1 HETATM 11 C C1B ACO . . . F 4 -25.784 45.905 98.63 1 160.21 ? C1B ACO 1002 A 1 HETATM 12 C C2B ACO . . . F 4 -27.02 46.79 98.422 1 160.21 ? C2B ACO 1002 A 1 HETATM 13 O O2B ACO . . . F 4 -26.685 48.161 98.53 1 160.21 ? O2B ACO 1002 A 1 HETATM 14 C C3B ACO . . . F 4 -27.928 46.29 99.548 1 160.21 ? C3B ACO 1002 A 1 HETATM 15 O O3B ACO . . . F 4 -27.615 46.927 100.793 1 160.21 ? O3B ACO 1002 A 1 HETATM 16 P P3B ACO . . . F 4 -28.714 47.81 101.552 1 160.21 ? P3B ACO 1002 A 1 HETATM 17 O O7A ACO . . . F 4 -29.015 48.986 100.686 1 160.21 ? O7A ACO 1002 A 1 HETATM 18 O O8A ACO . . . F 4 -29.912 46.95 101.751 1 160.21 ? O8A ACO 1002 A 1 HETATM 19 O O9A ACO . . . F 4 -28.125 48.227 102.847 1 160.21 ? O9A ACO 1002 A 1 HETATM 20 C C4B ACO . . . F 4 -27.628 44.787 99.602 1 160.21 ? C4B ACO 1002 A 1 HETATM 21 O O4B ACO . . . F 4 -26.295 44.639 99.002 1 160.21 ? O4B ACO 1002 A 1 HETATM 22 C C5B ACO . . . F 4 -28.618 43.952 98.808 1 160.21 ? C5B ACO 1002 A 1 HETATM 23 O O5B ACO . . . F 4 -28.914 42.716 99.482 1 160.21 ? O5B ACO 1002 A 1 HETATM 24 P P1A ACO . . . F 4 -27.965 41.427 99.328 1 160.21 ? P1A ACO 1002 A 1 HETATM 25 O O1A ACO . . . F 4 -27.202 41.528 98.045 1 160.21 ? O1A ACO 1002 A 1 HETATM 26 O O2A ACO . . . F 4 -27.143 41.348 100.57 1 160.21 ? O2A ACO 1002 A 1 HETATM 27 O O3A ACO . . . F 4 -28.87 40.1 99.247 1 160.21 ? O3A ACO 1002 A 1 HETATM 28 P P2A ACO . . . F 4 -28.533 38.953 98.175 1 160.21 ? P2A ACO 1002 A 1 HETATM 29 O O4A ACO . . . F 4 -29.05 39.377 96.841 1 160.21 ? O4A ACO 1002 A 1 HETATM 30 O O5A ACO . . . F 4 -27.067 38.701 98.25 1 160.21 ? O5A ACO 1002 A 1 HETATM 31 O O6A ACO . . . F 4 -29.282 37.602 98.589 1 160.21 ? O6A ACO 1002 A 1 HETATM 32 C CBP ACO . . . F 4 -29.284 35.142 98.536 1 160.21 ? CBP ACO 1002 A 1 HETATM 33 C CCP ACO . . . F 4 -29.264 36.46 97.728 1 160.21 ? CCP ACO 1002 A 1 HETATM 34 C CDP ACO . . . F 4 -30.59 35.07 99.356 1 160.21 ? CDP ACO 1002 A 1 HETATM 35 C CEP ACO . . . F 4 -28.09 35.101 99.506 1 160.21 ? CEP ACO 1002 A 1 HETATM 36 C CAP ACO . . . F 4 -29.213 33.923 97.52 1 160.21 ? CAP ACO 1002 A 1 HETATM 37 O OAP ACO . . . F 4 -27.935 33.952 96.866 1 160.21 ? OAP ACO 1002 A 1 HETATM 38 C C9P ACO . . . F 4 -29.351 32.56 98.249 1 160.21 ? C9P ACO 1002 A 1 HETATM 39 O O9P ACO . . . F 4 -28.366 32.053 98.812 1 160.21 ? O9P ACO 1002 A 1 HETATM 40 N N8P ACO . . . F 4 -30.561 31.981 98.193 1 160.21 ? N8P ACO 1002 A 1 HETATM 41 C C7P ACO . . . F 4 -30.838 30.678 98.81 1 160.21 ? C7P ACO 1002 A 1 HETATM 42 C C6P ACO . . . F 4 -31.909 29.918 98.049 1 160.21 ? C6P ACO 1002 A 1 HETATM 43 C C5P ACO . . . F 4 -33.306 30.323 98.465 1 160.21 ? C5P ACO 1002 A 1 HETATM 44 O O5P ACO . . . F 4 -33.896 31.247 97.884 1 160.21 ? O5P ACO 1002 A 1 HETATM 45 N N4P ACO . . . F 4 -33.832 29.631 99.479 1 160.21 ? N4P ACO 1002 A 1 HETATM 46 C C3P ACO . . . F 4 -35.162 29.904 99.998 1 160.21 ? C3P ACO 1002 A 1 HETATM 47 C C2P ACO . . . F 4 -35.952 28.623 100.227 1 160.21 ? C2P ACO 1002 A 1 HETATM 48 S S1P ACO . . . F 4 -37.736 28.898 100.239 1 160.21 ? S1P ACO 1002 A 1 HETATM 49 C C ACO . . . F 4 -38.84 27.683 99.515 1 160.21 ? C ACO 1002 A 1 HETATM 50 O O ACO . . . F 4 -39.588 27.02 100.236 1 160.21 ? O ACO 1002 A 1 HETATM 51 C CH3 ACO . . . F 4 -38.857 27.468 98.018 1 160.21 ? CH3 ACO 1002 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 51 #