data_6ZFU # _model_server_result.job_id relzyxBPG7iKOCNEPNrgFw _model_server_result.datetime_utc '2024-11-27 05:16:58' _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 6zfu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Z","auth_seq_id":202}' # _entry.id 6ZFU # _exptl.entry_id 6ZFU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 678.94 _entity.id 21 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHOCHOLINE _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 120 _cell.entry_id 6ZFU _cell.length_a 210.74 _cell.length_b 210.74 _cell.length_c 343.935 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6ZFU _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details decameric _pdbx_struct_assembly.oligomeric_count 10 _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,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA _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 21 _struct_asym.id Z _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 E SG CYS 144 E CYS 144 1_555 E SG CYS 160 E CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf2 H SG CYS 12 H CYS 24 1_555 H SG CYS 56 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf3 H SG CYS 28 H CYS 40 1_555 H SG CYS 42 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc1 C NE2 HIS 82 C HIS 83 1_555 N FE HEM . C HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? metalc ? metalc2 C NE2 HIS 96 C HIS 97 1_555 O FE HEM . C HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc3 C NE2 HIS 181 C HIS 182 1_555 N FE HEM . C HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? metalc ? metalc4 C NE2 HIS 195 C HIS 196 1_555 O FE HEM . C HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? metalc ? metalc5 D NE2 HIS 40 D HIS 41 1_555 V FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc6 D SD MET 159 D MET 160 1_555 V FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? # _chem_comp.formula 'C36 H73 N O8 P 1' _chem_comp.formula_weight 678.94 _chem_comp.id PX4 _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHOCHOLINE _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 O1 P1 PX4 sing 1057 n n O1 H1P PX4 sing 1058 n n O2 P1 PX4 doub 1059 n n P1 O3 PX4 sing 1060 n n P1 O4 PX4 sing 1061 n n O3 C1 PX4 sing 1062 n n C1 C2 PX4 sing 1063 n n C1 H1 PX4 sing 1064 n n C1 H2 PX4 sing 1065 n n C2 N1 PX4 sing 1066 n n C2 H3 PX4 sing 1067 n n C2 H4 PX4 sing 1068 n n N1 C3 PX4 sing 1069 n n N1 C4 PX4 sing 1070 n n N1 C5 PX4 sing 1071 n n C3 H5 PX4 sing 1072 n n C3 H6 PX4 sing 1073 n n C3 H7 PX4 sing 1074 n n C4 H8 PX4 sing 1075 n n C4 H9 PX4 sing 1076 n n C4 H10 PX4 sing 1077 n n C5 H11 PX4 sing 1078 n n C5 H12 PX4 sing 1079 n n C5 H13 PX4 sing 1080 n n O4 C6 PX4 sing 1081 n n C6 C7 PX4 sing 1082 n n C6 H14 PX4 sing 1083 n n C6 H15 PX4 sing 1084 n n C7 C8 PX4 sing 1085 n n C7 O7 PX4 sing 1086 n n C7 H16 PX4 sing 1087 n n C8 O5 PX4 sing 1088 n n C8 H17 PX4 sing 1089 n n C8 H18 PX4 sing 1090 n n O5 C9 PX4 sing 1091 n n C9 O6 PX4 doub 1092 n n C9 C10 PX4 sing 1093 n n C10 C11 PX4 sing 1094 n n C10 H19 PX4 sing 1095 n n C10 H20 PX4 sing 1096 n n C11 C12 PX4 sing 1097 n n C11 H21 PX4 sing 1098 n n C11 H22 PX4 sing 1099 n n C12 C13 PX4 sing 1100 n n C12 H23 PX4 sing 1101 n n C12 H24 PX4 sing 1102 n n C13 C14 PX4 sing 1103 n n C13 H25 PX4 sing 1104 n n C13 H26 PX4 sing 1105 n n C14 C15 PX4 sing 1106 n n C14 H27 PX4 sing 1107 n n C14 H28 PX4 sing 1108 n n C15 C16 PX4 sing 1109 n n C15 H29 PX4 sing 1110 n n C15 H30 PX4 sing 1111 n n C16 C17 PX4 sing 1112 n n C16 H31 PX4 sing 1113 n n C16 H32 PX4 sing 1114 n n C17 C18 PX4 sing 1115 n n C17 H33 PX4 sing 1116 n n C17 H34 PX4 sing 1117 n n C18 C19 PX4 sing 1118 n n C18 H35 PX4 sing 1119 n n C18 H36 PX4 sing 1120 n n C19 C20 PX4 sing 1121 n n C19 H37 PX4 sing 1122 n n C19 H38 PX4 sing 1123 n n C20 C21 PX4 sing 1124 n n C20 H39 PX4 sing 1125 n n C20 H40 PX4 sing 1126 n n C21 C22 PX4 sing 1127 n n C21 H41 PX4 sing 1128 n n C21 H42 PX4 sing 1129 n n C22 H43 PX4 sing 1130 n n C22 H44 PX4 sing 1131 n n C22 H45 PX4 sing 1132 n n O7 C23 PX4 sing 1133 n n C23 O8 PX4 doub 1134 n n C23 C24 PX4 sing 1135 n n C24 C25 PX4 sing 1136 n n C24 H46 PX4 sing 1137 n n C24 H47 PX4 sing 1138 n n C25 C26 PX4 sing 1139 n n C25 H48 PX4 sing 1140 n n C25 H49 PX4 sing 1141 n n C26 C27 PX4 sing 1142 n n C26 H50 PX4 sing 1143 n n C26 H51 PX4 sing 1144 n n C27 C28 PX4 sing 1145 n n C27 H52 PX4 sing 1146 n n C27 H53 PX4 sing 1147 n n C28 C29 PX4 sing 1148 n n C28 H54 PX4 sing 1149 n n C28 H55 PX4 sing 1150 n n C29 C30 PX4 sing 1151 n n C29 H56 PX4 sing 1152 n n C29 H57 PX4 sing 1153 n n C30 C31 PX4 sing 1154 n n C30 H58 PX4 sing 1155 n n C30 H59 PX4 sing 1156 n n C31 C32 PX4 sing 1157 n n C31 H60 PX4 sing 1158 n n C31 H61 PX4 sing 1159 n n C32 C33 PX4 sing 1160 n n C32 H62 PX4 sing 1161 n n C32 H63 PX4 sing 1162 n n C33 C34 PX4 sing 1163 n n C33 H64 PX4 sing 1164 n n C33 H65 PX4 sing 1165 n n C34 C35 PX4 sing 1166 n n C34 H66 PX4 sing 1167 n n C34 H67 PX4 sing 1168 n n C35 C36 PX4 sing 1169 n n C35 H68 PX4 sing 1170 n n C35 H69 PX4 sing 1171 n n C36 H70 PX4 sing 1172 n n C36 H71 PX4 sing 1173 n n C36 H72 PX4 sing 1174 n n # _atom_sites.entry_id 6ZFU _atom_sites.fract_transf_matrix[1][1] 0.004745 _atom_sites.fract_transf_matrix[1][2] 0.00274 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005479 _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] 0.002908 _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 K 11 PG4 A 1 501 501 PG4 PG4 . L 12 6PE A 1 502 502 6PE 6PE . M 13 CDL A 1 503 401 CDL CDL . N 14 HEM C 1 401 402 HEM HEM . O 14 HEM C 1 402 403 HEM HEM . P 15 LMT C 1 403 405 LMT LMT . Q 11 PG4 C 1 404 406 PG4 PG4 . R 11 PG4 C 1 405 407 PG4 PG4 . S 13 CDL C 1 406 408 CDL CDL . T 16 PEE C 1 407 409 PEE PEE . U 17 JHE C 1 408 404 JHE RKA . V 18 HEC D 1 501 501 HEC HEC . W 19 PO4 D 1 502 502 PO4 PO4 . X 13 CDL D 1 503 503 CDL CDL . Y 20 FES E 1 201 201 FES FES . Z 21 PX4 E 1 202 202 PX4 PX4 . AA 16 PEE E 1 203 204 PEE PEE . BA 13 CDL E 1 204 205 CDL CDL . CA 19 PO4 F 1 501 501 PO4 PO4 . DA 19 PO4 G 1 101 101 PO4 PO4 . EA 19 PO4 G 1 102 102 PO4 PO4 . FA 19 PO4 G 1 103 103 PO4 PO4 . GA 22 HOH A 1 601 503 HOH HOH . GA 22 HOH A 2 602 505 HOH HOH . GA 22 HOH A 3 603 504 HOH HOH . HA 22 HOH C 1 501 501 HOH HOH . IA 22 HOH G 1 201 104 HOH HOH . JA 22 HOH I 1 501 501 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 O O1 PX4 . . . Z 21 -67.153 -53.741 13.796 1 153 -1 O1 PX4 202 E 1 HETATM 2 O O2 PX4 . . . Z 21 -65.333 -52.214 12.8 1 146.2 ? O2 PX4 202 E 1 HETATM 3 P P1 PX4 . . . Z 21 -66.114 -53.506 12.722 1 150.19 ? P1 PX4 202 E 1 HETATM 4 O O3 PX4 . . . Z 21 -66.822 -53.605 11.277 1 149.3 ? O3 PX4 202 E 1 HETATM 5 C C1 PX4 . . . Z 21 -66.332 -52.976 10.096 1 144.66 ? C1 PX4 202 E 1 HETATM 6 C C2 PX4 . . . Z 21 -67.576 -52.637 9.268 1 143.46 ? C2 PX4 202 E 1 HETATM 7 N N1 PX4 . . . Z 21 -67.367 -52.084 7.922 1 142.82 ? N1 PX4 202 E 1 HETATM 8 C C3 PX4 . . . Z 21 -68.626 -52.218 7.176 1 144.38 ? C3 PX4 202 E 1 HETATM 9 C C4 PX4 . . . Z 21 -67.044 -50.661 7.963 1 140.08 ? C4 PX4 202 E 1 HETATM 10 C C5 PX4 . . . Z 21 -66.316 -52.814 7.207 1 143.72 ? C5 PX4 202 E 1 HETATM 11 O O4 PX4 . . . Z 21 -65.158 -54.818 12.651 1 151.9 ? O4 PX4 202 E 1 HETATM 12 C C6 PX4 . . . Z 21 -65.522 -56.118 13.173 1 152.16 ? C6 PX4 202 E 1 HETATM 13 C C7 PX4 . . . Z 21 -64.363 -57.135 13.3 1 153.06 ? C7 PX4 202 E 1 HETATM 14 C C8 PX4 . . . Z 21 -63.913 -57.638 11.927 1 122.22 ? C8 PX4 202 E 1 HETATM 15 O O5 PX4 . . . Z 21 -64.968 -58.159 11.117 1 152.34 ? O5 PX4 202 E 1 HETATM 16 C C9 PX4 . . . Z 21 -64.889 -58.072 9.658 1 153.14 ? C9 PX4 202 E 1 HETATM 17 O O6 PX4 . . . Z 21 -65.31 -57.039 9.147 1 154.84 ? O6 PX4 202 E 1 HETATM 18 C C10 PX4 . . . Z 21 -64.359 -59.23 8.805 1 149.55 ? C10 PX4 202 E 1 HETATM 19 C C11 PX4 . . . Z 21 -62.84 -59.289 8.589 1 142.25 ? C11 PX4 202 E 1 HETATM 20 C C12 PX4 . . . Z 21 -62.401 -60.726 8.287 1 138.32 ? C12 PX4 202 E 1 HETATM 21 C C13 PX4 . . . Z 21 -61.022 -60.843 7.637 1 137.63 ? C13 PX4 202 E 1 HETATM 22 C C14 PX4 . . . Z 21 -60.219 -62.046 8.153 1 137.76 ? C14 PX4 202 E 1 HETATM 23 C C15 PX4 . . . Z 21 -59.981 -63.163 7.127 1 140.93 ? C15 PX4 202 E 1 HETATM 24 C C16 PX4 . . . Z 21 -60.266 -64.565 7.706 1 143.56 ? C16 PX4 202 E 1 HETATM 25 C C17 PX4 . . . Z 21 -59.518 -65.712 7.001 1 144.37 ? C17 PX4 202 E 1 HETATM 26 C C18 PX4 . . . Z 21 -59.702 -67.099 7.648 1 142.13 ? C18 PX4 202 E 1 HETATM 27 C C19 PX4 . . . Z 21 -58.707 -68.123 7.077 1 138.59 ? C19 PX4 202 E 1 HETATM 28 C C20 PX4 . . . Z 21 -58.969 -69.581 7.485 1 135.79 ? C20 PX4 202 E 1 HETATM 29 C C21 PX4 . . . Z 21 -57.948 -70.542 6.856 1 133.19 ? C21 PX4 202 E 1 HETATM 30 C C22 PX4 . . . Z 21 -57.953 -71.937 7.457 1 130.22 ? C22 PX4 202 E 1 HETATM 31 O O7 PX4 . . . Z 21 -63.195 -56.565 13.93 1 155.84 ? O7 PX4 202 E 1 HETATM 32 C C23 PX4 . . . Z 21 -62.644 -57.123 15.185 1 151.91 ? C23 PX4 202 E 1 HETATM 33 O O8 PX4 . . . Z 21 -63.064 -56.669 16.252 1 153.33 ? O8 PX4 202 E 1 HETATM 34 C C24 PX4 . . . Z 21 -61.569 -58.217 15.165 1 144.79 ? C24 PX4 202 E 1 HETATM 35 C C25 PX4 . . . Z 21 -60.295 -57.909 15.979 1 137.58 ? C25 PX4 202 E 1 HETATM 36 C C26 PX4 . . . Z 21 -60.419 -58.097 17.498 1 132.06 ? C26 PX4 202 E 1 HETATM 37 C C27 PX4 . . . Z 21 -59.426 -59.101 18.081 1 127.42 ? C27 PX4 202 E 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 37 #