data_4ZXI # _model_server_result.job_id NYPVvr6fYVBlvMSvYZcAkQ _model_server_result.datetime_utc '2024-12-01 06:16:43' _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 4zxi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1404}' # _entry.id 4ZXI # _exptl.entry_id 4ZXI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 591.777 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHATE _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 4ZXI _cell.length_a 116.1 _cell.length_b 116.1 _cell.length_c 342.02 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZXI _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 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,H _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 5 _struct_asym.id E _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 metalc ? metalc1 A N HIS 2 A HIS 0 1_555 F NI NI . A NI 1405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? metalc ? metalc2 A ND1 HIS 2 A HIS 0 1_555 F NI NI . A NI 1405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? metalc ? metalc3 A OG1 THR 766 A THR 764 1_555 G MG MG . A MG 1406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.959 ? covale ? covale1 A OG SER 1008 A SER 1006 1_555 B P24 PNS . A PNS 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.639 ? metalc ? metalc4 C O GLY . A GLY 1402 1_555 G MG MG . A MG 1406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? metalc ? metalc5 D O5' AMP . A AMP 1403 1_555 G MG MG . A MG 1406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.668 ? metalc ? metalc6 A NE2 HIS 526 A HIS 524 1_555 F NI NI . A NI 1405 5_454 ? ? ? ? ? ? ? ? ? ? ? ? 1.943 ? # _chem_comp.formula 'C31 H60 O8 P -1' _chem_comp.formula_weight 591.777 _chem_comp.id XP4 _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHATE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 4ZXI _atom_sites.fract_transf_matrix[1][1] 0.008613 _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] 0.008613 _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] 0.002924 _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 PNS A 1 1401 1319 PNS PNS . C 3 GLY A 1 1402 1 GLY GLY . D 4 AMP A 1 1403 2 AMP AMP . E 5 XP4 A 1 1404 1 XP4 XP4 . F 6 NI A 1 1405 1 NI NI . G 7 MG A 1 1406 1 MG MG . H 8 HOH A 1 1501 1 HOH HOH . H 8 HOH A 2 1502 6 HOH HOH . H 8 HOH A 3 1503 10 HOH HOH . H 8 HOH A 4 1504 11 HOH HOH . H 8 HOH A 5 1505 14 HOH HOH . H 8 HOH A 6 1506 2 HOH HOH . H 8 HOH A 7 1507 16 HOH HOH . H 8 HOH A 8 1508 7 HOH HOH . H 8 HOH A 9 1509 8 HOH HOH . H 8 HOH A 10 1510 12 HOH HOH . H 8 HOH A 11 1511 3 HOH HOH . H 8 HOH A 12 1512 13 HOH HOH . H 8 HOH A 13 1513 9 HOH HOH . H 8 HOH A 14 1514 4 HOH HOH . H 8 HOH A 15 1515 5 HOH HOH . H 8 HOH A 16 1516 15 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 XP4 . . . E 5 17.744 -71.813 -22.537 1 119.02 ? O1 XP4 1404 A 1 HETATM 2 O O2 XP4 . . . E 5 15.317 -72.498 -22.141 1 112.54 ? O2 XP4 1404 A 1 HETATM 3 P P1 XP4 . . . E 5 16.278 -71.538 -22.807 1 119.7 ? P1 XP4 1404 A 1 HETATM 4 O O3 XP4 . . . E 5 15.949 -71.261 -24.26 1 119.19 ? O3 XP4 1404 A 1 HETATM 5 O O4 XP4 . . . E 5 16.02 -70.127 -22.05 1 122.92 ? O4 XP4 1404 A 1 HETATM 6 C C1 XP4 . . . E 5 16.893 -68.994 -22.182 1 108.92 ? C1 XP4 1404 A 1 HETATM 7 C C2 XP4 . . . E 5 16.339 -67.828 -21.363 1 87.95 ? C2 XP4 1404 A 1 HETATM 8 C C3 XP4 . . . E 5 16.158 -68.313 -19.929 1 76.11 ? C3 XP4 1404 A 1 HETATM 9 O O5 XP4 . . . E 5 14.753 -68.249 -19.704 1 74.79 ? O5 XP4 1404 A 1 HETATM 10 C C4 XP4 . . . E 5 14.186 -67.878 -18.412 1 67.57 ? C4 XP4 1404 A 1 HETATM 11 O O6 XP4 . . . E 5 14.402 -68.599 -17.452 1 72.39 ? O6 XP4 1404 A 1 HETATM 12 C C5 XP4 . . . E 5 13.325 -66.63 -18.288 1 51.71 ? C5 XP4 1404 A 1 HETATM 13 C C6 XP4 . . . E 5 13.245 -66.147 -16.839 1 41.2 ? C6 XP4 1404 A 1 HETATM 14 C C7 XP4 . . . E 5 13.125 -64.623 -16.743 1 37.59 ? C7 XP4 1404 A 1 HETATM 15 C C8 XP4 . . . E 5 13.41 -64.193 -15.307 1 36.03 ? C8 XP4 1404 A 1 HETATM 16 C C9 XP4 . . . E 5 13.721 -62.707 -15.105 1 27.46 ? C9 XP4 1404 A 1 HETATM 17 C C10 XP4 . . . E 5 14.003 -62.487 -13.613 1 23.33 ? C10 XP4 1404 A 1 HETATM 18 C C11 XP4 . . . E 5 14.036 -61.024 -13.188 1 33 ? C11 XP4 1404 A 1 HETATM 19 C C12 XP4 . . . E 5 13.691 -60.857 -11.708 1 42.49 ? C12 XP4 1404 A 1 HETATM 20 C C13 XP4 . . . E 5 12.219 -61.17 -11.415 1 43.33 ? C13 XP4 1404 A 1 HETATM 21 C C14 XP4 . . . E 5 11.419 -59.948 -10.961 1 35.09 ? C14 XP4 1404 A 1 HETATM 22 C C15 XP4 . . . E 5 9.917 -60.22 -11.04 1 34.87 ? C15 XP4 1404 A 1 HETATM 23 C C16 XP4 . . . E 5 9.128 -58.945 -10.732 1 39.66 ? C16 XP4 1404 A 1 HETATM 24 C C17 XP4 . . . E 5 7.714 -58.935 -11.292 1 36.61 ? C17 XP4 1404 A 1 HETATM 25 O O7 XP4 . . . E 5 17.227 -66.705 -21.379 1 80.95 ? O7 XP4 1404 A 1 HETATM 26 C C18 XP4 . . . E 5 16.564 -65.401 -21.306 1 71.67 ? C18 XP4 1404 A 1 HETATM 27 O O8 XP4 . . . E 5 15.615 -65.187 -22.036 1 79.86 ? O8 XP4 1404 A 1 HETATM 28 C C19 XP4 . . . E 5 17.052 -64.355 -20.314 1 54.14 ? C19 XP4 1404 A 1 HETATM 29 C C20 XP4 . . . E 5 16.331 -63 -20.328 1 38.58 ? C20 XP4 1404 A 1 HETATM 30 C C21 XP4 . . . E 5 16.785 -62.178 -19.104 1 31.87 ? C21 XP4 1404 A 1 HETATM 31 C C22 XP4 . . . E 5 16.042 -60.851 -18.918 1 31.07 ? C22 XP4 1404 A 1 HETATM 32 C C23 XP4 . . . E 5 16.532 -59.96 -17.761 1 32.73 ? C23 XP4 1404 A 1 HETATM 33 C C24 XP4 . . . E 5 15.665 -58.697 -17.591 1 30.16 ? C24 XP4 1404 A 1 HETATM 34 C C25 XP4 . . . E 5 16.333 -57.581 -16.788 1 32.98 ? C25 XP4 1404 A 1 HETATM 35 C C26 XP4 . . . E 5 15.423 -56.37 -16.537 1 43.44 ? C26 XP4 1404 A 1 HETATM 36 C C27 XP4 . . . E 5 14.67 -56.411 -15.198 1 47.48 ? C27 XP4 1404 A 1 HETATM 37 C C28 XP4 . . . E 5 13.415 -55.524 -15.112 1 44.95 ? C28 XP4 1404 A 1 HETATM 38 C C29 XP4 . . . E 5 12.449 -55.876 -13.957 1 39.53 ? C29 XP4 1404 A 1 HETATM 39 C C30 XP4 . . . E 5 11.183 -55.008 -14.014 1 39.98 ? C30 XP4 1404 A 1 HETATM 40 C C31 XP4 . . . E 5 10.143 -55.155 -12.91 1 29.43 ? C31 XP4 1404 A 1 # _model_server_stats.io_time_ms 93 _model_server_stats.parse_time_ms 33 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 823 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 40 #