data_7LKZ # _model_server_result.job_id hHGxHmYLDXufjun6VW3LXQ _model_server_result.datetime_utc '2024-10-11 00:30:06' _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 7lkz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":2503}' # _entry.id 7LKZ # _exptl.entry_id 7LKZ _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 717.996 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate' _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 90 _cell.angle_gamma 90 _cell.entry_id 7LKZ _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7LKZ _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,M,N,O,P,Q,R,S,T,U _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 D N N ? 4 E N N ? 4 F N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 4 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 5 ? 3 4 3 BMA BMA C1 O1 . O3 HO3 . sing 6 ? 3 5 3 BMA BMA C1 O1 . O6 HO6 . 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 B NAG 1 B 1 NAG B 2 NAG 2 n B NAG 2 B 2 NAG B 3 NAG 2 n B BMA 3 B 3 BMA B 4 BMA 3 n C NAG 1 C 1 NAG B 8 NAG 3 n C NAG 2 C 2 NAG B 9 NAG 3 n C BMA 3 C 3 BMA B 10 BMA 3 n C BMA 4 C 4 BMA B 11 BMA 3 n C BMA 5 C 5 BMA B 12 BMA # 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 54 A CYS 54 1_555 A SG CYS 81 A CYS 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf2 A SG CYS 75 A CYS 75 1_555 A SG CYS 324 A CYS 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 370 A CYS 370 1_555 A SG CYS 519 A CYS 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 641 A CYS 641 1_555 A SG CYS 1490 A CYS 1490 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf5 A SG CYS 1444 A CYS 1444 1_555 A SG CYS 1455 A CYS 1455 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf6 A SG CYS 1488 A CYS 1488 1_555 A SG CYS 1502 A CYS 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? covale ? covale1 A ND2 ASN 98 A ASN 98 1_555 Q C1 NAG . A NAG 2514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 415 A ASN 415 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale3 A ND2 ASN 444 A ASN 444 1_555 L C1 NAG . A NAG 2509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 A ND2 ASN 1469 A ASN 1469 1_555 N C1 NAG . A NAG 2511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale5 A ND2 ASN 1529 A ASN 1529 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale6 A ND2 ASN 1588 A ASN 1588 1_555 O C1 NAG . A NAG 2512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale7 A ND2 ASN 1662 A ASN 1662 1_555 P C1 NAG . A NAG 2513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale8 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale9 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale10 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale11 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale12 C O3 BMA . C BMA 3 1_555 C C1 BMA . C BMA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale13 C O6 BMA . C BMA 3 1_555 C C1 BMA . C BMA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? metalc ? metalc1 A OG1 THR 970 A THR 970 1_555 S MG MG . A MG 2516 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? metalc ? metalc2 A OE1 GLN 2019 A GLN 2019 1_555 R MG MG . A MG 2515 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.544 ? metalc ? metalc3 R MG MG . A MG 2515 1_555 U O1G ATP . A ATP 2518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? metalc ? metalc4 R MG MG . A MG 2515 1_555 U O2G ATP . A ATP 2518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc5 R MG MG . A MG 2515 1_555 U O1B ATP . A ATP 2518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? metalc ? metalc6 R MG MG . A MG 2515 1_555 U O3B ATP . A ATP 2518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.988 ? metalc ? metalc7 S MG MG . A MG 2516 1_555 T O1B ATP . A ATP 2517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.916 ? metalc ? metalc8 S MG MG . A MG 2516 1_555 T O1G ATP . A ATP 2517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? # _chem_comp.formula 'C39 H76 N O8 P' _chem_comp.formula_weight 717.996 _chem_comp.id 6OU _chem_comp.mon_nstd_flag . _chem_comp.name '[(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 7LKZ _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 4 6OU A 1 2501 2501 6OU 6OU . E 4 6OU A 1 2502 2601 6OU 6OU . F 4 6OU A 1 2503 2701 6OU 6OU . G 5 POV A 1 2504 2901 POV POV . H 5 POV A 1 2505 3001 POV POV . I 5 POV A 1 2506 3101 POV POV . J 5 POV A 1 2507 3201 POV POV . K 5 POV A 1 2508 3301 POV POV . L 6 NAG A 1 2509 5 NAG NAG . M 6 NAG A 1 2510 6 NAG NAG . N 6 NAG A 1 2511 7 NAG NAG . O 6 NAG A 1 2512 13 NAG NAG . P 6 NAG A 1 2513 14 NAG NAG . Q 6 NAG A 1 2514 15 NAG NAG . R 7 MG A 1 2515 1 MG MG . S 7 MG A 1 2516 2 MG MG . T 8 ATP A 1 2517 2301 ATP ATP . U 8 ATP A 1 2518 3001 ATP ATP . # 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 C C10 6OU . . . F 4 172.995 186.304 192.02 1 54.73 ? C10 6OU 2503 A 1 HETATM 2 C C11 6OU . . . F 4 172.767 185.229 193.08 1 54.73 ? C11 6OU 2503 A 1 HETATM 3 C C12 6OU . . . F 4 172.609 183.866 192.409 1 54.73 ? C12 6OU 2503 A 1 HETATM 4 C C13 6OU . . . F 4 171.494 183.094 193.108 1 54.73 ? C13 6OU 2503 A 1 HETATM 5 C C14 6OU . . . F 4 172.028 181.76 193.621 1 54.73 ? C14 6OU 2503 A 1 HETATM 6 C C15 6OU . . . F 4 170.866 180.902 194.115 1 54.73 ? C15 6OU 2503 A 1 HETATM 7 C C16 6OU . . . F 4 171.174 180.348 195.507 1 54.73 ? C16 6OU 2503 A 1 HETATM 8 O O17 6OU . . . F 4 171.765 179.329 195.624 1 54.73 ? O17 6OU 2503 A 1 HETATM 9 O O18 6OU . . . F 4 170.752 181.041 196.645 1 54.73 ? O18 6OU 2503 A 1 HETATM 10 C C19 6OU . . . F 4 171.34 180.598 197.835 1 54.73 ? C19 6OU 2503 A 1 HETATM 11 C C20 6OU . . . F 4 170.873 181.488 198.985 1 54.73 ? C20 6OU 2503 A 1 HETATM 12 C C21 6OU . . . F 4 170.9 180.711 200.3 1 54.73 ? C21 6OU 2503 A 1 HETATM 13 O O22 6OU . . . F 4 172.093 181.016 200.965 1 54.73 ? O22 6OU 2503 A 1 HETATM 14 P P23 6OU . . . F 4 172.098 181.107 202.609 1 54.73 ? P23 6OU 2503 A 1 HETATM 15 O O24 6OU . . . F 4 171.88 179.738 203.2 1 54.73 ? O24 6OU 2503 A 1 HETATM 16 O O25 6OU . . . F 4 173.429 181.642 203.077 1 54.73 ? O25 6OU 2503 A 1 HETATM 17 O O26 6OU . . . F 4 170.895 182.123 203.094 1 54.73 ? O26 6OU 2503 A 1 HETATM 18 C C27 6OU . . . F 4 170.591 182.205 204.456 1 54.73 ? C27 6OU 2503 A 1 HETATM 19 C C28 6OU . . . F 4 169.95 183.56 204.743 1 54.73 ? C28 6OU 2503 A 1 HETATM 20 N N29 6OU . . . F 4 169.7 184.252 203.492 1 54.73 ? N29 6OU 2503 A 1 HETATM 21 O O30 6OU . . . F 4 169.584 181.957 198.719 1 54.73 ? O30 6OU 2503 A 1 HETATM 22 C C31 6OU . . . F 4 169.44 183.332 198.926 1 54.73 ? C31 6OU 2503 A 1 HETATM 23 O O32 6OU . . . F 4 169.949 183.842 199.864 1 54.73 ? O32 6OU 2503 A 1 HETATM 24 C C33 6OU . . . F 4 168.632 184.179 197.948 1 54.73 ? C33 6OU 2503 A 1 HETATM 25 C C34 6OU . . . F 4 168.909 183.721 196.519 1 54.73 ? C34 6OU 2503 A 1 HETATM 26 C C35 6OU . . . F 4 167.764 184.171 195.617 1 54.73 ? C35 6OU 2503 A 1 HETATM 27 C C36 6OU . . . F 4 168.121 183.891 194.159 1 54.73 ? C36 6OU 2503 A 1 HETATM 28 C C37 6OU . . . F 4 166.858 183.921 193.301 1 54.73 ? C37 6OU 2503 A 1 HETATM 29 C C38 6OU . . . F 4 167.204 183.54 191.864 1 54.73 ? C38 6OU 2503 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 29 #