data_6GIQ # _model_server_result.job_id djpkZWeDQnrhKG0kfSApXg _model_server_result.datetime_utc '2024-11-21 14:03:26' _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 6giq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"RA","auth_seq_id":402}' # _entry.id 6GIQ # _exptl.entry_id 6GIQ _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 592.785 _entity.id 23 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1R)-2-(phosphonooxy)-1-[(tridecanoyloxy)methyl]ethyl pentadecanoate' _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 6GIQ _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GIQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall 'P 1' _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details 32-meric _pdbx_struct_assembly.oligomeric_count 32 _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,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB _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 ? 23 GA N N ? 23 RA 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 disulf ? disulf1 E SG CYS 164 E CYS 164 1_555 E SG CYS 180 E CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 F SG CYS 101 F CYS 101 1_555 F SG CYS 123 F CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf3 N SG CYS 164 P CYS 164 1_555 N SG CYS 180 P CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf4 O SG CYS 101 Q CYS 101 1_555 O SG CYS 123 Q CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf5 DA SG CYS 27 j CYS 27 1_555 DA SG CYS 59 j CYS 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 DA SG CYS 37 j CYS 37 1_555 DA SG CYS 48 j CYS 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc1 C NE2 HIS 82 C HIS 82 1_555 HA FE HEC . C HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.623 ? metalc ? metalc2 C NE2 HIS 96 C HIS 96 1_555 IA FE HEC . C HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.738 ? metalc ? metalc3 C NE2 HIS 183 C HIS 183 1_555 HA FE HEC . C HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.658 ? metalc ? metalc4 C NE2 HIS 197 C HIS 197 1_555 IA FE HEC . C HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? metalc ? metalc5 D NE2 HIS 105 D HIS 105 1_555 MA FE HEC . D HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc6 L NE2 HIS 82 N HIS 82 1_555 SA FE HEC . N HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.623 ? metalc ? metalc7 L NE2 HIS 96 N HIS 96 1_555 TA FE HEC . N HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.722 ? metalc ? metalc8 L NE2 HIS 183 N HIS 183 1_555 SA FE HEC . N HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.657 ? metalc ? metalc9 L NE2 HIS 197 N HIS 197 1_555 TA FE HEC . N HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.549 ? metalc ? metalc10 M NE2 HIS 105 O HIS 105 1_555 YA FE HEC . O HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc11 U NE2 HIS 62 a HIS 62 1_555 DB FE HEA . a HEA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.696 ? metalc ? metalc12 U ND1 HIS 241 a HIS 241 1_555 CB CU CU . a CU 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc13 U NE2 HIS 291 a HIS 291 1_555 CB CU CU . a CU 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.158 ? metalc ? metalc14 U NE2 HIS 378 a HIS 378 1_555 DB FE HEA . a HEA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? # _chem_comp.formula 'C31 H61 O8 P' _chem_comp.formula_weight 592.785 _chem_comp.id 6PH _chem_comp.mon_nstd_flag . _chem_comp.name '(1R)-2-(phosphonooxy)-1-[(tridecanoyloxy)methyl]ethyl pentadecanoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'PHOSPHATIDIC ACID' # 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 P O11 6PH sing 1 n n P O13 6PH sing 2 n n O11 C1 6PH sing 3 n n O12 P 6PH doub 4 n n O13 HO13 6PH sing 5 n n O14 P 6PH sing 6 n n O14 HO14 6PH sing 7 n n C1 H1 6PH sing 8 n n C1 H1A 6PH sing 9 n n C2 C1 6PH sing 10 n n C2 H2 6PH sing 11 n n C3 C2 6PH sing 12 n n C3 H3 6PH sing 13 n n C3 H3A 6PH sing 14 n n O31 C3 6PH sing 15 n n O32 C31 6PH doub 16 n n C31 O31 6PH sing 17 n n C32 C31 6PH sing 18 n n C32 H32 6PH sing 19 n n C32 H32A 6PH sing 20 n n C33 C32 6PH sing 21 n n C33 C34 6PH sing 22 n n C33 H33 6PH sing 23 n n C33 H33A 6PH sing 24 n n C34 C35 6PH sing 25 n n C34 H34 6PH sing 26 n n C34 H34A 6PH sing 27 n n C35 H35 6PH sing 28 n n C35 H35A 6PH sing 29 n n C36 C35 6PH sing 30 n n C36 C37 6PH sing 31 n n C36 H36 6PH sing 32 n n C36 H36A 6PH sing 33 n n C37 H37 6PH sing 34 n n C37 H37A 6PH sing 35 n n C38 C37 6PH sing 36 n n C38 C39 6PH sing 37 n n C38 H38 6PH sing 38 n n C38 H38A 6PH sing 39 n n C39 C3A 6PH sing 40 n n C39 H39 6PH sing 41 n n C39 H39A 6PH sing 42 n n C3A H3AA 6PH sing 43 n n C3A H3AB 6PH sing 44 n n C3B C3A 6PH sing 45 n n C3B C3C 6PH sing 46 n n C3B H3B 6PH sing 47 n n C3B H3BA 6PH sing 48 n n C3C C3D 6PH sing 49 n n C3C H3C 6PH sing 50 n n C3C H3CA 6PH sing 51 n n C3D H3D 6PH sing 52 n n C3D H3DA 6PH sing 53 n n C3D H3DB 6PH sing 54 n n O21 C2 6PH sing 55 n n O21 C21 6PH sing 56 n n C21 O22 6PH doub 57 n n C22 C21 6PH sing 58 n n C22 C23 6PH sing 59 n n C22 H22 6PH sing 60 n n C22 H22A 6PH sing 61 n n C23 H23 6PH sing 62 n n C23 H23A 6PH sing 63 n n C24 C23 6PH sing 64 n n C24 C25 6PH sing 65 n n C24 H24 6PH sing 66 n n C24 H24A 6PH sing 67 n n C25 H25 6PH sing 68 n n C25 H25A 6PH sing 69 n n C26 C25 6PH sing 70 n n C26 H26 6PH sing 71 n n C26 H26A 6PH sing 72 n n C27 C26 6PH sing 73 n n C27 H27 6PH sing 74 n n C27 H27A 6PH sing 75 n n C28 C27 6PH sing 76 n n C28 H28 6PH sing 77 n n C28 H28A 6PH sing 78 n n C29 C28 6PH sing 79 n n C29 H29 6PH sing 80 n n C29 H29A 6PH sing 81 n n C2A C29 6PH sing 82 n n C2A C2B 6PH sing 83 n n C2A H2A 6PH sing 84 n n C2A H2AA 6PH sing 85 n n C2B C2C 6PH sing 86 n n C2B H2B 6PH sing 87 n n C2C C2D 6PH sing 88 n n C2C H2C 6PH sing 89 n n C2D C2E 6PH sing 90 n n C2D H2D 6PH sing 91 n n C2D H2DA 6PH sing 92 n n C2E C2F 6PH sing 93 n n C2E H2E 6PH sing 94 n n C2F H2F 6PH sing 95 n n C2F H2FA 6PH sing 96 n n C2B H58 6PH sing 97 n n C2C H59 6PH sing 98 n n C2E H60 6PH sing 99 n n C2F H61 6PH sing 100 n n # _atom_sites.entry_id 6GIQ _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 GA 23 6PH C 1 401 4013 6PH 6PH . HA 24 HEC C 1 402 4001 HEC HEM . IA 24 HEC C 1 403 4002 HEC HEM . JA 25 8PE C 1 404 4010 8PE 8PE . KA 26 CN5 C 1 405 4033 CN5 CN5 . LA 27 UQ6 C 1 406 4034 UQ6 UQ6 . MA 24 HEC D 1 401 4003 HEC HEM . NA 28 7PH D 1 402 4014 7PH 7PH . OA 29 FES E 1 301 4004 FES FES . PA 30 PCF I 1 101 4012 PCF PCF . QA 31 9PE N 1 401 4011 9PE 9PE . RA 23 6PH N 1 402 4113 6PH 6PH . SA 24 HEC N 1 403 4021 HEC HEM . TA 24 HEC N 1 404 4022 HEC HEM . UA 27 UQ6 N 1 405 4023 UQ6 UQ6 . VA 25 8PE N 1 406 4110 8PE 8PE . WA 31 9PE N 1 407 4111 9PE 9PE . XA 32 CN3 N 1 408 4131 CN3 CN3 . YA 24 HEC O 1 401 4023 HEC HEM . ZA 28 7PH P 1 301 4114 7PH 7PH . AB 29 FES P 1 302 4024 FES FES . BB 30 PCF T 1 101 4112 PCF PCF . CB 33 CU a 1 601 535 CU CU . DB 34 HEA a 1 602 538 HEA HEA . EB 34 HEA a 1 603 539 HEA HEA . FB 35 CUA b 1 301 252 CUA CUA . # 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 P P 6PH . . . RA 23 182.611 205.615 246.664 1 69.42 ? P 6PH 402 N 1 HETATM 2 O O11 6PH . . . RA 23 182.637 206.95 245.777 1 69.42 ? O11 6PH 402 N 1 HETATM 3 O O12 6PH . . . RA 23 181.278 205.46 247.283 1 69.42 ? O12 6PH 402 N 1 HETATM 4 O O13 6PH . . . RA 23 182.915 204.356 245.719 1 69.42 ? O13 6PH 402 N 1 HETATM 5 O O14 6PH . . . RA 23 183.74 205.707 247.8 1 69.42 ? O14 6PH 402 N 1 HETATM 6 C C1 6PH . . . RA 23 182.154 206.984 244.438 1 69.42 ? C1 6PH 402 N 1 HETATM 7 C C2 6PH . . . RA 23 182.104 208.429 243.954 1 69.42 ? C2 6PH 402 N 1 HETATM 8 C C3 6PH . . . RA 23 181.418 209.277 245.014 1 69.42 ? C3 6PH 402 N 1 HETATM 9 O O31 6PH . . . RA 23 182.418 210.123 245.631 1 69.42 ? O31 6PH 402 N 1 HETATM 10 O O32 6PH . . . RA 23 180.976 211.785 245.772 1 69.42 ? O32 6PH 402 N 1 HETATM 11 C C31 6PH . . . RA 23 182.126 211.427 245.71 1 69.42 ? C31 6PH 402 N 1 HETATM 12 C C32 6PH . . . RA 23 183.232 212.446 245.704 1 69.42 ? C32 6PH 402 N 1 HETATM 13 C C33 6PH . . . RA 23 182.664 213.8 246.117 1 69.42 ? C33 6PH 402 N 1 HETATM 14 C C34 6PH . . . RA 23 182.627 214.721 244.901 1 69.42 ? C34 6PH 402 N 1 HETATM 15 C C35 6PH . . . RA 23 184.039 215.056 244.435 1 69.42 ? C35 6PH 402 N 1 HETATM 16 C C36 6PH . . . RA 23 183.9 215.869 243.154 1 69.42 ? C36 6PH 402 N 1 HETATM 17 C C37 6PH . . . RA 23 185.275 216.24 242.613 1 69.42 ? C37 6PH 402 N 1 HETATM 18 C C38 6PH . . . RA 23 185.069 217.072 241.351 1 69.42 ? C38 6PH 402 N 1 HETATM 19 C C39 6PH . . . RA 23 186.336 217.867 241.045 1 69.42 ? C39 6PH 402 N 1 HETATM 20 C C3A 6PH . . . RA 23 187.102 217.176 239.921 1 69.42 ? C3A 6PH 402 N 1 HETATM 21 C C3B 6PH . . . RA 23 188.256 218.073 239.481 1 69.42 ? C3B 6PH 402 N 1 HETATM 22 C C3C 6PH . . . RA 23 189.046 217.381 238.372 1 69.42 ? C3C 6PH 402 N 1 HETATM 23 C C3D 6PH . . . RA 23 188.158 217.213 237.139 1 69.42 ? C3D 6PH 402 N 1 HETATM 24 O O21 6PH . . . RA 23 183.457 208.919 243.802 1 69.42 ? O21 6PH 402 N 1 HETATM 25 O O22 6PH . . . RA 23 182.893 209.95 241.933 1 69.42 ? O22 6PH 402 N 1 HETATM 26 C C21 6PH . . . RA 23 183.729 209.725 242.769 1 69.42 ? C21 6PH 402 N 1 HETATM 27 C C22 6PH . . . RA 23 185.09 210.352 242.663 1 69.42 ? C22 6PH 402 N 1 HETATM 28 C C23 6PH . . . RA 23 185.203 211.166 241.375 1 69.42 ? C23 6PH 402 N 1 HETATM 29 C C24 6PH . . . RA 23 186.394 212.113 241.511 1 69.42 ? C24 6PH 402 N 1 HETATM 30 C C25 6PH . . . RA 23 187.099 212.278 240.166 1 69.42 ? C25 6PH 402 N 1 HETATM 31 C C26 6PH . . . RA 23 188.512 212.79 240.437 1 69.42 ? C26 6PH 402 N 1 HETATM 32 C C27 6PH . . . RA 23 189.38 212.672 239.185 1 69.42 ? C27 6PH 402 N 1 HETATM 33 C C28 6PH . . . RA 23 190.845 212.746 239.613 1 69.42 ? C28 6PH 402 N 1 HETATM 34 C C29 6PH . . . RA 23 191.765 212.711 238.392 1 69.42 ? C29 6PH 402 N 1 HETATM 35 C C2A 6PH . . . RA 23 191.441 213.869 237.445 1 69.42 ? C2A 6PH 402 N 1 HETATM 36 C C2B 6PH . . . RA 23 192.353 213.807 236.216 1 69.42 ? C2B 6PH 402 N 1 HETATM 37 C C2C 6PH . . . RA 23 191.762 214.685 235.116 1 69.42 ? C2C 6PH 402 N 1 HETATM 38 C C2D 6PH . . . RA 23 191.566 213.864 233.842 1 69.42 ? C2D 6PH 402 N 1 HETATM 39 C C2E 6PH . . . RA 23 190.683 214.659 232.881 1 69.42 ? C2E 6PH 402 N 1 HETATM 40 C C2F 6PH . . . RA 23 190.148 213.74 231.781 1 69.42 ? C2F 6PH 402 N 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 70 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 40 #