data_7XJD # _model_server_result.job_id S70pldaDSU3SJw5ywiB0MQ _model_server_result.datetime_utc '2024-11-13 02:16:35' _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 7xjd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 7XJD # _exptl.entry_id 7XJD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 653.157 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2,3-DI-PHYTANYL-GLYCEROL _entity.pdbx_number_of_molecules 14 _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 7XJD _cell.length_a 60.57 _cell.length_b 60.57 _cell.length_c 110.89 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7XJD _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_635 -y+1,x-y-2,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 121.14 -104.910317 0 3 'crystal symmetry operation' 3_865 -x+y+3,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 151.425 52.455159 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 D N N ? 3 E N N ? 3 F N N ? 3 G N N ? 3 I N N ? 3 J N N ? 3 K N N ? 3 L N N ? 3 M N N ? 3 N N N ? 3 O N N ? 3 P N N ? 3 Q N N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NZ _struct_conn.ptnr1_label_comp_id LYS _struct_conn.ptnr1_label_seq_id 212 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 216 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C15 _struct_conn.ptnr2_label_comp_id RET _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id RET _struct_conn.ptnr2_auth_seq_id 301 _struct_conn.ptnr2_symmetry 1_555 _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 1.351 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C43 H88 O3' _chem_comp.formula_weight 653.157 _chem_comp.id L2P _chem_comp.mon_nstd_flag . _chem_comp.name 2,3-DI-PHYTANYL-GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 1,2-DI-1-(3,7,11,15-TETRAMETHYL-HEXADECANE)-SN-GLYCEROL # _atom_sites.entry_id 7XJD _atom_sites.fract_transf_matrix[1][1] 0.01651 _atom_sites.fract_transf_matrix[1][2] 0.009532 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019064 _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] 0.009018 _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 RET A 1 301 301 RET RET . C 3 L2P A 1 302 302 L2P L2P . D 3 L2P A 1 303 303 L2P L2P . E 3 L2P A 1 304 304 L2P L2P . F 3 L2P A 1 305 305 L2P L2P . G 3 L2P A 1 306 306 L2P L2P . H 4 SQU A 1 312 312 SQU SQU . I 3 L2P A 1 313 313 L2P L2P . J 3 L2P A 1 315 315 L2P L2P . K 3 L2P A 1 320 320 L2P L2P . L 3 L2P A 1 322 322 L2P L2P . M 3 L2P A 1 323 323 L2P L2P . N 3 L2P A 1 324 324 L2P L2P . O 3 L2P A 1 327 327 L2P L2P . P 3 L2P A 1 328 328 L2P L2P . Q 3 L2P A 1 333 333 L2P L2P . R 4 SQU A 1 341 341 SQU SQU . S 4 SQU A 1 342 342 SQU SQU . T 4 SQU A 1 343 343 SQU SQU . U 5 HOH A 1 401 401 HOH HOH . U 5 HOH A 2 402 402 HOH HOH . U 5 HOH A 3 403 403 HOH HOH . U 5 HOH A 4 404 404 HOH HOH . U 5 HOH A 5 405 405 HOH HOH . U 5 HOH A 6 406 406 HOH HOH . U 5 HOH A 7 407 407 HOH HOH . U 5 HOH A 8 411 411 HOH HOH . U 5 HOH A 9 412 412 HOH HOH . U 5 HOH A 10 415 415 HOH HOH . U 5 HOH A 11 416 416 HOH HOH . U 5 HOH A 12 419 419 HOH HOH . U 5 HOH A 13 420 420 HOH HOH . U 5 HOH A 14 450 450 HOH HOH . U 5 HOH A 15 451 451 HOH HOH . U 5 HOH A 16 453 453 HOH HOH . U 5 HOH A 17 454 454 HOH HOH . U 5 HOH A 18 455 455 HOH HOH . U 5 HOH A 19 456 456 HOH HOH . U 5 HOH A 20 457 457 HOH HOH . U 5 HOH A 21 458 458 HOH HOH . U 5 HOH A 22 459 459 HOH HOH . U 5 HOH A 23 460 460 HOH HOH . U 5 HOH A 24 501 501 HOH HOH . U 5 HOH A 25 502 502 HOH HOH . U 5 HOH A 26 511 511 HOH HOH . U 5 HOH A 27 512 512 HOH HOH . U 5 HOH A 28 513 513 HOH HOH . U 5 HOH A 29 514 514 HOH HOH . U 5 HOH A 30 530 530 HOH HOH . U 5 HOH A 31 531 531 HOH HOH . U 5 HOH A 32 532 532 HOH HOH . U 5 HOH A 33 533 533 HOH HOH . U 5 HOH A 34 534 534 HOH HOH . U 5 HOH A 35 535 535 HOH HOH . U 5 HOH A 36 536 536 HOH HOH . U 5 HOH A 37 537 537 HOH HOH . U 5 HOH A 38 538 538 HOH HOH . U 5 HOH A 39 539 539 HOH HOH . U 5 HOH A 40 540 540 HOH HOH . U 5 HOH A 41 541 541 HOH HOH . U 5 HOH A 42 542 542 HOH HOH . U 5 HOH A 43 543 543 HOH HOH . U 5 HOH A 44 544 544 HOH HOH . U 5 HOH A 45 545 545 HOH HOH . U 5 HOH A 46 546 546 HOH HOH . U 5 HOH A 47 547 547 HOH HOH . U 5 HOH A 48 548 548 HOH HOH . U 5 HOH A 49 549 549 HOH HOH . U 5 HOH A 50 550 550 HOH HOH . U 5 HOH A 51 551 551 HOH HOH . U 5 HOH A 52 552 552 HOH HOH . U 5 HOH A 53 553 553 HOH HOH . U 5 HOH A 54 554 554 HOH HOH . U 5 HOH A 55 555 555 HOH HOH . U 5 HOH A 56 556 556 HOH HOH . U 5 HOH A 57 557 557 HOH HOH . U 5 HOH A 58 558 558 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 C C1 L2P . . . C 3 86.551 -21.629 -13.763 1 62.58 ? C1 L2P 302 A 1 HETATM 2 O O1 L2P . . . C 3 86.838 -22.303 -15.022 1 62.04 ? O1 L2P 302 A 1 HETATM 3 C C2 L2P . . . C 3 87.712 -21.237 -12.845 1 62.89 ? C2 L2P 302 A 1 HETATM 4 O O2 L2P . . . C 3 88.909 -20.658 -13.41 1 62.88 ? O2 L2P 302 A 1 HETATM 5 C C3 L2P . . . C 3 87.416 -21.177 -11.347 1 63.09 ? C3 L2P 302 A 1 HETATM 6 O O3 L2P . . . C 3 86.063 -21.048 -10.838 1 63.4 ? O3 L2P 302 A 1 HETATM 7 C C11 L2P . . . C 3 86.039 -23.35 -15.637 1 61.71 ? C11 L2P 302 A 1 HETATM 8 C C12 L2P . . . C 3 84.984 -22.933 -16.689 1 61.22 ? C12 L2P 302 A 1 HETATM 9 C C13 L2P . . . C 3 85.66 -22.331 -17.933 1 60.44 ? C13 L2P 302 A 1 HETATM 10 C C14 L2P . . . C 3 86.712 -21.27 -17.616 1 60.18 ? C14 L2P 302 A 1 HETATM 11 C C15 L2P . . . C 3 84.747 -22.061 -19.12 1 59.83 ? C15 L2P 302 A 1 HETATM 12 C C16 L2P . . . C 3 84.217 -23.29 -19.84 1 59.18 ? C16 L2P 302 A 1 HETATM 13 C C17 L2P . . . C 3 84.001 -23.155 -21.347 1 58.63 ? C17 L2P 302 A 1 HETATM 14 C C18 L2P . . . C 3 83.191 -24.282 -21.957 1 58.31 ? C18 L2P 302 A 1 HETATM 15 C C19 L2P . . . C 3 82.96 -25.544 -21.158 1 58.56 ? C19 L2P 302 A 1 HETATM 16 C C20 L2P . . . C 3 82.422 -24.078 -23.244 1 58.26 ? C20 L2P 302 A 1 HETATM 17 C C21 L2P . . . C 3 83.164 -24.488 -24.514 1 58.23 ? C21 L2P 302 A 1 HETATM 18 C C22 L2P . . . C 3 84.116 -23.421 -25.063 1 58.24 ? C22 L2P 302 A 1 HETATM 19 C C23 L2P . . . C 3 84.443 -23.577 -26.542 1 58.38 ? C23 L2P 302 A 1 HETATM 20 C C24 L2P . . . C 3 83.294 -23.983 -27.452 1 57.64 ? C24 L2P 302 A 1 HETATM 21 C C25 L2P . . . C 3 85.49 -22.666 -27.162 1 58.86 ? C25 L2P 302 A 1 HETATM 22 C C26 L2P . . . C 3 85.715 -22.874 -28.666 1 59 ? C26 L2P 302 A 1 HETATM 23 C C27 L2P . . . C 3 85.257 -21.766 -29.615 1 59.09 ? C27 L2P 302 A 1 HETATM 24 C C28 L2P . . . C 3 84.478 -22.264 -30.83 1 58.96 ? C28 L2P 302 A 1 HETATM 25 C C29 L2P . . . C 3 84.972 -21.873 -32.209 1 57.7 ? C29 L2P 302 A 1 HETATM 26 C C30 L2P . . . C 3 82.968 -22.387 -30.623 1 59.48 ? C30 L2P 302 A 1 HETATM 27 C C41 L2P . . . C 3 90.058 -21.304 -14.03 1 62.87 ? C41 L2P 302 A 1 HETATM 28 C C42 L2P . . . C 3 90.891 -22.395 -13.373 1 62.94 ? C42 L2P 302 A 1 HETATM 29 C C43 L2P . . . C 3 92.392 -22.48 -13.521 1 62.79 ? C43 L2P 302 A 1 HETATM 30 C C44 L2P . . . C 3 93.25 -22.569 -12.264 1 62.36 ? C44 L2P 302 A 1 HETATM 31 C C45 L2P . . . C 3 93.036 -22.284 -14.88 1 62.52 ? C45 L2P 302 A 1 HETATM 32 C C46 L2P . . . C 3 92.241 -22.618 -16.149 1 62.35 ? C46 L2P 302 A 1 HETATM 33 C C47 L2P . . . C 3 93.008 -22.55 -17.47 1 61.96 ? C47 L2P 302 A 1 HETATM 34 C C48 L2P . . . C 3 92.261 -22.642 -18.794 1 61.97 ? C48 L2P 302 A 1 HETATM 35 C C49 L2P . . . C 3 90.802 -22.171 -18.845 1 62.28 ? C49 L2P 302 A 1 HETATM 36 C C50 L2P . . . C 3 93.029 -22.306 -20.074 1 61.81 ? C50 L2P 302 A 1 HETATM 37 C C51 L2P . . . C 3 92.904 -20.856 -20.533 1 61.91 ? C51 L2P 302 A 1 HETATM 38 C C52 L2P . . . C 3 94.198 -20.166 -20.961 1 61.99 ? C52 L2P 302 A 1 HETATM 39 C C53 L2P . . . C 3 94.045 -18.767 -21.543 1 62.26 ? C53 L2P 302 A 1 HETATM 40 C C54 L2P . . . C 3 92.816 -17.958 -21.162 1 62.22 ? C54 L2P 302 A 1 HETATM 41 C C55 L2P . . . C 3 94.768 -18.496 -22.862 1 62.23 ? C55 L2P 302 A 1 HETATM 42 C C56 L2P . . . C 3 96.142 -17.82 -22.657 1 62.09 ? C56 L2P 302 A 1 HETATM 43 C C57 L2P . . . C 3 96.148 -16.896 -21.428 1 62.03 ? C57 L2P 302 A 1 HETATM 44 C C58 L2P . . . C 3 97.488 -16.284 -21.04 1 62.07 ? C58 L2P 302 A 1 HETATM 45 C C59 L2P . . . C 3 97.571 -14.775 -20.827 1 62.17 ? C59 L2P 302 A 1 HETATM 46 C C60 L2P . . . C 3 98.316 -17.169 -20.106 1 62.27 ? C60 L2P 302 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 46 #