data_7XJD # _model_server_result.job_id D3HU5LjuMOWEO_fspB5AuQ _model_server_result.datetime_utc '2024-11-13 02:16:25' _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":"D","auth_seq_id":303}' # _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 . . . D 3 85.682 0.72 -39.228 1 48.61 ? C1 L2P 303 A 1 HETATM 2 O O1 L2P . . . D 3 84.793 0.908 -38.08 1 50.04 ? O1 L2P 303 A 1 HETATM 3 C C2 L2P . . . D 3 86.594 -0.537 -39.179 1 46.42 ? C2 L2P 303 A 1 HETATM 4 O O2 L2P . . . D 3 86.637 -1.233 -37.911 1 43.56 ? O2 L2P 303 A 1 HETATM 5 C C3 L2P . . . D 3 86.654 -1.271 -40.528 1 46.8 ? C3 L2P 303 A 1 HETATM 6 O O3 L2P . . . D 3 86.667 -0.268 -41.621 1 49.95 ? O3 L2P 303 A 1 HETATM 7 C C11 L2P . . . D 3 83.636 1.765 -37.976 1 50.74 ? C11 L2P 303 A 1 HETATM 8 C C12 L2P . . . D 3 82.656 1.995 -39.144 1 51.72 ? C12 L2P 303 A 1 HETATM 9 C C13 L2P . . . D 3 81.985 3.379 -39.013 1 52.56 ? C13 L2P 303 A 1 HETATM 10 C C15 L2P . . . D 3 82.486 4.11 -37.742 1 53.27 ? C15 L2P 303 A 1 HETATM 11 C C16 L2P . . . D 3 81.392 4.911 -37.037 1 53.92 ? C16 L2P 303 A 1 HETATM 12 C C17 L2P . . . D 3 80.868 4.275 -35.747 1 54.67 ? C17 L2P 303 A 1 HETATM 13 C C18 L2P . . . D 3 79.502 4.815 -35.319 1 55.44 ? C18 L2P 303 A 1 HETATM 14 C C19 L2P . . . D 3 78.873 5.837 -36.277 1 56 ? C19 L2P 303 A 1 HETATM 15 C C20 L2P . . . D 3 79.419 5.26 -33.849 1 56.03 ? C20 L2P 303 A 1 HETATM 16 C C21 L2P . . . D 3 77.968 5.252 -33.336 1 56.51 ? C21 L2P 303 A 1 HETATM 17 C C22 L2P . . . D 3 77.472 3.897 -32.836 1 56.77 ? C22 L2P 303 A 1 HETATM 18 C C23 L2P . . . D 3 77.726 3.649 -31.343 1 57.33 ? C23 L2P 303 A 1 HETATM 19 C C25 L2P . . . D 3 78.87 4.428 -30.707 1 57.89 ? C25 L2P 303 A 1 HETATM 20 C C26 L2P . . . D 3 79.692 3.831 -29.57 1 57.94 ? C26 L2P 303 A 1 HETATM 21 C C27 L2P . . . D 3 81.089 3.295 -29.862 1 57.9 ? C27 L2P 303 A 1 HETATM 22 C C28 L2P . . . D 3 82.291 4.204 -29.624 1 57.93 ? C28 L2P 303 A 1 HETATM 23 C C29 L2P . . . D 3 83.472 3.576 -28.88 1 57.84 ? C29 L2P 303 A 1 HETATM 24 C C30 L2P . . . D 3 82.65 5.103 -30.819 1 59.13 ? C30 L2P 303 A 1 HETATM 25 C C41 L2P . . . D 3 86.991 -0.463 -36.704 1 42.58 ? C41 L2P 303 A 1 HETATM 26 C C42 L2P . . . D 3 86.954 -1.391 -35.46 1 41.79 ? C42 L2P 303 A 1 HETATM 27 C C43 L2P . . . D 3 86.423 -0.692 -34.199 1 41.96 ? C43 L2P 303 A 1 HETATM 28 C C45 L2P . . . D 3 86.027 -1.626 -33.056 1 41.9 ? C45 L2P 303 A 1 HETATM 29 C C46 L2P . . . D 3 84.897 -1.019 -32.184 1 42.06 ? C46 L2P 303 A 1 HETATM 30 C C47 L2P . . . D 3 85.203 -1.06 -30.693 1 42.3 ? C47 L2P 303 A 1 HETATM 31 C C48 L2P . . . D 3 84.639 0.071 -29.829 1 42.66 ? C48 L2P 303 A 1 HETATM 32 C C50 L2P . . . D 3 83.782 -0.384 -28.654 1 42.94 ? C50 L2P 303 A 1 HETATM 33 C C51 L2P . . . D 3 83.529 0.527 -27.47 1 42.22 ? C51 L2P 303 A 1 HETATM 34 C C52 L2P . . . D 3 84.569 0.643 -26.363 1 41.95 ? C52 L2P 303 A 1 HETATM 35 C C53 L2P . . . D 3 85.96 1.112 -26.814 1 42.34 ? C53 L2P 303 A 1 HETATM 36 C C55 L2P . . . D 3 86.744 2.128 -26.065 1 42.2 ? C55 L2P 303 A 1 HETATM 37 C C56 L2P . . . D 3 86.796 3.606 -26.44 1 42.01 ? C56 L2P 303 A 1 HETATM 38 C C57 L2P . . . D 3 86.4 4.507 -25.278 1 42.51 ? C57 L2P 303 A 1 HETATM 39 C C58 L2P . . . D 3 86.812 5.972 -25.351 1 42.86 ? C58 L2P 303 A 1 HETATM 40 C C59 L2P . . . D 3 86.127 6.899 -24.334 1 43.51 ? C59 L2P 303 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 401 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 40 #