data_6GAG # _model_server_result.job_id g3RQ5rG0iupTH-PiWgQb3w _model_server_result.datetime_utc '2024-11-27 04:21:05' _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 6gag # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":312}' # _entry.id 6GAG # _exptl.entry_id 6GAG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 128.255 _entity.id 10 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description nonane _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 120 _cell.entry_id 6GAG _cell.length_a 62.1 _cell.length_b 62.1 _cell.length_c 110.5 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GAG _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 _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_455 -y-1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -62.1 0 0 3 'crystal symmetry operation' 3_445 -x+y-1,-x-1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -31.05 -53.780178 0 # _struct_asym.details ? _struct_asym.entity_id 10 _struct_asym.id M _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 covale ? covale1 A NZ LYS 216 A LYS 216 1_555 B C15 RET . A RET 301 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.343 ? covale ? covale2 A NZ LYS 216 A LYS 216 1_555 B C15 RET . A RET 301 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.309 ? # _chem_comp.formula 'C9 H20' _chem_comp.formula_weight 128.255 _chem_comp.id DD9 _chem_comp.mon_nstd_flag . _chem_comp.name nonane _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 C2 C1 DD9 sing 144 n n C1 H1 DD9 sing 145 n n C1 H1A DD9 sing 146 n n C1 H1B DD9 sing 147 n n C3 C2 DD9 sing 148 n n C2 H2 DD9 sing 149 n n C2 H2A DD9 sing 150 n n C4 C3 DD9 sing 151 n n C3 H3 DD9 sing 152 n n C3 H3A DD9 sing 153 n n C5 C4 DD9 sing 154 n n C4 H4 DD9 sing 155 n n C4 H4A DD9 sing 156 n n C6 C5 DD9 sing 157 n n C5 H5 DD9 sing 158 n n C5 H5A DD9 sing 159 n n C7 C6 DD9 sing 160 n n C6 H6 DD9 sing 161 n n C6 H6A DD9 sing 162 n n C8 C7 DD9 sing 163 n n C7 H7 DD9 sing 164 n n C7 H7A DD9 sing 165 n n C9 C8 DD9 sing 166 n n C8 H8 DD9 sing 167 n n C8 H8A DD9 sing 168 n n C9 H9 DD9 sing 169 n n C9 H9A DD9 sing 170 n n C9 H9B DD9 sing 171 n n # _atom_sites.entry_id 6GAG _atom_sites.fract_transf_matrix[1][1] 0.016103 _atom_sites.fract_transf_matrix[1][2] 0.009297 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018594 _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] 0.00905 _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 1 301 300 RET RET . C 3 L2P A 1 302 600 L2P L2P . D 4 TRD A 1 303 601 TRD TRD . E 5 D10 A 1 304 602 D10 D10 . F 6 HP6 A 1 305 603 HP6 HP6 . G 7 OCT A 1 306 604 OCT OCT . H 7 OCT A 1 307 605 OCT OCT . I 8 MYS A 1 308 606 MYS MYS . J 9 UND A 1 309 607 UND UND . K 3 L2P A 1 310 608 L2P L2P . L 3 L2P A 1 311 609 L2P L2P . M 10 DD9 A 1 312 611 DD9 DD9 . N 11 C14 A 1 313 612 C14 C14 . O 7 OCT A 1 314 613 OCT OCT . P 9 UND A 1 315 614 UND UND . Q 12 HOH A 1 401 636 HOH HOH . Q 12 HOH A 2 402 611 HOH HOH . Q 12 HOH A 3 403 627 HOH HOH . Q 12 HOH A 4 404 618 HOH HOH . Q 12 HOH A 5 405 613 HOH HOH . Q 12 HOH A 6 406 616 HOH HOH . Q 12 HOH A 7 407 610 HOH HOH . Q 12 HOH A 8 408 402 HOH HOH . Q 12 HOH A 9 409 631 HOH HOH . Q 12 HOH A 10 410 617 HOH HOH . Q 12 HOH A 11 411 406 HOH HOH . Q 12 HOH A 12 412 403 HOH HOH . Q 12 HOH A 13 413 401 HOH HOH . Q 12 HOH A 14 414 620 HOH HOH . Q 12 HOH A 15 415 630 HOH HOH . Q 12 HOH A 16 416 633 HOH HOH . Q 12 HOH A 17 417 614 HOH HOH . Q 12 HOH A 18 418 609 HOH HOH . Q 12 HOH A 19 419 606 HOH HOH . Q 12 HOH A 20 420 635 HOH HOH . Q 12 HOH A 21 421 407 HOH HOH . Q 12 HOH A 22 422 612 HOH HOH . Q 12 HOH A 23 423 626 HOH HOH . Q 12 HOH A 24 424 404 HOH HOH . Q 12 HOH A 25 425 501 HOH HOH . Q 12 HOH A 26 426 619 HOH HOH . Q 12 HOH A 27 427 622 HOH HOH . Q 12 HOH A 28 428 615 HOH HOH . Q 12 HOH A 29 429 628 HOH HOH . Q 12 HOH A 30 430 624 HOH HOH . Q 12 HOH A 31 431 621 HOH HOH . Q 12 HOH A 32 432 629 HOH HOH . Q 12 HOH A 33 433 623 HOH HOH . Q 12 HOH A 34 434 634 HOH HOH . Q 12 HOH A 35 435 638 HOH HOH . Q 12 HOH A 36 436 637 HOH HOH . Q 12 HOH A 37 437 632 HOH HOH . Q 12 HOH A 38 438 625 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 DD9 . . . M 10 -0.656 -21.689 11.819 1 53.65 ? C1 DD9 312 A 1 HETATM 2 C C2 DD9 . . . M 10 -0.079 -21.575 10.424 1 51.19 ? C2 DD9 312 A 1 HETATM 3 C C3 DD9 . . . M 10 -1.105 -20.943 9.509 1 51.64 ? C3 DD9 312 A 1 HETATM 4 C C4 DD9 . . . M 10 -0.416 -20.127 8.433 1 52.91 ? C4 DD9 312 A 1 HETATM 5 C C5 DD9 . . . M 10 -1.47 -19.332 7.689 1 50.45 ? C5 DD9 312 A 1 HETATM 6 C C6 DD9 . . . M 10 -0.863 -18.063 7.132 1 51.36 ? C6 DD9 312 A 1 HETATM 7 C C7 DD9 . . . M 10 -1.967 -17.068 6.84 1 48.31 ? C7 DD9 312 A 1 HETATM 8 C C8 DD9 . . . M 10 -1.491 -16.074 5.801 1 51.98 ? C8 DD9 312 A 1 HETATM 9 C C9 DD9 . . . M 10 -2.454 -14.906 5.742 1 45.27 ? C9 DD9 312 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 9 #