data_3NL6 # _model_server_result.job_id h1VjJcK5ysPCt95051hx7w _model_server_result.datetime_utc '2024-11-15 09:47:39' _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 3nl6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":2001}' # _entry.id 3NL6 # _exptl.entry_id 3NL6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 345.334 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'THIAMIN PHOSPHATE' _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 117.99 _cell.angle_gamma 90 _cell.entry_id 3NL6 _cell.length_a 163.173 _cell.length_b 153.528 _cell.length_c 109.618 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NL6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 163.173 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 H N N ? 3 K 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 metalc ? metalc1 D MG MG . A MG 541 1_555 F O1B ACP . A ACP 799 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.61 ? metalc ? metalc2 G MG MG . B MG 541 1_555 I O2B ACP . B ACP 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.641 ? metalc ? metalc3 G MG MG . B MG 541 1_555 I O2G ACP . B ACP 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.713 ? metalc ? metalc4 J MG MG . C MG 541 1_555 L O1B ACP . C ACP 899 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.777 ? # _chem_comp.formula 'C12 H18 N4 O4 P S 1' _chem_comp.formula_weight 345.334 _chem_comp.id TPS _chem_comp.mon_nstd_flag . _chem_comp.name 'THIAMIN PHOSPHATE' _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 CM2 C2A TPS sing 355 n n CM2 HM21 TPS sing 356 n n CM2 HM22 TPS sing 357 n n CM2 HM23 TPS sing 358 n n N3 C2 TPS doub 359 n y N3 C4 TPS sing 360 n y N3 C7A TPS sing 361 n n C2 S1 TPS sing 362 n y C2 H2 TPS sing 363 n n S1 C5 TPS sing 364 n y C5 C4 TPS doub 365 n y C5 C6 TPS sing 366 n n C4 CM4 TPS sing 367 n n CM4 HM41 TPS sing 368 n n CM4 HM42 TPS sing 369 n n CM4 HM43 TPS sing 370 n n C6 C7 TPS sing 371 n n C6 H61 TPS sing 372 n n C6 H62 TPS sing 373 n n C7 O7 TPS sing 374 n n C7 H71 TPS sing 375 n n C7 H72 TPS sing 376 n n O7 P1 TPS sing 377 n n N1A C2A TPS doub 378 n y N1A C6A TPS sing 379 n y C2A N3A TPS sing 380 n y N3A C4A TPS doub 381 n y C4A N4A TPS sing 382 n n C4A C5A TPS sing 383 n y N4A H41N TPS sing 384 n n N4A H42N TPS sing 385 n n C5A C6A TPS doub 386 n y C5A C7A TPS sing 387 n n C6A H6A TPS sing 388 n n C7A H7A1 TPS sing 389 n n C7A H7A2 TPS sing 390 n n P1 O1 TPS doub 391 n n P1 O2 TPS sing 392 n n P1 O3 TPS sing 393 n n O2 HO2 TPS sing 394 n n O3 HO3 TPS sing 395 n n # _atom_sites.entry_id 3NL6 _atom_sites.fract_transf_matrix[1][1] 0.006128 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003258 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006513 _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] 0.010331 _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 2 MG A 1 541 1 MG MG . E 3 TPS A 1 2001 2001 TPS TPS . F 4 ACP A 1 799 799 ACP ACP . G 2 MG B 1 541 3 MG MG . H 3 TPS B 1 2006 2006 TPS TPS . I 4 ACP B 1 999 999 ACP ACP . J 2 MG C 1 541 2 MG MG . K 3 TPS C 1 2002 2002 TPS TPS . L 4 ACP C 1 899 899 ACP ACP . # 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 CM2 TPS . . . E 3 73.981 47.24 -15.936 1 49.56 ? CM2 TPS 2001 A 1 HETATM 2 N N3 TPS . . . E 3 73.15 41.396 -13.332 1 75.09 ? N3 TPS 2001 A 1 HETATM 3 C C2 TPS . . . E 3 71.96 40.568 -13.9 1 80.24 ? C2 TPS 2001 A 1 HETATM 4 S S1 TPS . . . E 3 72.593 39.281 -14.786 1 64.65 ? S1 TPS 2001 A 1 HETATM 5 C C5 TPS . . . E 3 74.278 39.684 -14.897 1 56.04 ? C5 TPS 2001 A 1 HETATM 6 C C4 TPS . . . E 3 74.517 40.671 -13.763 1 57.8 ? C4 TPS 2001 A 1 HETATM 7 C CM4 TPS . . . E 3 75.839 40.779 -13.019 1 98.19 ? CM4 TPS 2001 A 1 HETATM 8 C C6 TPS . . . E 3 75.367 38.711 -15.303 1 52.48 ? C6 TPS 2001 A 1 HETATM 9 C C7 TPS . . . E 3 75.128 37.686 -16.404 1 54.27 ? C7 TPS 2001 A 1 HETATM 10 O O7 TPS . . . E 3 75.974 37.901 -17.494 1 49.4 ? O7 TPS 2001 A 1 HETATM 11 N N1A TPS . . . E 3 72.512 45.372 -15.016 1 45.34 ? N1A TPS 2001 A 1 HETATM 12 C C2A TPS . . . E 3 73.76 46.029 -15.034 1 55.18 ? C2A TPS 2001 A 1 HETATM 13 N N3A TPS . . . E 3 74.786 45.572 -14.225 1 57.48 ? N3A TPS 2001 A 1 HETATM 14 C C4A TPS . . . E 3 74.591 44.539 -13.461 1 50.41 ? C4A TPS 2001 A 1 HETATM 15 N N4A TPS . . . E 3 75.679 44.078 -12.626 1 75.89 ? N4A TPS 2001 A 1 HETATM 16 C C5A TPS . . . E 3 73.294 43.859 -13.442 1 56.65 ? C5A TPS 2001 A 1 HETATM 17 C C6A TPS . . . E 3 72.309 44.295 -14.214 1 56.26 ? C6A TPS 2001 A 1 HETATM 18 C C7A TPS . . . E 3 73.069 42.63 -12.568 1 62.68 ? C7A TPS 2001 A 1 HETATM 19 P P1 TPS . . . E 3 76.257 36.781 -18.671 1 63.39 ? P1 TPS 2001 A 1 HETATM 20 O O1 TPS . . . E 3 75.067 35.961 -18.958 1 54.51 ? O1 TPS 2001 A 1 HETATM 21 O O3 TPS . . . E 3 76.704 37.619 -20.025 1 59.65 ? O3 TPS 2001 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 21 #