data_5FM0 # _model_server_result.job_id 8AnI8xLSGV6-KRfJTnsKDg _model_server_result.datetime_utc '2024-11-27 03:17:56' _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 5fm0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":1257}' # _entry.id 5FM0 # _exptl.entry_id 5FM0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 489.374 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description PIMELOYL-AMP _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 5FM0 _cell.length_a 50.61 _cell.length_b 78.36 _cell.length_c 166.7 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5FM0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 2 C N N ? 2 J 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 A SD MET 17 A MET 16 1_555 G PT PT . A PT 1260 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? metalc ? metalc2 A SD MET 17 A MET 16 1_555 I PT PT . A PT 1262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc3 A OD1 ASP 196 A ASP 195 1_555 F MG MG . A MG 1259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? metalc ? metalc4 A OD1 ASP 197 A ASP 196 1_555 F MG MG . A MG 1259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? metalc ? metalc5 A SD MET 210 A MET 209 1_555 H PT PT . A PT 1261 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.731 ? metalc ? metalc6 C OAH WAQ . A WAQ 1256 1_555 E MG MG . A MG 1258 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? metalc ? metalc7 C OAD WAQ . A WAQ 1256 1_555 F MG MG . A MG 1259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? metalc ? metalc8 D O21 PPV . A PPV 1257 1_555 E MG MG . A MG 1258 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc9 D O12 PPV . A PPV 1257 1_555 E MG MG . A MG 1258 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? metalc ? metalc10 D O31 PPV . A PPV 1257 1_555 F MG MG . A MG 1259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.586 ? metalc ? metalc11 D O32 PPV . A PPV 1257 1_555 F MG MG . A MG 1259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc12 E MG MG . A MG 1258 1_555 O O HOH . A HOH 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc13 E MG MG . A MG 1258 1_555 O O HOH . A HOH 2006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc14 F MG MG . A MG 1259 1_555 O O HOH . A HOH 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc15 B SD MET 17 B MET 16 1_555 L PT PT . B PT 1259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? metalc ? metalc16 B SD MET 17 B MET 16 1_555 N PT PT . B PT 1261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.455 ? metalc ? metalc17 B SD MET 210 B MET 209 1_555 M PT PT . B PT 1260 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.655 ? # _chem_comp.formula 'C17 H24 N5 O10 P' _chem_comp.formula_weight 489.374 _chem_comp.id WAQ _chem_comp.mon_nstd_flag . _chem_comp.name PIMELOYL-AMP _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 N1 C6 WAQ doub 388 n y N1 C2 WAQ sing 389 n y C2 N3 WAQ doub 390 n y C2 H2 WAQ sing 391 n n N3 C4 WAQ sing 392 n y C5 C4 WAQ doub 393 n y C4 N9 WAQ sing 394 n y C6 C5 WAQ sing 395 n y C5 N7 WAQ sing 396 n y N6 C6 WAQ sing 397 n n N6 HN6 WAQ sing 398 n n N6 HN6A WAQ sing 399 n n N7 C8 WAQ doub 400 n y C8 N9 WAQ sing 401 n y C8 H8 WAQ sing 402 n n N9 C1' WAQ sing 403 n n C2' C1' WAQ sing 404 n n C1' O4' WAQ sing 405 n n C1' H1' WAQ sing 406 n n C2' O2' WAQ sing 407 n n C2' C3' WAQ sing 408 n n C2' H2' WAQ sing 409 n n O2' HO2' WAQ sing 410 n n C3' O3' WAQ sing 411 n n C3' C4' WAQ sing 412 n n C3' H3' WAQ sing 413 n n O3' HO3' WAQ sing 414 n n O4' C4' WAQ sing 415 n n C4' C5' WAQ sing 416 n n C4' H4' WAQ sing 417 n n O5' C5' WAQ sing 418 n n C5' H5' WAQ sing 419 n n C5' "H5'A" WAQ sing 420 n n O5' PBG WAQ sing 421 n n CAW OAB WAQ sing 422 n n OAB HOAB WAQ sing 423 n n OAC CAX WAQ doub 424 n n OAD PBG WAQ doub 425 n n OAE CAW WAQ doub 426 n n PBG OAH WAQ sing 427 n n OAH HOAH WAQ sing 428 n n CAM CAK WAQ sing 429 n n CAK CAL WAQ sing 430 n n CAK HAK WAQ sing 431 n n CAK HAKA WAQ sing 432 n n CAN CAL WAQ sing 433 n n CAL HAL WAQ sing 434 n n CAL HALA WAQ sing 435 n n CAO CAM WAQ sing 436 n n CAM HAM WAQ sing 437 n n CAM HAMA WAQ sing 438 n n CAN CAW WAQ sing 439 n n CAN HAN WAQ sing 440 n n CAN HANA WAQ sing 441 n n CAX CAO WAQ sing 442 n n CAO HAO WAQ sing 443 n n CAO HAOA WAQ sing 444 n n PBG OAU WAQ sing 445 n n OAU CAX WAQ sing 446 n n # _atom_sites.entry_id 5FM0 _atom_sites.fract_transf_matrix[1][1] 0.019759 _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] 0.012762 _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] 0.005999 _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 C 2 WAQ A 1 1256 1256 WAQ WAQ . D 3 PPV A 1 1257 1257 PPV PPV . E 4 MG A 1 1258 1258 MG MG . F 4 MG A 1 1259 1259 MG MG . G 5 PT A 1 1260 1260 PT PT . H 5 PT A 1 1261 1261 PT PT . I 5 PT A 1 1262 1262 PT PT . J 2 WAQ B 1 1257 1257 WAQ WAQ . K 3 PPV B 1 1258 1258 PPV PPV . L 5 PT B 1 1259 1259 PT PT . M 5 PT B 1 1260 1260 PT PT . N 5 PT B 1 1261 1261 PT PT . O 6 HOH A 1 2001 2001 HOH HOH . O 6 HOH A 2 2002 2002 HOH HOH . O 6 HOH A 3 2003 2003 HOH HOH . O 6 HOH A 4 2004 2004 HOH HOH . O 6 HOH A 5 2005 2005 HOH HOH . O 6 HOH A 6 2006 2006 HOH HOH . O 6 HOH A 7 2007 2007 HOH HOH . O 6 HOH A 8 2008 2008 HOH HOH . O 6 HOH A 9 2009 2009 HOH HOH . O 6 HOH A 10 2010 2010 HOH HOH . P 6 HOH B 1 2001 2001 HOH HOH . P 6 HOH B 2 2002 2002 HOH HOH . P 6 HOH B 3 2003 2003 HOH HOH . P 6 HOH B 4 2004 2004 HOH HOH . P 6 HOH B 5 2005 2005 HOH HOH . P 6 HOH B 6 2006 2006 HOH HOH . P 6 HOH B 7 2007 2007 HOH HOH . P 6 HOH B 8 2008 2008 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 N N1 WAQ . . . J 2 25.407 -42.521 3.997 1 41.23 ? N1 WAQ 1257 B 1 HETATM 2 C C2 WAQ . . . J 2 26.046 -41.828 5.016 1 36.97 ? C2 WAQ 1257 B 1 HETATM 3 N N3 WAQ . . . J 2 25.281 -41.322 6.055 1 33.22 ? N3 WAQ 1257 B 1 HETATM 4 C C4 WAQ . . . J 2 23.966 -41.505 6.038 1 37.92 ? C4 WAQ 1257 B 1 HETATM 5 C C5 WAQ . . . J 2 23.363 -42.175 5.069 1 43.11 ? C5 WAQ 1257 B 1 HETATM 6 C C6 WAQ . . . J 2 24.085 -42.664 4.068 1 37.59 ? C6 WAQ 1257 B 1 HETATM 7 N N6 WAQ . . . J 2 23.421 -43.295 3.133 1 32.15 ? N6 WAQ 1257 B 1 HETATM 8 N N7 WAQ . . . J 2 22.046 -42.205 5.323 1 44.48 ? N7 WAQ 1257 B 1 HETATM 9 C C8 WAQ . . . J 2 21.864 -41.563 6.456 1 46.21 ? C8 WAQ 1257 B 1 HETATM 10 N N9 WAQ . . . J 2 23.044 -41.134 6.892 1 42.07 ? N9 WAQ 1257 B 1 HETATM 11 C C1' WAQ . . . J 2 23.417 -40.373 8.094 1 36.16 ? C1' WAQ 1257 B 1 HETATM 12 C C2' WAQ . . . J 2 22.71 -39.045 8.164 1 37.42 ? C2' WAQ 1257 B 1 HETATM 13 O O2' WAQ . . . J 2 23.576 -38.083 8.855 1 32.07 ? O2' WAQ 1257 B 1 HETATM 14 C C3' WAQ . . . J 2 21.587 -39.29 9.052 1 39.61 ? C3' WAQ 1257 B 1 HETATM 15 O O3' WAQ . . . J 2 21.383 -38.095 9.783 1 42.1 ? O3' WAQ 1257 B 1 HETATM 16 C C4' WAQ . . . J 2 22.165 -40.312 10.016 1 36.12 ? C4' WAQ 1257 B 1 HETATM 17 O O4' WAQ . . . J 2 23.011 -41.143 9.225 1 38.92 ? O4' WAQ 1257 B 1 HETATM 18 C C5' WAQ . . . J 2 21.092 -41.173 10.621 1 32.58 ? C5' WAQ 1257 B 1 HETATM 19 O O5' WAQ . . . J 2 20.186 -41.381 9.604 1 41.31 ? O5' WAQ 1257 B 1 HETATM 20 O OAB WAQ . . . J 2 17.644 -50.953 15.155 1 49.23 ? OAB WAQ 1257 B 1 HETATM 21 O OAC WAQ . . . J 2 17.755 -44.942 11.261 1 41.63 ? OAC WAQ 1257 B 1 HETATM 22 O OAD WAQ . . . J 2 17.915 -41.679 10.766 1 49.55 ? OAD WAQ 1257 B 1 HETATM 23 O OAE WAQ . . . J 2 19.508 -51.832 14.285 1 37.71 ? OAE WAQ 1257 B 1 HETATM 24 O OAH WAQ . . . J 2 18.468 -42.935 8.558 1 53.98 ? OAH WAQ 1257 B 1 HETATM 25 C CAK WAQ . . . J 2 20.176 -47.677 13.547 1 40.55 ? CAK WAQ 1257 B 1 HETATM 26 C CAL WAQ . . . J 2 19.522 -48.752 14.426 1 43.79 ? CAL WAQ 1257 B 1 HETATM 27 C CAM WAQ . . . J 2 19.154 -46.772 12.893 1 39.36 ? CAM WAQ 1257 B 1 HETATM 28 C CAN WAQ . . . J 2 18.763 -49.673 13.548 1 41.08 ? CAN WAQ 1257 B 1 HETATM 29 C CAO WAQ . . . J 2 19.906 -45.575 12.277 1 39.92 ? CAO WAQ 1257 B 1 HETATM 30 O OAU WAQ . . . J 2 19.605 -43.655 10.776 1 49.25 ? OAU WAQ 1257 B 1 HETATM 31 C CAW WAQ . . . J 2 18.643 -50.912 14.405 1 40.46 ? CAW WAQ 1257 B 1 HETATM 32 C CAX WAQ . . . J 2 18.958 -44.702 11.374 1 46.73 ? CAX WAQ 1257 B 1 HETATM 33 P PBG WAQ . . . J 2 18.985 -42.452 9.842 1 45.04 ? PBG WAQ 1257 B 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 33 #