data_6T0V # _model_server_result.job_id CoCezuvOKO7FurcDKU-ptA _model_server_result.datetime_utc '2024-10-20 12:52:40' _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 6t0v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":801}' # _entry.id 6T0V # _exptl.entry_id 6T0V _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 353.372 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '5-oxidanyl-4-oxidanylidene-1-[(1-pyrrolo[2,3-b]pyridin-1-ylcyclopentyl)methyl]pyridine-3-carboxylic acid' _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 90 _cell.entry_id 6T0V _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6T0V _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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,M _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 ? _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 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id G _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 F O3E GTG 1 M GTG 1 1_555 F P A 2 M A 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.598 ? metalc ? metalc1 A OE1 GLU 94 A GLU 80 1_555 I MG MG . A MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.191 ? metalc ? metalc2 A OD2 ASP 122 A ASP 108 1_555 H MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.884 ? metalc ? metalc3 A OD1 ASP 122 A ASP 108 1_555 I MG MG . A MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.871 ? metalc ? metalc4 A OE2 GLU 133 A GLU 119 1_555 H MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.873 ? metalc ? metalc5 A O ILE 134 A ILE 120 1_555 H MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.885 ? metalc ? metalc6 G O11 M4H . A M4H 801 1_555 H MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.859 ? metalc ? metalc7 G O10 M4H . A M4H 801 1_555 I MG MG . A MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.913 ? metalc ? metalc8 B O GLY 313 B GLY 304 1_555 L MG MG . B MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.777 ? metalc ? metalc9 B OD2 ASP 314 B ASP 305 1_555 K MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.825 ? metalc ? metalc10 B OD1 ASP 314 B ASP 305 1_555 M MG MG . B MG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc11 B O ASN 315 B ASN 306 1_555 K MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? metalc ? metalc12 B OD2 ASP 454 B ASP 445 1_555 K MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.799 ? metalc ? metalc13 B OD1 ASP 454 B ASP 445 1_555 M MG MG . B MG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? metalc ? metalc14 B OD2 ASP 455 B ASP 446 1_555 M MG MG . B MG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.66 ? metalc ? metalc15 J O2A 2KH . B 2KH 801 1_555 K MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc16 J O1B 2KH . B 2KH 801 1_555 K MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc17 J O2G 2KH . B 2KH 801 1_555 K MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? metalc ? metalc18 M MG MG . B MG 804 1_555 F O3' G 26 M G 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.726 ? hydrog WATSON-CRICK hydrog1 E N3 C 5 R C 18 1_555 F N1 G 26 M G 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 E N4 C 5 R C 18 1_555 F O6 G 26 M G 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 E O2 C 5 R C 18 1_555 F N2 G 26 M G 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 E N3 C 6 R C 19 1_555 F N1 G 25 M G 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 E N4 C 6 R C 19 1_555 F O6 G 25 M G 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 E O2 C 6 R C 19 1_555 F N2 G 25 M G 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 E N3 U 7 R U 20 1_555 F N1 A 24 M A 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 E O4 U 7 R U 20 1_555 F N6 A 24 M A 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 E N3 C 8 R C 21 1_555 F N1 G 23 M G 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 E N4 C 8 R C 21 1_555 F O6 G 23 M G 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 E O2 C 8 R C 21 1_555 F N2 G 23 M G 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 E N3 U 9 R U 22 1_555 F N1 A 22 M A 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 E O4 U 9 R U 22 1_555 F N6 A 22 M A 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 E N1 G 10 R G 23 1_555 F N3 C 21 M C 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 E N2 G 10 R G 23 1_555 F O2 C 21 M C 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 E O6 G 10 R G 23 1_555 F N4 C 21 M C 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 E N3 C 11 R C 24 1_555 F N1 G 20 M G 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 E N4 C 11 R C 24 1_555 F O6 G 20 M G 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 E O2 C 11 R C 24 1_555 F N2 G 20 M G 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 E N3 U 12 R U 25 1_555 F N1 A 19 M A 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 E O4 U 12 R U 25 1_555 F N6 A 19 M A 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'U-C MISPAIR' hydrog22 E O2 U 12 R U 25 1_555 E N4 C 14 R C 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 E N3 U 13 R U 26 1_555 F N1 A 18 M A 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 E O4 U 13 R U 26 1_555 F N6 A 18 M A 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'A-A MISPAIR' hydrog25 D N6 A 1 V A 1 1_555 D N3 A 10 V A 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 D N1 G 2 V G 2 1_555 D N3 C 9 V C 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 D N2 G 2 V G 2 1_555 D O2 C 9 V C 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 D O6 G 2 V G 2 1_555 D N4 C 9 V C 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 D N3 U 3 V U 3 1_555 D N1 A 8 V A 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 D O4 U 3 V U 3 1_555 D N6 A 8 V A 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'A-A MISPAIR' hydrog31 D N3 A 4 V A 4 1_555 D N6 A 7 V A 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C19 H19 N3 O4' _chem_comp.formula_weight 353.372 _chem_comp.id M4H _chem_comp.mon_nstd_flag . _chem_comp.name '5-oxidanyl-4-oxidanylidene-1-[(1-pyrrolo[2,3-b]pyridin-1-ylcyclopentyl)methyl]pyridine-3-carboxylic acid' _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 O11 C2 M4H sing 464 n n O10 C1 M4H doub 465 n n C2 C1 M4H sing 466 n n C2 C3 M4H doub 467 n n C1 C6 M4H sing 468 n n C3 N4 M4H sing 469 n n O8 C7 M4H doub 470 n n C6 C7 M4H sing 471 n n C6 C5 M4H doub 472 n n N4 C5 M4H sing 473 n n N4 C12 M4H sing 474 n n C7 O9 M4H sing 475 n n C14 C15 M4H sing 476 n n C14 C13 M4H sing 477 n n C15 C16 M4H sing 478 n n C12 C13 M4H sing 479 n n C13 N18 M4H sing 480 n n C13 C17 M4H sing 481 n n C22 N18 M4H sing 482 n y C22 C21 M4H doub 483 n y N18 C19 M4H sing 484 n y C16 C17 M4H sing 485 n n C21 C20 M4H sing 486 n y C19 C20 M4H doub 487 n y C19 N26 M4H sing 488 n y C20 C23 M4H sing 489 n y N26 C25 M4H doub 490 n y C23 C24 M4H doub 491 n y C25 C24 M4H sing 492 n y C5 H1 M4H sing 493 n n C3 H2 M4H sing 494 n n C12 H3 M4H sing 495 n n C12 H4 M4H sing 496 n n C14 H5 M4H sing 497 n n C14 H6 M4H sing 498 n n C15 H7 M4H sing 499 n n C15 H8 M4H sing 500 n n C16 H9 M4H sing 501 n n C16 H10 M4H sing 502 n n C17 H11 M4H sing 503 n n C17 H12 M4H sing 504 n n C21 H13 M4H sing 505 n n C22 H14 M4H sing 506 n n C23 H15 M4H sing 507 n n C24 H16 M4H sing 508 n n C25 H17 M4H sing 509 n n O11 H18 M4H sing 510 n n O9 H19 M4H sing 511 n n # _atom_sites.entry_id 6T0V _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 G 7 M4H A 1 801 1 M4H 483 . H 8 MG A 1 802 901 MG MG . I 8 MG A 1 803 902 MG MG . J 9 2KH B 1 801 1 2KH 2KH . K 8 MG B 1 802 1 MG MG . L 8 MG B 1 803 2 MG MG . M 8 MG B 1 804 3 MG MG . # 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 C5 M4H . . . G 7 106.232 158.874 100.89 1 59.65 ? C5 M4H 801 A 1 HETATM 2 C C6 M4H . . . G 7 106.855 157.737 100.397 1 59.65 ? C6 M4H 801 A 1 HETATM 3 C C7 M4H . . . G 7 107.833 157.024 101.287 1 59.65 ? C7 M4H 801 A 1 HETATM 4 C C3 M4H . . . G 7 105.004 159.235 98.933 1 59.65 ? C3 M4H 801 A 1 HETATM 5 C C2 M4H . . . G 7 105.536 158.13 98.289 1 59.65 ? C2 M4H 801 A 1 HETATM 6 C C1 M4H . . . G 7 106.526 157.305 99.017 1 59.65 ? C1 M4H 801 A 1 HETATM 7 C C12 M4H . . . G 7 104.718 160.765 100.839 1 59.65 ? C12 M4H 801 A 1 HETATM 8 C C13 M4H . . . G 7 103.283 160.574 101.37 1 59.65 ? C13 M4H 801 A 1 HETATM 9 C C14 M4H . . . G 7 102.171 160.669 100.318 1 59.65 ? C14 M4H 801 A 1 HETATM 10 C C15 M4H . . . G 7 101.143 161.697 100.759 1 59.65 ? C15 M4H 801 A 1 HETATM 11 C C16 M4H . . . G 7 101.478 162.022 102.201 1 59.65 ? C16 M4H 801 A 1 HETATM 12 C C17 M4H . . . G 7 102.952 161.684 102.36 1 59.65 ? C17 M4H 801 A 1 HETATM 13 C C19 M4H . . . G 7 103.826 158.957 103.225 1 59.65 ? C19 M4H 801 A 1 HETATM 14 C C20 M4H . . . G 7 103.388 157.574 103.424 1 59.65 ? C20 M4H 801 A 1 HETATM 15 C C21 M4H . . . G 7 102.515 157.144 102.376 1 59.65 ? C21 M4H 801 A 1 HETATM 16 C C22 M4H . . . G 7 102.434 158.262 101.555 1 59.65 ? C22 M4H 801 A 1 HETATM 17 C C23 M4H . . . G 7 103.832 156.881 104.537 1 59.65 ? C23 M4H 801 A 1 HETATM 18 C C24 M4H . . . G 7 104.686 157.532 105.42 1 59.65 ? C24 M4H 801 A 1 HETATM 19 C C25 M4H . . . G 7 105.082 158.845 105.191 1 59.65 ? C25 M4H 801 A 1 HETATM 20 N N18 M4H . . . G 7 103.197 159.252 102.072 1 59.65 ? N18 M4H 801 A 1 HETATM 21 N N26 M4H . . . G 7 104.668 159.531 104.118 1 59.65 ? N26 M4H 801 A 1 HETATM 22 N N4 M4H . . . G 7 105.321 159.574 100.196 1 59.65 ? N4 M4H 801 A 1 HETATM 23 O O10 M4H . . . G 7 107.041 156.304 98.474 1 59.65 ? O10 M4H 801 A 1 HETATM 24 O O11 M4H . . . G 7 105.153 157.828 97.016 1 59.65 ? O11 M4H 801 A 1 HETATM 25 O O8 M4H . . . G 7 108.278 155.896 100.986 1 59.65 ? O8 M4H 801 A 1 HETATM 26 O O9 M4H . . . G 7 108.176 157.594 102.346 1 59.65 ? O9 M4H 801 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 26 #