data_5L1F # _model_server_result.job_id c1QjARTlrRdpiQSqqnXivg _model_server_result.datetime_utc '2024-11-25 17:44:19' _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 5l1f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":902}' # _entry.id 5L1F # _exptl.entry_id 5L1F _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 349.385 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2-(6'-oxo-1'-phenyl[1',6'-dihydro[2,3'-bipyridine]]-5'-yl)benzonitrile" _entity.pdbx_number_of_molecules 4 _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 5L1F _cell.length_a 91.74 _cell.length_b 109.345 _cell.length_c 594.835 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5L1F _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 tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 # _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 ? 3 F N N ? 3 H N N ? 3 J N N ? 3 L 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 disulf ? disulf1 A SG CYS 54 A CYS 63 1_555 A SG CYS 306 A CYS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 A SG CYS 690 A CYS 718 1_555 A SG CYS 745 A CYS 773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 B SG CYS 54 B CYS 63 1_555 B SG CYS 306 B CYS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 B SG CYS 690 B CYS 718 1_555 B SG CYS 745 B CYS 773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 C SG CYS 54 C CYS 63 1_555 C SG CYS 306 C CYS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 C SG CYS 690 C CYS 718 1_555 C SG CYS 745 C CYS 773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 D SG CYS 54 D CYS 63 1_555 D SG CYS 306 D CYS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A NZ LYS 337 A LYS 346 1_555 E O7 NAG . A NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.298 ? covale ? covale2 A ND2 ASN 346 A ASN 355 1_555 E C1 NAG . A NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale3 B ND2 ASN 346 B ASN 355 1_555 G C1 NAG . B NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? covale ? covale4 C NZ LYS 337 C LYS 346 1_555 I O7 NAG . C NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.297 ? covale ? covale5 C ND2 ASN 346 C ASN 355 1_555 I C1 NAG . C NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale6 D ND2 ASN 346 D ASN 355 1_555 K C1 NAG . D NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? # _chem_comp.formula 'C23 H15 N3 O' _chem_comp.formula_weight 349.385 _chem_comp.id 6ZP _chem_comp.mon_nstd_flag . _chem_comp.name "2-(6'-oxo-1'-phenyl[1',6'-dihydro[2,3'-bipyridine]]-5'-yl)benzonitrile" _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 C24 C25 6ZP doub 1 n y C24 C23 6ZP sing 2 n y C25 C26 6ZP sing 3 n y C23 C22 6ZP doub 4 n y N01 C02 6ZP trip 5 n n C26 C27 6ZP doub 6 n y C02 C03 6ZP sing 7 n n C22 C27 6ZP sing 8 n y C22 N21 6ZP sing 9 n n O11 C10 6ZP doub 10 n n C03 C04 6ZP doub 11 n y C03 C08 6ZP sing 12 n y C04 C05 6ZP sing 13 n y C10 N21 6ZP sing 14 n n C10 C09 6ZP sing 15 n n N21 C20 6ZP sing 16 n n C08 C09 6ZP sing 17 n n C08 C07 6ZP doub 18 n y C05 C06 6ZP doub 19 n y C09 C12 6ZP doub 20 n n C20 C13 6ZP doub 21 n n C13 C12 6ZP sing 22 n n C13 C14 6ZP sing 23 n n C07 C06 6ZP sing 24 n y C19 C14 6ZP doub 25 n y C19 C18 6ZP sing 26 n y C14 N15 6ZP sing 27 n y C18 C17 6ZP doub 28 n y N15 C16 6ZP doub 29 n y C17 C16 6ZP sing 30 n y C04 H1 6ZP sing 31 n n C05 H2 6ZP sing 32 n n C06 H3 6ZP sing 33 n n C07 H4 6ZP sing 34 n n C12 H5 6ZP sing 35 n n C16 H6 6ZP sing 36 n n C17 H7 6ZP sing 37 n n C18 H8 6ZP sing 38 n n C19 H9 6ZP sing 39 n n C20 H10 6ZP sing 40 n n C23 H11 6ZP sing 41 n n C24 H12 6ZP sing 42 n n C25 H13 6ZP sing 43 n n C26 H14 6ZP sing 44 n n C27 H15 6ZP sing 45 n n # _atom_sites.entry_id 5L1F _atom_sites.fract_transf_matrix[1][1] 0.0109 _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] 0.009145 _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] 0.001681 _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 E 2 NAG A 1 901 834 NAG NAG . F 3 6ZP A 1 902 903 6ZP PMP . G 2 NAG B 1 901 834 NAG NAG . H 3 6ZP B 1 902 903 6ZP PMP . I 2 NAG C 1 901 834 NAG NAG . J 3 6ZP C 1 902 903 6ZP PMP . K 2 NAG D 1 901 834 NAG NAG . L 3 6ZP D 1 902 903 6ZP PMP . # 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 N01 6ZP . . . J 3 -20.125 -14.699 -35.147 1 144.75 ? N01 6ZP 902 C 1 HETATM 2 C C02 6ZP . . . J 3 -21.03 -15.242 -35.556 1 183.37 ? C02 6ZP 902 C 1 HETATM 3 C C03 6ZP . . . J 3 -22.252 -15.974 -36.108 1 207.91 ? C03 6ZP 902 C 1 HETATM 4 C C04 6ZP . . . J 3 -22.084 -17.024 -36.997 1 215.37 ? C04 6ZP 902 C 1 HETATM 5 C C05 6ZP . . . J 3 -23.189 -17.691 -37.5 1 215.37 ? C05 6ZP 902 C 1 HETATM 6 C C06 6ZP . . . J 3 -24.463 -17.308 -37.115 1 211.17 ? C06 6ZP 902 C 1 HETATM 7 C C07 6ZP . . . J 3 -24.632 -16.258 -36.226 1 187.96 ? C07 6ZP 902 C 1 HETATM 8 C C08 6ZP . . . J 3 -23.528 -15.591 -35.722 1 204.91 ? C08 6ZP 902 C 1 HETATM 9 C C09 6ZP . . . J 3 -23.701 -14.539 -34.831 1 215.37 ? C09 6ZP 902 C 1 HETATM 10 C C10 6ZP . . . J 3 -23.272 -13.239 -35.137 1 215.37 ? C10 6ZP 902 C 1 HETATM 11 O O11 6ZP . . . J 3 -22.747 -13.049 -36.192 1 211.25 ? O11 6ZP 902 C 1 HETATM 12 C C12 6ZP . . . J 3 -24.312 -14.771 -33.609 1 215.37 ? C12 6ZP 902 C 1 HETATM 13 C C13 6ZP . . . J 3 -24.479 -13.725 -32.735 1 215.37 ? C13 6ZP 902 C 1 HETATM 14 C C14 6ZP . . . J 3 -25.088 -13.939 -31.507 1 215.37 ? C14 6ZP 902 C 1 HETATM 15 N N15 6ZP . . . J 3 -26.163 -14.704 -31.439 1 215.37 ? N15 6ZP 902 C 1 HETATM 16 C C16 6ZP . . . J 3 -26.778 -14.937 -30.292 1 202.64 ? C16 6ZP 902 C 1 HETATM 17 C C17 6ZP . . . J 3 -26.3 -14.374 -29.119 1 166.6 ? C17 6ZP 902 C 1 HETATM 18 C C18 6ZP . . . J 3 -25.176 -13.566 -29.15 1 155.96 ? C18 6ZP 902 C 1 HETATM 19 C C19 6ZP . . . J 3 -24.559 -13.346 -30.372 1 203.48 ? C19 6ZP 902 C 1 HETATM 20 C C20 6ZP . . . J 3 -24.043 -12.466 -33.076 1 215.37 ? C20 6ZP 902 C 1 HETATM 21 N N21 6ZP . . . J 3 -23.46 -12.248 -34.243 1 215.37 ? N21 6ZP 902 C 1 HETATM 22 C C22 6ZP . . . J 3 -23.073 -10.997 -34.482 1 215.37 ? C22 6ZP 902 C 1 HETATM 23 C C23 6ZP . . . J 3 -21.724 -10.699 -34.592 1 215.37 ? C23 6ZP 902 C 1 HETATM 24 C C24 6ZP . . . J 3 -21.321 -9.397 -34.841 1 215.37 ? C24 6ZP 902 C 1 HETATM 25 C C25 6ZP . . . J 3 -22.265 -8.393 -34.979 1 212.93 ? C25 6ZP 902 C 1 HETATM 26 C C26 6ZP . . . J 3 -23.614 -8.691 -34.869 1 215.13 ? C26 6ZP 902 C 1 HETATM 27 C C27 6ZP . . . J 3 -24.018 -9.993 -34.621 1 215.37 ? C27 6ZP 902 C 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 17 _model_server_stats.element_count 27 #