data_1VTF # _model_server_result.job_id SYuhwB8vAdzJhOarPXD7Zg _model_server_result.datetime_utc '2025-03-05 02:03:06' _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 1vtf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":14}' # _entry.id 1VTF # _exptl.entry_id 1VTF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 209.247 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description PROFLAVIN _entity.pdbx_number_of_molecules 6 _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 1VTF _cell.length_a 17.9 _cell.length_b 17.9 _cell.length_c 44.5 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VTF _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _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 D N N ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H 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 covale ? covale1 A O3' CBR 1 A CBR 1 1_555 A P DG 2 A DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.531 ? covale ? covale2 A O3' DG 2 A DG 2 1_555 A P CBR 3 A CBR 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.645 ? covale ? covale3 A O3' CBR 3 A CBR 3 1_555 A P DG 4 A DG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.602 ? covale ? covale4 B O3' CBR 1 B CBR 5 1_555 B P DG 2 B DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.721 ? covale ? covale5 B O3' DG 2 B DG 6 1_555 B P CBR 3 B CBR 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.655 ? covale ? covale6 B O3' CBR 3 B CBR 7 1_555 B P DG 4 B DG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.696 ? hydrog WATSON-CRICK hydrog1 A N3 CBR 1 A CBR 1 1_555 B N1 DG 4 B DG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N4 CBR 1 A CBR 1 1_555 B O6 DG 4 B DG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O2 CBR 1 A CBR 1 1_555 B N2 DG 4 B DG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DG 2 A DG 2 1_555 B N3 CBR 3 B CBR 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N2 DG 2 A DG 2 1_555 B O2 CBR 3 B CBR 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O6 DG 2 A DG 2 1_555 B N4 CBR 3 B CBR 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N3 CBR 3 A CBR 3 1_555 B N1 DG 2 B DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N4 CBR 3 A CBR 3 1_555 B O6 DG 2 B DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A O2 CBR 3 A CBR 3 1_555 B N2 DG 2 B DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N1 DG 4 A DG 4 1_555 B N3 CBR 1 B CBR 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N2 DG 4 A DG 4 1_555 B O2 CBR 1 B CBR 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O6 DG 4 A DG 4 1_555 B N4 CBR 1 B CBR 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C13 H11 N3' _chem_comp.formula_weight 209.247 _chem_comp.id PRL _chem_comp.mon_nstd_flag . _chem_comp.name PROFLAVIN _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 C1 C2 PRL doub 77 n y C1 C13 PRL sing 78 n y C1 H1 PRL sing 79 n n C2 C3 PRL sing 80 n y C2 H2 PRL sing 81 n n C3 C4 PRL doub 82 n y C3 N15 PRL sing 83 n n C4 C11 PRL sing 84 n y C4 H4 PRL sing 85 n n C5 C6 PRL doub 86 n y C5 C14 PRL sing 87 n y C5 H5 PRL sing 88 n n C6 C7 PRL sing 89 n y C6 N16 PRL sing 90 n n C7 C8 PRL doub 91 n y C7 H7 PRL sing 92 n n C8 C12 PRL sing 93 n y C8 H8 PRL sing 94 n n C9 C12 PRL doub 95 n y C9 C13 PRL sing 96 n y C9 H9 PRL sing 97 n n N10 C11 PRL sing 98 n y N10 C14 PRL doub 99 n y C11 C13 PRL doub 100 n y C12 C14 PRL sing 101 n y N15 HNF1 PRL sing 102 n n N15 HNF2 PRL sing 103 n n N16 HNG1 PRL sing 104 n n N16 HNG2 PRL sing 105 n n # _atom_sites.entry_id 1VTF _atom_sites.fract_transf_matrix[1][1] 0.055866 _atom_sites.fract_transf_matrix[1][2] 0.032254 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.064508 _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] 0.022472 _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 PRL A 1 12 12 PRL PRL . D 2 PRL A 1 13 13 PRL PRL . E 2 PRL B 1 9 9 PRL PRL . F 2 PRL B 1 10 10 PRL PRL . G 2 PRL B 1 11 11 PRL PRL . H 2 PRL B 1 14 14 PRL PRL . I 3 HOH B 1 15 15 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 PRL . . . H 2 -7.94 4.119 12.914 1 15.05 ? C1 PRL 14 B 1 HETATM 2 C C2 PRL . . . H 2 -9.122 3.565 12.958 1 15.79 ? C2 PRL 14 B 1 HETATM 3 C C3 PRL . . . H 2 -9.228 2.271 13.007 1 15.9 ? C3 PRL 14 B 1 HETATM 4 C C4 PRL . . . H 2 -8.151 1.536 13.016 1 16.62 ? C4 PRL 14 B 1 HETATM 5 C C5 PRL . . . H 2 -3.729 1.088 12.918 1 17.39 ? C5 PRL 14 B 1 HETATM 6 C C6 PRL . . . H 2 -2.541 1.611 12.883 1 18.24 ? C6 PRL 14 B 1 HETATM 7 C C7 PRL . . . H 2 -2.386 2.902 12.834 1 16.05 ? C7 PRL 14 B 1 HETATM 8 C C8 PRL . . . H 2 -3.433 3.671 12.838 1 17.49 ? C8 PRL 14 B 1 HETATM 9 C C9 PRL . . . H 2 -5.686 3.92 12.869 1 15.2 ? C9 PRL 14 B 1 HETATM 10 N N10 PRL . . . H 2 -5.928 1.332 12.958 1 13.55 ? N10 PRL 14 B 1 HETATM 11 C C11 PRL . . . H 2 -6.981 2.093 12.963 1 16.84 ? C11 PRL 14 B 1 HETATM 12 C C12 PRL . . . H 2 -4.627 3.162 12.878 1 18.7 ? C12 PRL 14 B 1 HETATM 13 C C13 PRL . . . H 2 -6.869 3.384 12.905 1 13.17 ? C13 PRL 14 B 1 HETATM 14 C C14 PRL . . . H 2 -4.763 1.863 12.918 1 16.03 ? C14 PRL 14 B 1 HETATM 15 N N15 PRL . . . H 2 -10.386 1.688 13.096 1 13.51 ? N15 PRL 14 B 1 HETATM 16 N N16 PRL . . . H 2 -1.535 0.798 12.896 1 18.63 ? N16 PRL 14 B 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 16 #