data_3GCA # _model_server_result.job_id HkvVNKqKlKENwhIjUQlxGA _model_server_result.datetime_utc '2024-11-29 06:46:01' _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 3gca # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":34}' # _entry.id 3GCA # _exptl.entry_id 3GCA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 175.147 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-AMINO-4-OXO-4,7-DIHYDRO-3H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE _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 120 _cell.entry_id 3GCA _cell.length_a 110.5 _cell.length_b 110.5 _cell.length_c 59.31 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3GCA _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 hydrog WATSON-CRICK hydrog1 A N3 C 1 A C 1 1_555 A N1 G 20 A G 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N4 C 1 A C 1 1_555 A O6 G 20 A G 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O2 C 1 A C 1 1_555 A N2 G 20 A G 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N3 U 2 A U 2 1_555 A N1 A 19 A A 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A O4 U 2 A U 2 1_555 A N6 A 19 A A 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A N1 G 3 A G 3 1_555 A N3 C 18 A C 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N2 G 3 A G 3 1_555 A O2 C 18 A C 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A O6 G 3 A G 3 1_555 A N4 C 18 A C 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N1 G 4 A G 4 1_555 A N3 C 17 A C 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N2 G 4 A G 4 1_555 A O2 C 17 A C 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A O6 G 4 A G 4 1_555 A N4 C 17 A C 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N1 G 5 A G 5 1_555 A N3 C 16 A C 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N2 G 5 A G 5 1_555 A O2 C 16 A C 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A O6 G 5 A G 5 1_555 A N4 C 16 A C 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_10_PAIR hydrog15 A N2 G 5 A G 5 1_555 A N1 A 27 A A 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_10_PAIR hydrog16 A N3 G 5 A G 5 1_555 A N6 A 27 A A 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog HOOGSTEEN hydrog17 A N3 U 6 A U 6 1_555 A N7 A 28 A A 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog HOOGSTEEN hydrog18 A O4 U 6 A U 6 1_555 A N6 A 28 A A 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'U-A PAIR' hydrog19 A O4 U 6 A U 6 1_555 A N6 A 29 A A 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'C-G PAIR' hydrog20 A N4 C 7 A C 7 1_555 A N7 G 11 A G 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'C-C MISPAIR' hydrog21 A O2 C 7 A C 7 1_555 A N4 C 30 A C 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_10_PAIR hydrog22 A N2 G 8 A G 8 1_555 A N1 A 31 A A 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_10_PAIR hydrog23 A N3 G 8 A G 8 1_555 A N6 A 31 A A 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A N3 C 9 A C 9 1_555 A N1 G 33 A G 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A N4 C 9 A C 9 1_555 A O6 G 33 A G 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A O2 C 9 A C 9 1_555 A N2 G 33 A G 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'A-A MISPAIR' hydrog27 A N3 A 10 A A 10 1_555 A N6 A 32 A A 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_10_PAIR hydrog28 A N2 G 11 A G 11 1_555 A N1 A 14 A A 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_10_PAIR hydrog29 A N3 G 11 A G 11 1_555 A N6 A 14 A A 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'G-C PAIR' hydrog30 A N2 G 11 A G 11 1_555 A O2 C 15 A C 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 A N1 G 11 A G 11 1_555 A N3 C 30 A C 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 A N2 G 11 A G 11 1_555 A O2 C 30 A C 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog33 A O6 G 11 A G 11 1_555 A N4 C 30 A C 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'A-A MISPAIR' hydrog34 A N6 A 13 A A 13 1_555 A N3 A 31 A A 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'C-A MISPAIR' hydrog35 A O2 C 17 A C 17 1_555 A N6 A 26 A A 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'G-U MISPAIR' hydrog36 A N2 G 20 A G 20 1_555 A O4 U 21 A U 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C7 H5 N5 O' _chem_comp.formula_weight 175.147 _chem_comp.id PQ0 _chem_comp.mon_nstd_flag . _chem_comp.name 2-AMINO-4-OXO-4,7-DIHYDRO-3H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 7-DEAZA-7-CYANO-GUANINE # 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 C2 PQ0 sing 116 n y N1 C6 PQ0 sing 117 n y N1 HN1 PQ0 sing 118 n n C2 N3 PQ0 doub 119 n y C2 N2 PQ0 sing 120 n n N3 C4 PQ0 sing 121 n y C4 C5 PQ0 doub 122 n y C4 N9 PQ0 sing 123 n y C5 C6 PQ0 sing 124 n y C5 C7 PQ0 sing 125 n y C6 O6 PQ0 doub 126 n n C7 C10 PQ0 sing 127 n n C7 C8 PQ0 doub 128 n y C10 N11 PQ0 trip 129 n n C8 N9 PQ0 sing 130 n y C8 H8 PQ0 sing 131 n n N9 HN9 PQ0 sing 132 n n N2 HN21 PQ0 sing 133 n n N2 HN22 PQ0 sing 134 n n # _atom_sites.entry_id 3GCA _atom_sites.fract_transf_matrix[1][1] 0.00905 _atom_sites.fract_transf_matrix[1][2] 0.005225 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01045 _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] 0.016861 _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 B 2 PQ0 A 1 34 1 PQ0 PQ0 . C 3 SO4 A 1 102 102 SO4 SO4 . D 3 SO4 A 1 103 103 SO4 SO4 . # 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 PQ0 . . . B 2 34.15 33.96 23.035 1 66.01 ? N1 PQ0 34 A 1 HETATM 2 C C2 PQ0 . . . B 2 33.346 32.67 23.482 1 66.84 ? C2 PQ0 34 A 1 HETATM 3 N N3 PQ0 . . . B 2 33.822 32.156 24.537 1 66.39 ? N3 PQ0 34 A 1 HETATM 4 C C4 PQ0 . . . B 2 34.882 32.499 25.294 1 65.2 ? C4 PQ0 34 A 1 HETATM 5 C C5 PQ0 . . . B 2 35.627 33.577 24.98 1 65.41 ? C5 PQ0 34 A 1 HETATM 6 C C6 PQ0 . . . B 2 35.202 34.41 23.707 1 67.32 ? C6 PQ0 34 A 1 HETATM 7 O O6 PQ0 . . . B 2 35.869 35.357 23.439 1 71.44 ? O6 PQ0 34 A 1 HETATM 8 C C7 PQ0 . . . B 2 36.777 33.816 25.976 1 67.24 ? C7 PQ0 34 A 1 HETATM 9 C C10 PQ0 . . . B 2 37.782 34.901 25.911 1 69.31 ? C10 PQ0 34 A 1 HETATM 10 N N11 PQ0 . . . B 2 38.526 35.782 25.826 1 74.35 ? N11 PQ0 34 A 1 HETATM 11 C C8 PQ0 . . . B 2 36.676 32.826 26.87 1 67.17 ? C8 PQ0 34 A 1 HETATM 12 N N9 PQ0 . . . B 2 35.637 31.959 26.663 1 64.95 ? N9 PQ0 34 A 1 HETATM 13 N N2 PQ0 . . . B 2 32.254 32.268 22.738 1 67.61 ? N2 PQ0 34 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 13 #