data_1DNS # _model_server_result.job_id azF2lgnVqA1RGDLhtZjYzw _model_server_result.datetime_utc '2024-11-23 11:04:11' _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 1dns # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":9}' # _entry.id 1DNS # _exptl.entry_id 1DNS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 202.34 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description SPERMINE _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 1DNS _cell.length_a 42.43 _cell.length_b 42.43 _cell.length_c 24.75 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DNS _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 2' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 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 N1 DG 1 A DG 1 1_555 A N3 DC 8 A DC 8 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 DG 1 A DG 1 1_555 A O2 DC 8 A DC 8 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 DG 1 A DG 1 1_555 A N4 DC 8 A DC 8 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N3 DT 2 A DT 2 1_555 A N1 DA 7 A DA 7 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A O4 DT 2 A DT 2 1_555 A N6 DA 7 A DA 7 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A N1 DG 3 A DG 3 1_555 A N3 DC 6 A DC 6 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N2 DG 3 A DG 3 1_555 A O2 DC 6 A DC 6 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A O6 DG 3 A DG 3 1_555 A N4 DC 6 A DC 6 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N3 DT 4 A DT 4 1_555 A N1 DA 5 A DA 5 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A O4 DT 4 A DT 4 1_555 A N6 DA 5 A DA 5 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N1 DA 5 A DA 5 1_555 A N3 DT 4 A DT 4 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N6 DA 5 A DA 5 1_555 A O4 DT 4 A DT 4 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N3 DC 6 A DC 6 1_555 A N1 DG 3 A DG 3 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N4 DC 6 A DC 6 1_555 A O6 DG 3 A DG 3 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A O2 DC 6 A DC 6 1_555 A N2 DG 3 A DG 3 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N1 DA 7 A DA 7 1_555 A N3 DT 2 A DT 2 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N6 DA 7 A DA 7 1_555 A O4 DT 2 A DT 2 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N3 DC 8 A DC 8 1_555 A N1 DG 1 A DG 1 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A N4 DC 8 A DC 8 1_555 A O6 DG 1 A DG 1 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A O2 DC 8 A DC 8 1_555 A N2 DG 1 A DG 1 7_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C10 H26 N4' _chem_comp.formula_weight 202.34 _chem_comp.id SPM _chem_comp.mon_nstd_flag . _chem_comp.name SPERMINE _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 C2 SPM sing 150 n n N1 HN11 SPM sing 151 n n N1 HN12 SPM sing 152 n n C2 C3 SPM sing 153 n n C2 H21 SPM sing 154 n n C2 H22 SPM sing 155 n n C3 C4 SPM sing 156 n n C3 H31 SPM sing 157 n n C3 H32 SPM sing 158 n n C4 N5 SPM sing 159 n n C4 H41 SPM sing 160 n n C4 H42 SPM sing 161 n n N5 C6 SPM sing 162 n n N5 HN5 SPM sing 163 n n C6 C7 SPM sing 164 n n C6 H61 SPM sing 165 n n C6 H62 SPM sing 166 n n C7 C8 SPM sing 167 n n C7 H71 SPM sing 168 n n C7 H72 SPM sing 169 n n C8 C9 SPM sing 170 n n C8 H81 SPM sing 171 n n C8 H82 SPM sing 172 n n C9 N10 SPM sing 173 n n C9 H91 SPM sing 174 n n C9 H92 SPM sing 175 n n N10 C11 SPM sing 176 n n N10 HN0 SPM sing 177 n n C11 C12 SPM sing 178 n n C11 H111 SPM sing 179 n n C11 H112 SPM sing 180 n n C12 C13 SPM sing 181 n n C12 H121 SPM sing 182 n n C12 H122 SPM sing 183 n n C13 N14 SPM sing 184 n n C13 H131 SPM sing 185 n n C13 H132 SPM sing 186 n n N14 HN41 SPM sing 187 n n N14 HN42 SPM sing 188 n n # _atom_sites.entry_id 1DNS _atom_sites.fract_transf_matrix[1][1] 0.023568 _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] 0.023568 _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] 0.040404 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id SPM _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 9 _pdbx_nonpoly_scheme.auth_seq_num 9 _pdbx_nonpoly_scheme.pdb_mon_id SPM _pdbx_nonpoly_scheme.auth_mon_id SPM _pdbx_nonpoly_scheme.pdb_ins_code . # 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 SPM . . . B 2 31.385 25.954 -4.579 1 46.25 ? N1 SPM 9 A 1 HETATM 2 C C2 SPM . . . B 2 31.835 26.366 -3.166 1 40.05 ? C2 SPM 9 A 1 HETATM 3 C C3 SPM . . . B 2 30.698 26.455 -2.163 1 42.31 ? C3 SPM 9 A 1 HETATM 4 C C4 SPM . . . B 2 30.813 25.454 -0.983 1 46.05 ? C4 SPM 9 A 1 HETATM 5 N N5 SPM . . . B 2 29.951 26.044 0.173 1 50.98 ? N5 SPM 9 A 1 HETATM 6 C C6 SPM . . . B 2 30.261 27.567 0.235 1 45.32 ? C6 SPM 9 A 1 HETATM 7 C C7 SPM . . . B 2 29.073 28.428 0.626 1 44.38 ? C7 SPM 9 A 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 376 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 7 #