data_1F6C # _model_server_result.job_id asU5utm27spC2N6_M1xsVQ _model_server_result.datetime_utc '2025-07-02 20:17:28' _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 1f6c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":31}' # _entry.id 1F6C # _exptl.entry_id 1F6C _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 2 _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 1F6C _cell.length_a 71.5 _cell.length_b 71.5 _cell.length_c 59.63 _cell.Z_PDB 40 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1F6C _symmetry.cell_setting tetragonal _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 ? dimeric 2 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,H 1 1,2 B,C,F,I,J 2 1 D,E,G 3 1 # 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_556 y,x,-z+1 0 1 0 1 0 0 0 0 -1 0 0 59.63 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 F N N ? 2 G 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 F C7 SPM . B SPM 32 1_555 F C7 SPM . B SPM 32 7_466 ? ? ? ? ? ? ? ? ? ? ? ? 1.571 ? hydrog WATSON-CRICK hydrog1 B N1 DG 1 B DG 7 1_555 C N3 DC 6 C DC 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N2 DG 1 B DG 7 1_555 C O2 DC 6 C DC 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B O6 DG 1 B DG 7 1_555 C N4 DC 6 C DC 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N1 DG 2 B DG 8 1_555 C N3 DC 5 C DC 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B N2 DG 2 B DG 8 1_555 C O2 DC 5 C DC 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B O6 DG 2 B DG 8 1_555 C N4 DC 5 C DC 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B N3 DC 3 B DC 9 1_555 C N1 DG 4 C DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B N4 DC 3 B DC 9 1_555 C O6 DG 4 C DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B O2 DC 3 B DC 9 1_555 C N2 DG 4 C DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 B N1 DG 4 B DG 10 1_555 C N3 DC 3 C DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 B N2 DG 4 B DG 10 1_555 C O2 DC 3 C DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 B O6 DG 4 B DG 10 1_555 C N4 DC 3 C DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 B N3 DC 5 B DC 11 1_555 C N1 DG 2 C DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 B N4 DC 5 B DC 11 1_555 C O6 DG 2 C DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 B O2 DC 5 B DC 11 1_555 C N2 DG 2 C DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 B N3 DC 6 B DC 12 1_555 C N1 DG 1 C DG 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 B N4 DC 6 B DC 12 1_555 C O6 DG 1 C DG 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 B O2 DC 6 B DC 12 1_555 C N2 DG 1 C DG 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 D N1 DG 1 D DG 19 1_555 E N3 DC 6 E DC 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 D N2 DG 1 D DG 19 1_555 E O2 DC 6 E DC 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 D O6 DG 1 D DG 19 1_555 E N4 DC 6 E DC 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 D N1 DG 2 D DG 20 1_555 E N3 DC 5 E DC 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 D N2 DG 2 D DG 20 1_555 E O2 DC 5 E DC 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 D O6 DG 2 D DG 20 1_555 E N4 DC 5 E DC 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 D N3 DC 3 D DC 21 1_555 E N1 DG 4 E DG 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 D N4 DC 3 D DC 21 1_555 E O6 DG 4 E DG 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 D O2 DC 3 D DC 21 1_555 E N2 DG 4 E DG 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 D N1 DG 4 D DG 22 1_555 E N3 DC 3 E DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 D N2 DG 4 D DG 22 1_555 E O2 DC 3 E DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 D O6 DG 4 D DG 22 1_555 E N4 DC 3 E DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 D N3 DC 5 D DC 23 1_555 E N1 DG 2 E DG 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 D N4 DC 5 D DC 23 1_555 E O6 DG 2 E DG 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog33 D O2 DC 5 D DC 23 1_555 E N2 DG 2 E DG 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog34 D N3 DC 6 D DC 24 1_555 E N1 DG 1 E DG 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog35 D N4 DC 6 D DC 24 1_555 E O6 DG 1 E DG 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog36 D O2 DC 6 D DC 24 1_555 E N2 DG 1 E DG 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog37 A N1 DG 1 A DG 1 1_555 A N3 DC 6 A DC 6 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog38 A N2 DG 1 A DG 1 1_555 A O2 DC 6 A DC 6 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog39 A O6 DG 1 A DG 1 1_555 A N4 DC 6 A DC 6 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog40 A N1 DG 2 A DG 2 1_555 A N3 DC 5 A DC 5 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog41 A N2 DG 2 A DG 2 1_555 A O2 DC 5 A DC 5 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog42 A O6 DG 2 A DG 2 1_555 A N4 DC 5 A DC 5 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog43 A N3 DC 3 A DC 3 1_555 A N1 DG 4 A DG 4 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog44 A N4 DC 3 A DC 3 1_555 A O6 DG 4 A DG 4 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog45 A O2 DC 3 A DC 3 1_555 A N2 DG 4 A DG 4 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog46 A N1 DG 4 A DG 4 1_555 A N3 DC 3 A DC 3 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog47 A N2 DG 4 A DG 4 1_555 A O2 DC 3 A DC 3 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog48 A O6 DG 4 A DG 4 1_555 A N4 DC 3 A DC 3 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog49 A N3 DC 5 A DC 5 1_555 A N1 DG 2 A DG 2 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog50 A N4 DC 5 A DC 5 1_555 A O6 DG 2 A DG 2 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog51 A O2 DC 5 A DC 5 1_555 A N2 DG 2 A DG 2 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog52 A N3 DC 6 A DC 6 1_555 A N1 DG 1 A DG 1 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog53 A N4 DC 6 A DC 6 1_555 A O6 DG 1 A DG 1 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog54 A O2 DC 6 A DC 6 1_555 A N2 DG 1 A DG 1 7_556 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 77 n n N1 HN11 SPM sing 78 n n N1 HN12 SPM sing 79 n n C2 C3 SPM sing 80 n n C2 H21 SPM sing 81 n n C2 H22 SPM sing 82 n n C3 C4 SPM sing 83 n n C3 H31 SPM sing 84 n n C3 H32 SPM sing 85 n n C4 N5 SPM sing 86 n n C4 H41 SPM sing 87 n n C4 H42 SPM sing 88 n n N5 C6 SPM sing 89 n n N5 HN5 SPM sing 90 n n C6 C7 SPM sing 91 n n C6 H61 SPM sing 92 n n C6 H62 SPM sing 93 n n C7 C8 SPM sing 94 n n C7 H71 SPM sing 95 n n C7 H72 SPM sing 96 n n C8 C9 SPM sing 97 n n C8 H81 SPM sing 98 n n C8 H82 SPM sing 99 n n C9 N10 SPM sing 100 n n C9 H91 SPM sing 101 n n C9 H92 SPM sing 102 n n N10 C11 SPM sing 103 n n N10 HN0 SPM sing 104 n n C11 C12 SPM sing 105 n n C11 H111 SPM sing 106 n n C11 H112 SPM sing 107 n n C12 C13 SPM sing 108 n n C12 H121 SPM sing 109 n n C12 H122 SPM sing 110 n n C13 N14 SPM sing 111 n n C13 H131 SPM sing 112 n n C13 H132 SPM sing 113 n n N14 HN41 SPM sing 114 n n N14 HN42 SPM sing 115 n n # _atom_sites.entry_id 1F6C _atom_sites.fract_transf_matrix[1][1] 0.013986 _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] 0.013986 _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] 0.01677 _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 F 2 SPM B 1 32 32 SPM SPM . G 2 SPM D 1 31 31 SPM SPM . H 3 HOH A 1 34 34 HOH HOH . H 3 HOH A 2 36 36 HOH HOH . H 3 HOH A 3 38 38 HOH HOH . H 3 HOH A 4 39 39 HOH HOH . I 3 HOH B 1 33 33 HOH HOH . I 3 HOH B 2 42 42 HOH HOH . I 3 HOH B 3 44 44 HOH HOH . J 3 HOH C 1 35 35 HOH HOH . J 3 HOH C 2 37 37 HOH HOH . J 3 HOH C 3 40 40 HOH HOH . J 3 HOH C 4 41 41 HOH HOH . J 3 HOH C 5 43 43 HOH HOH . J 3 HOH C 6 45 45 HOH HOH . J 3 HOH C 7 46 46 HOH HOH . J 3 HOH C 8 47 47 HOH HOH . J 3 HOH C 9 48 48 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 N N1 SPM . . . G 2 22.959 43.473 25.275 1 57.02 ? N1 SPM 31 D 1 HETATM 2 C C2 SPM . . . G 2 24.46 43.123 25.295 1 47.52 ? C2 SPM 31 D 1 HETATM 3 C C3 SPM . . . G 2 24.54 41.636 25.134 1 37.95 ? C3 SPM 31 D 1 HETATM 4 C C4 SPM . . . G 2 25.973 41.096 25.131 1 42.5 ? C4 SPM 31 D 1 HETATM 5 N N5 SPM . . . G 2 26.981 42.16 25.439 1 39.19 ? N5 SPM 31 D 1 HETATM 6 C C6 SPM . . . G 2 28.432 41.609 25.168 1 40 ? C6 SPM 31 D 1 HETATM 7 C C7 SPM . . . G 2 28.646 40.562 26.375 1 34.99 ? C7 SPM 31 D 1 HETATM 8 C C8 SPM . . . G 2 29.46 39.582 25.988 1 27.35 ? C8 SPM 31 D 1 HETATM 9 C C9 SPM . . . G 2 29.923 39.085 27.494 1 27.88 ? C9 SPM 31 D 1 HETATM 10 N N10 SPM . . . G 2 30.773 37.818 27.071 1 31.74 ? N10 SPM 31 D 1 HETATM 11 C C11 SPM . . . G 2 31.425 37.027 28.275 1 28 ? C11 SPM 31 D 1 HETATM 12 C C12 SPM . . . G 2 32.241 35.765 27.601 1 34.1 ? C12 SPM 31 D 1 HETATM 13 C C13 SPM . . . G 2 32.233 34.693 28.69 1 35.51 ? C13 SPM 31 D 1 HETATM 14 N N14 SPM . . . G 2 33.569 33.968 28.606 1 33.89 ? N14 SPM 31 D 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 330 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #