data_2PLB # _model_server_result.job_id ILrwq8QZi36vg3Rfn7HOKA _model_server_result.datetime_utc '2024-10-19 16:44:58' _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 2plb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":20}' # _entry.id 2PLB # _exptl.entry_id 2PLB _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 120 _cell.entry_id 2PLB _cell.length_a 42.83 _cell.length_b 42.83 _cell.length_c 40.3 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2PLB _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _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 _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 C _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 B N3 DC 8 B DC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 DG 1 A DG 1 1_555 B O2 DC 8 B DC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 DG 1 A DG 1 1_555 B N4 DC 8 B DC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DG 2 A DG 2 1_555 B N3 DC 7 B DC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N2 DG 2 A DG 2 1_555 B O2 DC 7 B DC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O6 DG 2 A DG 2 1_555 B N4 DC 7 B DC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N3 DT 3 A DT 3 1_555 B N1 DA 6 B DA 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A O4 DT 3 A DT 3 1_555 B N6 DA 6 B DA 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N1 DA 4 A DA 4 1_555 B N3 DT 5 B DT 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N6 DA 4 A DA 4 1_555 B O4 DT 5 B DT 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N3 DT 5 A DT 5 1_555 B N1 DA 4 B DA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O4 DT 5 A DT 5 1_555 B N6 DA 4 B DA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 DA 6 A DA 6 1_555 B N3 DT 3 B DT 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N6 DA 6 A DA 6 1_555 B O4 DT 3 B DT 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N3 DC 7 A DC 7 1_555 B N1 DG 2 B DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N4 DC 7 A DC 7 1_555 B O6 DG 2 B DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A O2 DC 7 A DC 7 1_555 B N2 DG 2 B DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N3 DC 8 A DC 8 1_555 B N1 DG 1 B DG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A N4 DC 8 A DC 8 1_555 B O6 DG 1 B DG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A O2 DC 8 A DC 8 1_555 B N2 DG 1 B DG 1 1_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 152 n n N1 HN11 SPM sing 153 n n N1 HN12 SPM sing 154 n n C2 C3 SPM sing 155 n n C2 H21 SPM sing 156 n n C2 H22 SPM sing 157 n n C3 C4 SPM sing 158 n n C3 H31 SPM sing 159 n n C3 H32 SPM sing 160 n n C4 N5 SPM sing 161 n n C4 H41 SPM sing 162 n n C4 H42 SPM sing 163 n n N5 C6 SPM sing 164 n n N5 HN5 SPM sing 165 n n C6 C7 SPM sing 166 n n C6 H61 SPM sing 167 n n C6 H62 SPM sing 168 n n C7 C8 SPM sing 169 n n C7 H71 SPM sing 170 n n C7 H72 SPM sing 171 n n C8 C9 SPM sing 172 n n C8 H81 SPM sing 173 n n C8 H82 SPM sing 174 n n C9 N10 SPM sing 175 n n C9 H91 SPM sing 176 n n C9 H92 SPM sing 177 n n N10 C11 SPM sing 178 n n N10 HN0 SPM sing 179 n n C11 C12 SPM sing 180 n n C11 H111 SPM sing 181 n n C11 H112 SPM sing 182 n n C12 C13 SPM sing 183 n n C12 H121 SPM sing 184 n n C12 H122 SPM sing 185 n n C13 N14 SPM sing 186 n n C13 H131 SPM sing 187 n n C13 H132 SPM sing 188 n n N14 HN41 SPM sing 189 n n N14 HN42 SPM sing 190 n n # _atom_sites.entry_id 2PLB _atom_sites.fract_transf_matrix[1][1] 0.023348 _atom_sites.fract_transf_matrix[1][2] 0.01348 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.02696 _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] 0.024814 _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 SPM B 1 20 20 SPM SPM . D 3 HOH A 1 102 102 HOH HOH . D 3 HOH A 2 103 103 HOH HOH . D 3 HOH A 3 104 104 HOH HOH . D 3 HOH A 4 105 105 HOH HOH . D 3 HOH A 5 107 107 HOH HOH . D 3 HOH A 6 111 111 HOH HOH . D 3 HOH A 7 112 112 HOH HOH . D 3 HOH A 8 113 113 HOH HOH . D 3 HOH A 9 114 114 HOH HOH . D 3 HOH A 10 115 115 HOH HOH . D 3 HOH A 11 116 116 HOH HOH . D 3 HOH A 12 117 117 HOH HOH . D 3 HOH A 13 118 118 HOH HOH . D 3 HOH A 14 122 122 HOH HOH . D 3 HOH A 15 123 123 HOH HOH . D 3 HOH A 16 124 124 HOH HOH . D 3 HOH A 17 125 125 HOH HOH . D 3 HOH A 18 126 126 HOH HOH . D 3 HOH A 19 129 129 HOH HOH . D 3 HOH A 20 136 136 HOH HOH . D 3 HOH A 21 139 139 HOH HOH . D 3 HOH A 22 140 140 HOH HOH . D 3 HOH A 23 143 143 HOH HOH . D 3 HOH A 24 144 144 HOH HOH . D 3 HOH A 25 145 145 HOH HOH . D 3 HOH A 26 148 148 HOH HOH . D 3 HOH A 27 150 150 HOH HOH . D 3 HOH A 28 151 151 HOH HOH . D 3 HOH A 29 152 152 HOH HOH . D 3 HOH A 30 153 153 HOH HOH . D 3 HOH A 31 158 158 HOH HOH . D 3 HOH A 32 159 159 HOH HOH . D 3 HOH A 33 160 160 HOH HOH . D 3 HOH A 34 161 161 HOH HOH . D 3 HOH A 35 162 162 HOH HOH . D 3 HOH A 36 163 163 HOH HOH . D 3 HOH A 37 165 165 HOH HOH . D 3 HOH A 38 167 167 HOH HOH . D 3 HOH A 39 169 169 HOH HOH . D 3 HOH A 40 170 170 HOH HOH . D 3 HOH A 41 171 171 HOH HOH . D 3 HOH A 42 172 172 HOH HOH . D 3 HOH A 43 176 176 HOH HOH . E 3 HOH B 1 101 101 HOH HOH . E 3 HOH B 2 106 106 HOH HOH . E 3 HOH B 3 108 108 HOH HOH . E 3 HOH B 4 109 109 HOH HOH . E 3 HOH B 5 110 110 HOH HOH . E 3 HOH B 6 119 119 HOH HOH . E 3 HOH B 7 120 120 HOH HOH . E 3 HOH B 8 121 121 HOH HOH . E 3 HOH B 9 127 127 HOH HOH . E 3 HOH B 10 128 128 HOH HOH . E 3 HOH B 11 130 130 HOH HOH . E 3 HOH B 12 131 131 HOH HOH . E 3 HOH B 13 132 132 HOH HOH . E 3 HOH B 14 133 133 HOH HOH . E 3 HOH B 15 134 134 HOH HOH . E 3 HOH B 16 135 135 HOH HOH . E 3 HOH B 17 137 137 HOH HOH . E 3 HOH B 18 138 138 HOH HOH . E 3 HOH B 19 141 141 HOH HOH . E 3 HOH B 20 142 142 HOH HOH . E 3 HOH B 21 146 146 HOH HOH . E 3 HOH B 22 147 147 HOH HOH . E 3 HOH B 23 149 149 HOH HOH . E 3 HOH B 24 154 154 HOH HOH . E 3 HOH B 25 155 155 HOH HOH . E 3 HOH B 26 156 156 HOH HOH . E 3 HOH B 27 157 157 HOH HOH . E 3 HOH B 28 164 164 HOH HOH . E 3 HOH B 29 166 166 HOH HOH . E 3 HOH B 30 168 168 HOH HOH . E 3 HOH B 31 173 173 HOH HOH . E 3 HOH B 32 174 174 HOH HOH . E 3 HOH B 33 175 175 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 . A . C 2 29.932 23.457 3.212 0.5 22.76 ? N1 SPM 20 B 1 HETATM 2 N N1 SPM . B . C 2 28.937 25.668 1.212 0.5 22.76 ? N1 SPM 20 B 1 HETATM 3 C C2 SPM . A . C 2 29.004 23.89 2.181 0.5 49.65 ? C2 SPM 20 B 1 HETATM 4 C C2 SPM . B . C 2 29.254 26.575 2.374 0.5 49.65 ? C2 SPM 20 B 1 HETATM 5 C C3 SPM . A . C 2 27.736 23.082 2.304 0.5 49.68 ? C3 SPM 20 B 1 HETATM 6 C C3 SPM . B . C 2 28.046 27.392 2.734 0.5 49.68 ? C3 SPM 20 B 1 HETATM 7 C C4 SPM . A . C 2 26.457 23.884 2.217 0.5 54.14 ? C4 SPM 20 B 1 HETATM 8 C C4 SPM . B . C 2 27.535 28.801 2.478 0.5 54.14 ? C4 SPM 20 B 1 HETATM 9 N N5 SPM . A . C 2 25.232 23.046 1.927 0.5 57.9 ? N5 SPM 20 B 1 HETATM 10 N N5 SPM . B . C 2 27.795 30.135 1.983 0.5 57.9 ? N5 SPM 20 B 1 HETATM 11 C C6 SPM . A . C 2 24.225 22.994 3.062 0.5 57.41 ? C6 SPM 20 B 1 HETATM 12 C C6 SPM . B . C 2 28 29.595 0.558 0.5 57.41 ? C6 SPM 20 B 1 HETATM 13 C C7 SPM . A . C 2 22.832 23.387 2.62 0.5 57.57 ? C7 SPM 20 B 1 HETATM 14 C C7 SPM . B . C 2 26.899 28.575 0.08 0.5 57.57 ? C7 SPM 20 B 1 HETATM 15 C C8 SPM . A . C 2 22.822 23.999 1.236 0.5 55.44 ? C8 SPM 20 B 1 HETATM 16 C C8 SPM . B . C 2 25.961 29.803 -0.018 0.5 55.44 ? C8 SPM 20 B 1 HETATM 17 C C9 SPM . A . C 2 22.884 25.508 1.242 0.5 54.48 ? C9 SPM 20 B 1 HETATM 18 C C9 SPM . B . C 2 24.593 30.074 -0.659 0.5 54.48 ? C9 SPM 20 B 1 HETATM 19 N N10 SPM . A . C 2 24.028 26.115 2.015 0.5 55.84 ? N10 SPM 20 B 1 HETATM 20 N N10 SPM . B . C 2 23.586 29.847 0.358 0.5 55.84 ? N10 SPM 20 B 1 HETATM 21 C C11 SPM . A . C 2 23.928 27.596 2.278 0.5 54.91 ? C11 SPM 20 B 1 HETATM 22 C C11 SPM . B . C 2 24.163 29.55 1.774 0.5 54.91 ? C11 SPM 20 B 1 HETATM 23 C C12 SPM . A . C 2 23.707 28.49 1.093 0.5 57.84 ? C12 SPM 20 B 1 HETATM 24 C C12 SPM . B . C 2 22.768 29.545 2.49 0.5 57.84 ? C12 SPM 20 B 1 HETATM 25 C C13 SPM . A . C 2 24.946 29.161 0.534 0.5 61.22 ? C13 SPM 20 B 1 HETATM 26 C C13 SPM . B . C 2 22.287 30.662 3.042 0.5 61.22 ? C13 SPM 20 B 1 HETATM 27 N N14 SPM . A . C 2 24.542 29.975 -0.606 0.5 45.96 ? N14 SPM 20 B 1 HETATM 28 N N14 SPM . B . C 2 22.723 31.774 2.585 0.5 45.96 ? N14 SPM 20 B 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 28 #