data_2O3X # _model_server_result.job_id wGOirThlv31JUnKmwXv1qg _model_server_result.datetime_utc '2024-11-22 20:15:39' _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 2o3x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1}' # _entry.id 2O3X # _exptl.entry_id 2O3X _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 454.473 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1R,2R,3S,4R,6S)-4,6-DIAMINO-2-[(5-AMINO-5-DEOXY-BETA-D-RIBOFURANOSYL)OXY]-3-HYDROXYCYCLOHEXYL 2-AMINO-2-DEOXY-ALPHA-D-GLUCOPYRANOSIDE' _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 2O3X _cell.length_a 33.14 _cell.length_b 46.83 _cell.length_c 85.72 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2O3X _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 G 3 A G 3 1_555 B N3 C 23 B C 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 G 3 A G 3 1_555 B O2 C 23 B C 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 G 3 A G 3 1_555 B N4 C 23 B C 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N3 C 4 A C 4 1_555 B N1 G 22 B G 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N4 C 4 A C 4 1_555 B O6 G 22 B G 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O2 C 4 A C 4 1_555 B N2 G 22 B G 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N1 G 5 A G 5 1_555 B N3 C 21 B C 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N2 G 5 A G 5 1_555 B O2 C 21 B C 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A O6 G 5 A G 5 1_555 B N4 C 21 B C 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N3 C 7 A C 7 1_555 B N1 G 19 B G 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N4 C 7 A C 7 1_555 B O6 G 19 B G 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O2 C 7 A C 7 1_555 B N2 G 19 B G 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N3 C 9 A C 9 1_555 B N1 G 16 B G 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N4 C 9 A C 9 1_555 B O6 G 16 B G 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A O2 C 9 A C 9 1_555 B N2 G 16 B G 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N1 A 10 A A 10 1_555 B N3 U 15 B U 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N6 A 10 A A 10 1_555 B O4 U 15 B U 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N3 C 11 A C 11 1_555 B N1 G 14 B G 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A N4 C 11 A C 11 1_555 B O6 G 14 B G 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A O2 C 11 A C 11 1_555 B N2 G 14 B G 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A N3 C 12 A C 12 1_555 B N1 G 13 B G 36 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A N4 C 12 A C 12 1_555 B O6 G 13 B G 36 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A O2 C 12 A C 12 1_555 B N2 G 13 B G 36 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A N1 G 13 A G 13 1_555 B N3 C 12 B C 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A N2 G 13 A G 13 1_555 B O2 C 12 B C 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A O6 G 13 A G 13 1_555 B N4 C 12 B C 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A N1 G 14 A G 14 1_555 B N3 C 11 B C 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 A N2 G 14 A G 14 1_555 B O2 C 11 B C 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 A O6 G 14 A G 14 1_555 B N4 C 11 B C 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 A N3 U 15 A U 15 1_555 B N1 A 10 B A 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 A O4 U 15 A U 15 1_555 B N6 A 10 B A 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 A N1 G 16 A G 16 1_555 B N3 C 9 B C 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog33 A N2 G 16 A G 16 1_555 B O2 C 9 B C 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog34 A O6 G 16 A G 16 1_555 B N4 C 9 B C 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog35 A N1 G 19 A G 19 1_555 B N3 C 7 B C 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog36 A N2 G 19 A G 19 1_555 B O2 C 7 B C 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog37 A O6 G 19 A G 19 1_555 B N4 C 7 B C 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_16_PAIR hydrog38 A N3 U 20 A U 20 1_555 B O2 U 6 B U 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_16_PAIR hydrog39 A O4 U 20 A U 20 1_555 B N3 U 6 B U 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog40 A N3 C 21 A C 21 1_555 B N1 G 5 B G 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog41 A N4 C 21 A C 21 1_555 B O6 G 5 B G 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog42 A O2 C 21 A C 21 1_555 B N2 G 5 B G 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog43 A N1 G 22 A G 22 1_555 B N3 C 4 B C 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog44 A N2 G 22 A G 22 1_555 B O2 C 4 B C 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog45 A O6 G 22 A G 22 1_555 B N4 C 4 B C 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog46 A N3 C 23 A C 23 1_555 B N1 G 3 B G 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog47 A N4 C 23 A C 23 1_555 B O6 G 3 B G 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog48 A O2 C 23 A C 23 1_555 B N2 G 3 B G 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C17 H34 N4 O10' _chem_comp.formula_weight 454.473 _chem_comp.id N30 _chem_comp.mon_nstd_flag . _chem_comp.name '(1R,2R,3S,4R,6S)-4,6-DIAMINO-2-[(5-AMINO-5-DEOXY-BETA-D-RIBOFURANOSYL)OXY]-3-HYDROXYCYCLOHEXYL 2-AMINO-2-DEOXY-ALPHA-D-GLUCOPYRANOSIDE' _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 C11 C21 N30 sing 116 n n C11 O51 N30 sing 117 n n C11 O11 N30 sing 118 n n C11 H11 N30 sing 119 n n O11 C42 N30 sing 120 n n C21 C31 N30 sing 121 n n C21 N21 N30 sing 122 n n C21 H21 N30 sing 123 n n N21 H211 N30 sing 124 n n N21 H212 N30 sing 125 n n C31 O31 N30 sing 126 n n C31 C41 N30 sing 127 n n C31 H31 N30 sing 128 n n O31 HO31 N30 sing 129 n n C41 O41 N30 sing 130 n n C41 C51 N30 sing 131 n n C41 H41 N30 sing 132 n n O41 HO41 N30 sing 133 n n C51 C61 N30 sing 134 n n C51 O51 N30 sing 135 n n C51 H51 N30 sing 136 n n C61 O61 N30 sing 137 n n C61 H611 N30 sing 138 n n C61 H612 N30 sing 139 n n O61 HO61 N30 sing 140 n n C12 C22 N30 sing 141 n n C12 N12 N30 sing 142 n n C12 C62 N30 sing 143 n n C12 H12 N30 sing 144 n n N12 H121 N30 sing 145 n n N12 H122 N30 sing 146 n n C22 C32 N30 sing 147 n n C22 H221 N30 sing 148 n n C22 H222 N30 sing 149 n n C32 N32 N30 sing 150 n n C32 C42 N30 sing 151 n n C32 H32 N30 sing 152 n n N32 H321 N30 sing 153 n n N32 H322 N30 sing 154 n n C42 C52 N30 sing 155 n n C42 H42 N30 sing 156 n n C52 C62 N30 sing 157 n n C52 O52 N30 sing 158 n n C52 H52 N30 sing 159 n n O52 C13 N30 sing 160 n n C62 O62 N30 sing 161 n n C62 H62 N30 sing 162 n n O62 HO62 N30 sing 163 n n C13 O43 N30 sing 164 n n C13 C23 N30 sing 165 n n C13 H13 N30 sing 166 n n C23 C33 N30 sing 167 n n C23 O23 N30 sing 168 n n C23 H23 N30 sing 169 n n O23 HO23 N30 sing 170 n n C33 C43 N30 sing 171 n n C33 O33 N30 sing 172 n n C33 H33 N30 sing 173 n n O33 HO33 N30 sing 174 n n C43 C53 N30 sing 175 n n C43 O43 N30 sing 176 n n C43 H43 N30 sing 177 n n C53 N53 N30 sing 178 n n C53 H531 N30 sing 179 n n C53 H532 N30 sing 180 n n N53 HN1 N30 sing 181 n n N53 HN2 N30 sing 182 n n # _atom_sites.entry_id 2O3X _atom_sites.fract_transf_matrix[1][1] 0.030175 _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] 0.021354 _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] 0.011666 _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 C _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id N30 _pdbx_nonpoly_scheme.pdb_strand_id B _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 1 _pdbx_nonpoly_scheme.auth_seq_num 1 _pdbx_nonpoly_scheme.pdb_mon_id N30 _pdbx_nonpoly_scheme.auth_mon_id N30 _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 C C11 N30 . . . C 2 20.366 9.324 5.665 1 60.01 ? C11 N30 1 B 1 HETATM 2 O O11 N30 . . . C 2 21.244 8.252 5.297 1 58.82 ? O11 N30 1 B 1 HETATM 3 C C21 N30 . . . C 2 18.946 9.016 5.093 1 58.52 ? C21 N30 1 B 1 HETATM 4 N N21 N30 . . . C 2 18.511 7.628 5.393 1 57.57 ? N21 N30 1 B 1 HETATM 5 C C31 N30 . . . C 2 18.894 9.212 3.566 1 55.3 ? C31 N30 1 B 1 HETATM 6 O O31 N30 . . . C 2 17.596 8.979 3.081 1 53.21 ? O31 N30 1 B 1 HETATM 7 C C41 N30 . . . C 2 19.35 10.618 3.214 1 55.18 ? C41 N30 1 B 1 HETATM 8 O O41 N30 . . . C 2 19.282 10.805 1.837 1 54.95 ? O41 N30 1 B 1 HETATM 9 C C51 N30 . . . C 2 20.804 10.845 3.716 1 57.31 ? C51 N30 1 B 1 HETATM 10 O O51 N30 . . . C 2 20.864 10.633 5.143 1 59.43 ? O51 N30 1 B 1 HETATM 11 C C61 N30 . . . C 2 21.31 12.236 3.412 1 57.78 ? C61 N30 1 B 1 HETATM 12 O O61 N30 . . . C 2 22.69 12.276 3.368 1 57.89 ? O61 N30 1 B 1 HETATM 13 C C12 N30 . . . C 2 24.607 6.284 7.062 1 55.98 ? C12 N30 1 B 1 HETATM 14 N N12 N30 . . . C 2 25.832 5.987 7.837 1 59.41 ? N12 N30 1 B 1 HETATM 15 C C22 N30 . . . C 2 24.881 7.282 5.888 1 55.31 ? C22 N30 1 B 1 HETATM 16 C C32 N30 . . . C 2 23.533 7.509 5.111 1 58.25 ? C32 N30 1 B 1 HETATM 17 N N32 N30 . . . C 2 23.714 8.44 3.957 1 58.49 ? N32 N30 1 B 1 HETATM 18 C C42 N30 . . . C 2 22.451 8.102 6.058 1 59.12 ? C42 N30 1 B 1 HETATM 19 C C52 N30 . . . C 2 22.182 7.228 7.299 1 60.24 ? C52 N30 1 B 1 HETATM 20 O O52 N30 . . . C 2 21.341 8.055 8.178 1 62.48 ? O52 N30 1 B 1 HETATM 21 C C62 N30 . . . C 2 23.552 6.861 8.023 1 58.08 ? C62 N30 1 B 1 HETATM 22 O O62 N30 . . . C 2 23.356 5.874 9.047 1 58.7 ? O62 N30 1 B 1 HETATM 23 C C13 N30 . . . C 2 20.674 7.438 9.29 1 66.91 ? C13 N30 1 B 1 HETATM 24 C C23 N30 . . . C 2 20.154 8.477 10.337 1 70.28 ? C23 N30 1 B 1 HETATM 25 O O23 N30 . . . C 2 21.082 8.831 11.399 1 70.25 ? O23 N30 1 B 1 HETATM 26 C C33 N30 . . . C 2 18.894 7.744 10.766 1 72.53 ? C33 N30 1 B 1 HETATM 27 O O33 N30 . . . C 2 19.205 6.673 11.722 1 75.37 ? O33 N30 1 B 1 HETATM 28 C C43 N30 . . . C 2 18.327 7.172 9.472 1 73.03 ? C43 N30 1 B 1 HETATM 29 O O43 N30 . . . C 2 19.52 6.719 8.838 1 69.39 ? O43 N30 1 B 1 HETATM 30 C C53 N30 . . . C 2 17.579 8.207 8.565 1 75 ? C53 N30 1 B 1 HETATM 31 N N53 N30 . . . C 2 16.482 8.776 9.274 1 76.75 ? N53 N30 1 B 1 # _model_server_stats.io_time_ms 39 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 237 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #