data_5G5K # _model_server_result.job_id dPca-4x1jTDRywGqfXZzDw _model_server_result.datetime_utc '2024-11-26 17:26:57' _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 5g5k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1333}' # _entry.id 5G5K # _exptl.entry_id 5G5K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 204.224 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-ACETAMIDO-1,2-DIDEOXYNOJIRMYCIN _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 97.83 _cell.angle_gamma 90 _cell.entry_id 5G5K _cell.length_a 65.224 _cell.length_b 67.607 _cell.length_c 74.064 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5G5K _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N # _chem_comp.formula 'C8 H16 N2 O4' _chem_comp.formula_weight 204.224 _chem_comp.id NOK _chem_comp.mon_nstd_flag . _chem_comp.name 2-ACETAMIDO-1,2-DIDEOXYNOJIRMYCIN _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 C8 C7 NOK sing 237 n n C7 O7 NOK doub 238 n n C7 N2 NOK sing 239 n n N2 C2 NOK sing 240 n n C2 C1 NOK sing 241 n n C2 C3 NOK sing 242 n n C1 N5 NOK sing 243 n n N5 C5 NOK sing 244 n n C5 C6 NOK sing 245 n n C5 C4 NOK sing 246 n n C6 O6 NOK sing 247 n n C4 O4 NOK sing 248 n n C4 C3 NOK sing 249 n n C3 O3 NOK sing 250 n n C8 H8C1 NOK sing 251 n n C8 H8C2 NOK sing 252 n n C8 H8C3 NOK sing 253 n n N2 H2 NOK sing 254 n n C2 HA NOK sing 255 n n C1 H1C1 NOK sing 256 n n C1 H1C2 NOK sing 257 n n C3 H3 NOK sing 258 n n N5 H5 NOK sing 259 n n C5 HB NOK sing 260 n n C6 H6C1 NOK sing 261 n n C6 H6C2 NOK sing 262 n n C4 H4 NOK sing 263 n n O6 H6 NOK sing 264 n n O4 HC NOK sing 265 n n O3 HD NOK sing 266 n n # _atom_sites.entry_id 5G5K _atom_sites.fract_transf_matrix[1][1] 0.015332 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002108 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014791 _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] 0.013629 _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 NOK A 1 1333 1333 NOK NOK . D 2 NOK B 1 1333 1333 NOK NOK . E 3 HOH A 1 2001 2001 HOH HOH . E 3 HOH A 2 2002 2002 HOH HOH . E 3 HOH A 3 2003 2003 HOH HOH . E 3 HOH A 4 2004 2004 HOH HOH . F 3 HOH B 1 2001 2001 HOH HOH . F 3 HOH B 2 2002 2002 HOH HOH . F 3 HOH B 3 2003 2003 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 C C8 NOK . . . C 2 10.971 7.358 6.954 1 41.51 ? C8 NOK 1333 A 1 HETATM 2 C C7 NOK . . . C 2 12.169 6.419 6.923 1 46.27 ? C7 NOK 1333 A 1 HETATM 3 O O7 NOK . . . C 2 12.993 6.444 7.835 1 54.95 ? O7 NOK 1333 A 1 HETATM 4 N N2 NOK . . . C 2 12.251 5.597 5.868 1 62.31 ? N2 NOK 1333 A 1 HETATM 5 C C2 NOK . . . C 2 13.311 4.618 5.632 1 64.85 ? C2 NOK 1333 A 1 HETATM 6 C C1 NOK . . . C 2 12.727 3.522 4.713 1 58.79 ? C1 NOK 1333 A 1 HETATM 7 N N5 NOK . . . C 2 13.74 2.59 4.218 1 53.13 1 N5 NOK 1333 A 1 HETATM 8 C C5 NOK . . . C 2 14.829 3.252 3.482 1 57.86 ? C5 NOK 1333 A 1 HETATM 9 C C6 NOK . . . C 2 15.777 2.161 2.965 1 51.45 ? C6 NOK 1333 A 1 HETATM 10 O O6 NOK . . . C 2 16.446 1.511 4.028 1 48.15 ? O6 NOK 1333 A 1 HETATM 11 C C4 NOK . . . C 2 15.516 4.327 4.363 1 68.28 ? C4 NOK 1333 A 1 HETATM 12 O O4 NOK . . . C 2 16.423 5.081 3.577 1 64.71 ? O4 NOK 1333 A 1 HETATM 13 C C3 NOK . . . C 2 14.523 5.328 4.987 1 67.01 ? C3 NOK 1333 A 1 HETATM 14 O O3 NOK . . . C 2 15.223 6.017 6.009 1 60.7 ? O3 NOK 1333 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #