data_2DDE # _model_server_result.job_id iqIxMlXtjuu85uW_DrEW5Q _model_server_result.datetime_utc '2024-10-20 07:37:34' _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 2dde # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":100}' # _entry.id 2DDE # _exptl.entry_id 2DDE _exptl.method 'SOLUTION NMR' # _entity.details ? _entity.formula_weight 258.186 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(7S)-4,7-DIHYDROXY-10-OXO-3,5,9-TRIOXA-4-PHOSPHAUNDECAN-1-AMINIUM 4-OXIDE' _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 2DDE _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2DDE _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PQS _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details software_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 # _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 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 covale ? covale1 A SG CYS 1 A CYS 1 1_555 A CB DBB 18 A DBB 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.81 ? covale ? covale2 A C GLN 3 A GLN 3 1_555 A N DAL 4 A DAL 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.313 ? covale ? covale3 A C DAL 4 A DAL 4 1_555 A N CYS 5 A CYS 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.305 ? covale ? covale4 A CB DAL 4 A DAL 4 1_555 A SG CYS 14 A CYS 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.812 ? covale ? covale5 A SG CYS 5 A CYS 5 1_555 A CB DBB 11 A DBB 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.81 ? covale ? covale6 A CB SER 6 A SER 6 1_555 A NZ LYS 19 A LYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.491 ? covale ? covale7 A C PHE 10 A PHE 10 1_555 A N DBB 11 A DBB 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.307 ? covale ? covale8 A C DBB 11 A DBB 11 1_555 A N PHE 12 A PHE 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.307 ? covale ? covale9 A C CYS 14 A CYS 14 1_555 A N BH2 15 A BH2 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.307 ? covale ? covale10 A C BH2 15 A BH2 15 1_555 A N GLY 16 A GLY 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.307 ? covale ? covale11 A C ASN 17 A ASN 17 1_555 A N DBB 18 A DBB 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.305 ? covale ? covale12 A C DBB 18 A DBB 18 1_555 A N LYS 19 A LYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.304 ? # _chem_comp.formula 'C7 H17 N O7 P 1' _chem_comp.formula_weight 258.186 _chem_comp.id LSP _chem_comp.mon_nstd_flag . _chem_comp.name '(7S)-4,7-DIHYDROXY-10-OXO-3,5,9-TRIOXA-4-PHOSPHAUNDECAN-1-AMINIUM 4-OXIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 1-ACETYL-2-LYSO-SN-GLYCERO-3-PHOSPHOETHANOLAMINE # 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 N C12 LSP sing 127 n n N HN1 LSP sing 128 n n N HN2 LSP sing 129 n n N HN3 LSP sing 130 n n C12 C11 LSP sing 131 n n C12 H121 LSP sing 132 n n C12 H122 LSP sing 133 n n C11 O13 LSP sing 134 n n C11 H111 LSP sing 135 n n C11 H112 LSP sing 136 n n P O12 LSP doub 137 n n P O14 LSP sing 138 n n P O11 LSP sing 139 n n P O13 LSP sing 140 n n O14 H14 LSP sing 141 n n O11 C1 LSP sing 142 n n C1 C2 LSP sing 143 n n C1 H11 LSP sing 144 n n C1 H12 LSP sing 145 n n C2 O21 LSP sing 146 n n C2 C3 LSP sing 147 n n C2 H2 LSP sing 148 n n O21 H21 LSP sing 149 n n C3 O31 LSP sing 150 n n C3 H31 LSP sing 151 n n C3 H32 LSP sing 152 n n O31 C31 LSP sing 153 n n C31 O32 LSP doub 154 n n C31 C32 LSP sing 155 n n C32 H321 LSP sing 156 n n C32 H322 LSP sing 157 n n C32 H323 LSP sing 158 n n # _atom_sites.entry_id 2DDE _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 LSP _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 100 _pdbx_nonpoly_scheme.auth_seq_num 100 _pdbx_nonpoly_scheme.pdb_mon_id LSP _pdbx_nonpoly_scheme.auth_mon_id LSP _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 N LSP . . . B 2 1.095 3.204 1.399 1 0 ? N LSP 100 A 1 HETATM 2 C C12 LSP . . . B 2 1.695 3.924 2.584 1 0 ? C12 LSP 100 A 1 HETATM 3 C C11 LSP . . . B 2 0.701 4.943 3.147 1 0 ? C11 LSP 100 A 1 HETATM 4 P P LSP . . . B 2 1.468 6.979 4.693 1 0 ? P LSP 100 A 1 HETATM 5 O O12 LSP . . . B 2 0.67 6.275 5.722 1 0 ? O12 LSP 100 A 1 HETATM 6 O O14 LSP . . . B 2 1.207 8.423 4.499 1 0 ? O14 LSP 100 A 1 HETATM 7 O O11 LSP . . . B 2 3.021 6.775 5.012 1 0 ? O11 LSP 100 A 1 HETATM 8 O O13 LSP . . . B 2 1.326 6.225 3.283 1 0 ? O13 LSP 100 A 1 HETATM 9 C C1 LSP . . . B 2 3.506 5.58 5.632 1 0 ? C1 LSP 100 A 1 HETATM 10 C C2 LSP . . . B 2 5.009 5.411 5.34 1 0 ? C2 LSP 100 A 1 HETATM 11 O O21 LSP . . . B 2 5.647 6.681 5.349 1 0 ? O21 LSP 100 A 1 HETATM 12 C C3 LSP . . . B 2 5.712 4.494 6.354 1 0 ? C3 LSP 100 A 1 HETATM 13 O O31 LSP . . . B 2 5.77 5.141 7.635 1 0 ? O31 LSP 100 A 1 HETATM 14 C C31 LSP . . . B 2 6.691 4.587 8.435 1 0 ? C31 LSP 100 A 1 HETATM 15 O O32 LSP . . . B 2 7.899 4.672 8.291 1 0 ? O32 LSP 100 A 1 HETATM 16 C C32 LSP . . . B 2 6 3.824 9.557 1 0 ? C32 LSP 100 A 1 HETATM 17 H HN1 LSP . . . B 2 0.743 3.902 0.713 1 0 ? HN1 LSP 100 A 1 HETATM 18 H HN2 LSP . . . B 2 1.817 2.606 0.95 1 0 ? HN2 LSP 100 A 1 HETATM 19 H HN3 LSP . . . B 2 0.307 2.606 1.721 1 0 ? HN3 LSP 100 A 1 HETATM 20 H H121 LSP . . . B 2 2.626 4.424 2.245 1 0 ? H121 LSP 100 A 1 HETATM 21 H H122 LSP . . . B 2 1.95 3.157 3.346 1 0 ? H122 LSP 100 A 1 HETATM 22 H H111 LSP . . . B 2 -0.169 5.035 2.462 1 0 ? H111 LSP 100 A 1 HETATM 23 H H112 LSP . . . B 2 0.341 4.605 4.142 1 0 ? H112 LSP 100 A 1 HETATM 24 H H11 LSP . . . B 2 3.343 5.64 6.729 1 0 ? H11 LSP 100 A 1 HETATM 25 H H12 LSP . . . B 2 2.947 4.705 5.238 1 0 ? H12 LSP 100 A 1 HETATM 26 H H2 LSP . . . B 2 5.127 4.974 4.323 1 0 ? H2 LSP 100 A 1 HETATM 27 H H31 LSP . . . B 2 5.153 3.539 6.445 1 0 ? H31 LSP 100 A 1 HETATM 28 H H32 LSP . . . B 2 6.738 4.278 5.979 1 0 ? H32 LSP 100 A 1 HETATM 29 H H321 LSP . . . B 2 5.132 4.404 9.937 1 0 ? H321 LSP 100 A 1 HETATM 30 H H322 LSP . . . B 2 6.716 3.653 10.39 1 0 ? H322 LSP 100 A 1 HETATM 31 H H323 LSP . . . B 2 5.635 2.843 9.181 1 0 ? H323 LSP 100 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 71 _model_server_stats.query_time_ms 2993 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 31 #