data_1YL9 # _model_server_result.job_id fWBmUaZ6MLyZaJiZ5fF5CA _model_server_result.datetime_utc '2024-11-18 00:20:01' _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 1yl9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":0}' # _entry.id 1YL9 # _exptl.entry_id 1YL9 _exptl.method 'SOLUTION NMR' # _entity.details ? _entity.formula_weight 188.271 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 3-[(2-AMINOETHYL)AMINO]-2-{[(2-AMINOETHYL)AMINO]METHYL}PROPANAL _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 1YL9 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YL9 _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 disulf ? disulf1 A SG CYS 2 A CYS 3 1_555 A SG CYS 7 A CYS 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? covale ? covale1 B C CH4 . A CH4 0 1_555 A N DPN 1 A DPN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale2 A C DPN 1 A DPN 2 1_555 A N CYS 2 A CYS 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 A C TYR 3 A TYR 4 1_555 A N DTR 4 A DTR 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale4 A C DTR 4 A DTR 5 1_555 A N LYS 5 A LYS 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? # _chem_comp.formula 'C8 H20 N4 O' _chem_comp.formula_weight 188.271 _chem_comp.id CH4 _chem_comp.mon_nstd_flag . _chem_comp.name 3-[(2-AMINOETHYL)AMINO]-2-{[(2-AMINOETHYL)AMINO]METHYL}PROPANAL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 1YL9 _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 CH4 _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 0 _pdbx_nonpoly_scheme.auth_seq_num 0 _pdbx_nonpoly_scheme.pdb_mon_id CH4 _pdbx_nonpoly_scheme.auth_mon_id CH4 _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 CA CH4 . . . B 2 4.141 -5.432 0.135 1 1.17 ? CA CH4 0 A 1 HETATM 2 C CB1 CH4 . . . B 2 5.512 -5.885 0.674 1 1.44 ? CB1 CH4 0 A 1 HETATM 3 N NG1 CH4 . . . B 2 6.532 -4.819 0.759 1 1.37 ? NG1 CH4 0 A 1 HETATM 4 C CD1 CH4 . . . B 2 6.597 -4.049 -0.493 1 1.38 ? CD1 CH4 0 A 1 HETATM 5 C CE1 CH4 . . . B 2 7.342 -4.797 -1.588 1 2.11 ? CE1 CH4 0 A 1 HETATM 6 N NZ1 CH4 . . . B 2 8.787 -4.773 -1.328 1 2.56 ? NZ1 CH4 0 A 1 HETATM 7 C CB2 CH4 . . . B 2 3.331 -6.732 0.097 1 1.63 ? CB2 CH4 0 A 1 HETATM 8 N NG2 CH4 . . . B 2 2.187 -6.675 -0.832 1 1.9 ? NG2 CH4 0 A 1 HETATM 9 C CD2 CH4 . . . B 2 0.903 -6.525 -0.127 1 2.23 ? CD2 CH4 0 A 1 HETATM 10 C CE2 CH4 . . . B 2 0.174 -7.866 -0.091 1 2.93 ? CE2 CH4 0 A 1 HETATM 11 N NZ2 CH4 . . . B 2 1.146 -8.95 0.111 1 3.53 ? NZ2 CH4 0 A 1 HETATM 12 C C CH4 . . . B 2 3.477 -4.354 0.999 1 0.85 ? C CH4 0 A 1 HETATM 13 O O CH4 . . . B 2 2.615 -4.647 1.827 1 1.1 ? O CH4 0 A 1 HETATM 14 H HA CH4 . . . B 2 4.257 -5.055 -0.884 1 1.09 ? HA CH4 0 A 1 HETATM 15 H HB12 CH4 . . . B 2 5.37 -6.31 1.669 1 1.6 ? HB12 CH4 0 A 1 HETATM 16 H HB13 CH4 . . . B 2 5.891 -6.669 0.019 1 1.72 ? HB13 CH4 0 A 1 HETATM 17 H HG1 CH4 . . . B 2 6.315 -4.212 1.542 1 1.17 ? HG1 CH4 0 A 1 HETATM 18 H HD12 CH4 . . . B 2 7.082 -3.088 -0.317 1 1.86 ? HD12 CH4 0 A 1 HETATM 19 H HD13 CH4 . . . B 2 5.585 -3.876 -0.838 1 1.83 ? HD13 CH4 0 A 1 HETATM 20 H HE12 CH4 . . . B 2 6.983 -5.827 -1.627 1 3.1 ? HE12 CH4 0 A 1 HETATM 21 H HE13 CH4 . . . B 2 7.138 -4.32 -2.548 1 2.76 ? HE13 CH4 0 A 1 HETATM 22 H HZ11 CH4 . . . B 2 8.962 -5.232 -0.445 1 3.05 ? HZ11 CH4 0 A 1 HETATM 23 H HZ12 CH4 . . . B 2 9.274 -5.248 -2.074 1 3.26 ? HZ12 CH4 0 A 1 HETATM 24 H HB22 CH4 . . . B 2 3.995 -7.529 -0.237 1 1.89 ? HB22 CH4 0 A 1 HETATM 25 H HB23 CH4 . . . B 2 2.983 -6.957 1.105 1 1.83 ? HB23 CH4 0 A 1 HETATM 26 H HG2 CH4 . . . B 2 2.312 -5.99 -1.577 1 2.45 ? HG2 CH4 0 A 1 HETATM 27 H HD22 CH4 . . . B 2 1.089 -6.172 0.889 1 2.9 ? HD22 CH4 0 A 1 HETATM 28 H HD23 CH4 . . . B 2 0.284 -5.793 -0.647 1 2.92 ? HD23 CH4 0 A 1 HETATM 29 H HE22 CH4 . . . B 2 -0.328 -8.02 -1.048 1 3.5 ? HE22 CH4 0 A 1 HETATM 30 H HE23 CH4 . . . B 2 -0.568 -7.865 0.708 1 3.64 ? HE23 CH4 0 A 1 HETATM 31 H HZ21 CH4 . . . B 2 1.801 -8.892 -0.66 1 3.97 ? HZ21 CH4 0 A 1 HETATM 32 H HZ22 CH4 . . . B 2 1.681 -8.733 0.938 1 4.08 ? HZ22 CH4 0 A 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 6780 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 32 #