data_2Q3L # _model_server_result.job_id ZRCqoUGnJC1nEXwWMXxcsQ _model_server_result.datetime_utc '2024-12-26 21:00:35' _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 2q3l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":128}' # _entry.id 2Q3L # _exptl.entry_id 2Q3L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _entity.pdbx_number_of_molecules 9 _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 2Q3L _cell.length_a 40.387 _cell.length_b 113.963 _cell.length_c 130.692 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2Q3L _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q 1 1 B,I,J,K,L,M,N,O,Q 2 1 A,C,D,E,F,G,H,P 2 2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 8_555 x+1/2,-y+1/2,-z 1 0 0 0 -1 0 0 0 -1 20.1935 56.9815 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N ? 4 K N N ? 4 L N N ? 4 M N N ? 4 N N N ? 4 O N 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 C GLY 1 A GLY 0 1_555 A N MSE 2 A MSE 1 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.334 ? covale ? covale2 A C GLY 1 A GLY 0 1_555 A N MSE 2 A MSE 1 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.337 ? covale ? covale3 A C MSE 2 A MSE 1 1_555 A N SER 3 A SER 2 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale4 A C MSE 2 A MSE 1 1_555 A N SER 3 A SER 2 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale5 A C GLN 37 A GLN 36 1_555 A N MSE 38 A MSE 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.309 ? covale ? covale6 A C MSE 38 A MSE 37 1_555 A N THR 39 A THR 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale7 B C GLY 1 B GLY 0 1_555 B N MSE 2 B MSE 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale8 B C MSE 2 B MSE 1 1_555 B N SER 3 B SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale9 B C GLN 37 B GLN 36 1_555 B N MSE 38 B MSE 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale10 B C MSE 38 B MSE 37 1_555 B N THR 39 B THR 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? metalc ? metalc1 A O ASN 105 A ASN 104 1_555 C NA NA . A NA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.502 ? metalc ? metalc2 A OD1 ASN 105 A ASN 104 1_555 C NA NA . A NA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.549 ? metalc ? metalc3 A O THR 108 A THR 107 1_555 C NA NA . A NA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? metalc ? metalc4 A OG1 THR 108 A THR 107 1_555 C NA NA . A NA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.531 ? metalc ? metalc5 A O GLY 110 A GLY 109 1_555 C NA NA . A NA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc6 C NA NA . A NA 126 1_555 P O HOH . A HOH 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? metalc ? metalc7 B O ASN 105 B ASN 104 1_555 I NA NA . B NA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? metalc ? metalc8 B OD1 ASN 105 B ASN 104 1_555 I NA NA . B NA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.494 ? metalc ? metalc9 B O THR 108 B THR 107 1_555 I NA NA . B NA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? metalc ? metalc10 B OG1 THR 108 B THR 107 1_555 I NA NA . B NA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.548 ? metalc ? metalc11 B O GLY 110 B GLY 109 1_555 I NA NA . B NA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc12 I NA NA . B NA 126 1_555 Q O HOH . B HOH 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MPD _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-2-METHYL-2,4-PENTANEDIOL _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 C1 C2 MPD sing 237 n n C1 H11 MPD sing 238 n n C1 H12 MPD sing 239 n n C1 H13 MPD sing 240 n n C2 O2 MPD sing 241 n n C2 CM MPD sing 242 n n C2 C3 MPD sing 243 n n O2 HO2 MPD sing 244 n n CM HM1 MPD sing 245 n n CM HM2 MPD sing 246 n n CM HM3 MPD sing 247 n n C3 C4 MPD sing 248 n n C3 H31 MPD sing 249 n n C3 H32 MPD sing 250 n n C4 O4 MPD sing 251 n n C4 C5 MPD sing 252 n n C4 H4 MPD sing 253 n n O4 HO4 MPD sing 254 n n C5 H51 MPD sing 255 n n C5 H52 MPD sing 256 n n C5 H53 MPD sing 257 n n # _atom_sites.entry_id 2Q3L _atom_sites.fract_transf_matrix[1][1] 0.02476 _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] 0.008775 _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] 0.007652 _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 NA A 1 126 1 NA NA . D 3 CL A 1 127 4 CL CL . E 4 MPD A 1 128 7 MPD MPD . F 4 MPD A 1 129 8 MPD MPD . G 4 MPD A 1 130 12 MPD MPD . H 4 MPD A 1 131 13 MPD MPD . I 2 NA B 1 126 2 NA NA . J 3 CL B 1 127 3 CL CL . K 4 MPD B 1 128 5 MPD MPD . L 4 MPD B 1 129 6 MPD MPD . M 4 MPD B 1 130 9 MPD MPD . N 4 MPD B 1 131 10 MPD MPD . O 4 MPD B 1 132 11 MPD MPD . P 5 HOH A 1 132 14 HOH HOH . P 5 HOH A 2 133 15 HOH HOH . P 5 HOH A 3 134 16 HOH HOH . P 5 HOH A 4 135 19 HOH HOH . P 5 HOH A 5 136 21 HOH HOH . P 5 HOH A 6 137 22 HOH HOH . P 5 HOH A 7 138 23 HOH HOH . P 5 HOH A 8 139 24 HOH HOH . P 5 HOH A 9 140 26 HOH HOH . P 5 HOH A 10 141 27 HOH HOH . P 5 HOH A 11 142 28 HOH HOH . P 5 HOH A 12 143 29 HOH HOH . P 5 HOH A 13 144 30 HOH HOH . P 5 HOH A 14 145 31 HOH HOH . P 5 HOH A 15 146 32 HOH HOH . P 5 HOH A 16 147 33 HOH HOH . P 5 HOH A 17 148 34 HOH HOH . P 5 HOH A 18 149 39 HOH HOH . P 5 HOH A 19 150 41 HOH HOH . P 5 HOH A 20 151 44 HOH HOH . P 5 HOH A 21 152 49 HOH HOH . P 5 HOH A 22 153 51 HOH HOH . P 5 HOH A 23 154 52 HOH HOH . P 5 HOH A 24 155 54 HOH HOH . P 5 HOH A 25 156 56 HOH HOH . P 5 HOH A 26 157 58 HOH HOH . P 5 HOH A 27 158 59 HOH HOH . P 5 HOH A 28 159 61 HOH HOH . P 5 HOH A 29 160 62 HOH HOH . P 5 HOH A 30 161 65 HOH HOH . P 5 HOH A 31 162 66 HOH HOH . P 5 HOH A 32 163 67 HOH HOH . P 5 HOH A 33 164 68 HOH HOH . P 5 HOH A 34 165 69 HOH HOH . P 5 HOH A 35 166 70 HOH HOH . P 5 HOH A 36 167 73 HOH HOH . P 5 HOH A 37 168 74 HOH HOH . P 5 HOH A 38 169 75 HOH HOH . P 5 HOH A 39 170 76 HOH HOH . P 5 HOH A 40 171 78 HOH HOH . P 5 HOH A 41 172 79 HOH HOH . P 5 HOH A 42 173 80 HOH HOH . P 5 HOH A 43 174 81 HOH HOH . P 5 HOH A 44 175 84 HOH HOH . P 5 HOH A 45 176 85 HOH HOH . P 5 HOH A 46 177 87 HOH HOH . P 5 HOH A 47 178 89 HOH HOH . P 5 HOH A 48 179 91 HOH HOH . P 5 HOH A 49 180 92 HOH HOH . P 5 HOH A 50 181 94 HOH HOH . P 5 HOH A 51 182 95 HOH HOH . P 5 HOH A 52 183 96 HOH HOH . P 5 HOH A 53 184 98 HOH HOH . P 5 HOH A 54 185 102 HOH HOH . P 5 HOH A 55 186 105 HOH HOH . P 5 HOH A 56 187 107 HOH HOH . Q 5 HOH B 1 133 17 HOH HOH . Q 5 HOH B 2 134 18 HOH HOH . Q 5 HOH B 3 135 20 HOH HOH . Q 5 HOH B 4 136 25 HOH HOH . Q 5 HOH B 5 137 35 HOH HOH . Q 5 HOH B 6 138 36 HOH HOH . Q 5 HOH B 7 139 37 HOH HOH . Q 5 HOH B 8 140 38 HOH HOH . Q 5 HOH B 9 141 40 HOH HOH . Q 5 HOH B 10 142 42 HOH HOH . Q 5 HOH B 11 143 43 HOH HOH . Q 5 HOH B 12 144 45 HOH HOH . Q 5 HOH B 13 145 46 HOH HOH . Q 5 HOH B 14 146 47 HOH HOH . Q 5 HOH B 15 147 48 HOH HOH . Q 5 HOH B 16 148 50 HOH HOH . Q 5 HOH B 17 149 53 HOH HOH . Q 5 HOH B 18 150 55 HOH HOH . Q 5 HOH B 19 151 57 HOH HOH . Q 5 HOH B 20 152 60 HOH HOH . Q 5 HOH B 21 153 63 HOH HOH . Q 5 HOH B 22 154 64 HOH HOH . Q 5 HOH B 23 155 71 HOH HOH . Q 5 HOH B 24 156 72 HOH HOH . Q 5 HOH B 25 157 77 HOH HOH . Q 5 HOH B 26 158 82 HOH HOH . Q 5 HOH B 27 159 83 HOH HOH . Q 5 HOH B 28 160 86 HOH HOH . Q 5 HOH B 29 161 88 HOH HOH . Q 5 HOH B 30 162 90 HOH HOH . Q 5 HOH B 31 163 93 HOH HOH . Q 5 HOH B 32 164 97 HOH HOH . Q 5 HOH B 33 165 99 HOH HOH . Q 5 HOH B 34 166 100 HOH HOH . Q 5 HOH B 35 167 101 HOH HOH . Q 5 HOH B 36 168 103 HOH HOH . Q 5 HOH B 37 169 104 HOH HOH . Q 5 HOH B 38 170 106 HOH HOH . Q 5 HOH B 39 171 108 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 C1 MPD . . . E 4 14.749 29.067 14.047 1 92.41 ? C1 MPD 128 A 1 HETATM 2 C C2 MPD . . . E 4 14.951 29.941 12.81 1 87.47 ? C2 MPD 128 A 1 HETATM 3 O O2 MPD . . . E 4 16.384 29.94 12.618 1 85.14 ? O2 MPD 128 A 1 HETATM 4 C CM MPD . . . E 4 14.302 29.334 11.564 1 85.79 ? CM MPD 128 A 1 HETATM 5 C C3 MPD . . . E 4 14.386 31.354 13.004 1 89.37 ? C3 MPD 128 A 1 HETATM 6 C C4 MPD . . . E 4 15.329 32.353 13.678 1 91.57 ? C4 MPD 128 A 1 HETATM 7 O O4 MPD . . . E 4 14.818 33.657 13.547 1 89.85 ? O4 MPD 128 A 1 HETATM 8 C C5 MPD . . . E 4 15.505 32.102 15.159 1 94.21 ? C5 MPD 128 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 8 #