data_2R53 # _model_server_result.job_id 80iUIEUdIcgLo2fdzyWmKw _model_server_result.datetime_utc '2024-11-22 20:33:50' _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 2r53 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":2}' # _entry.id 2R53 # _exptl.entry_id 2R53 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _entity.pdbx_number_of_molecules 4 _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 120 _cell.entry_id 2R53 _cell.length_a 99.78 _cell.length_b 99.78 _cell.length_c 86.76 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2R53 _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 # 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 ? 2 E N N ? 2 F 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 disulf ? disulf1 A SG CYS 15 A CYS 31 1_555 A SG CYS 81 A CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf2 A SG CYS 44 A CYS 60 1_555 A SG CYS 113 A CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 A SG CYS 48 A CYS 64 1_555 A SG CYS 115 A CYS 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 A SG CYS 80 A CYS 96 1_555 B SG CYS 80 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 B SG CYS 15 B CYS 31 1_555 B SG CYS 81 B CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 B SG CYS 44 B CYS 60 1_555 B SG CYS 113 B CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf7 B SG CYS 48 B CYS 64 1_555 B SG CYS 115 B CYS 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? # _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 2R53 _atom_sites.fract_transf_matrix[1][1] 0.010022 _atom_sites.fract_transf_matrix[1][2] 0.005786 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011572 _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] 0.011526 _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 MPD A 1 3 3 MPD MPD . D 2 MPD A 1 4 4 MPD MPD . E 2 MPD B 1 1 1 MPD MPD . F 2 MPD B 1 2 2 MPD MPD . G 3 HOH A 1 133 1 HOH HOH . G 3 HOH A 2 134 4 HOH HOH . G 3 HOH A 3 135 8 HOH HOH . G 3 HOH A 4 136 10 HOH HOH . G 3 HOH A 5 137 13 HOH HOH . G 3 HOH A 6 138 14 HOH HOH . G 3 HOH A 7 139 15 HOH HOH . G 3 HOH A 8 140 17 HOH HOH . G 3 HOH A 9 141 20 HOH HOH . G 3 HOH A 10 142 21 HOH HOH . G 3 HOH A 11 143 22 HOH HOH . G 3 HOH A 12 144 23 HOH HOH . G 3 HOH A 13 145 26 HOH HOH . G 3 HOH A 14 146 27 HOH HOH . G 3 HOH A 15 147 30 HOH HOH . G 3 HOH A 16 148 32 HOH HOH . G 3 HOH A 17 149 33 HOH HOH . G 3 HOH A 18 150 36 HOH HOH . G 3 HOH A 19 151 39 HOH HOH . G 3 HOH A 20 152 54 HOH HOH . G 3 HOH A 21 153 55 HOH HOH . G 3 HOH A 22 154 57 HOH HOH . G 3 HOH A 23 155 59 HOH HOH . G 3 HOH A 24 156 60 HOH HOH . G 3 HOH A 25 157 63 HOH HOH . G 3 HOH A 26 158 66 HOH HOH . G 3 HOH A 27 159 69 HOH HOH . G 3 HOH A 28 160 70 HOH HOH . G 3 HOH A 29 161 75 HOH HOH . G 3 HOH A 30 162 79 HOH HOH . G 3 HOH A 31 163 83 HOH HOH . G 3 HOH A 32 164 84 HOH HOH . G 3 HOH A 33 165 87 HOH HOH . G 3 HOH A 34 166 90 HOH HOH . G 3 HOH A 35 167 98 HOH HOH . G 3 HOH A 36 168 100 HOH HOH . G 3 HOH A 37 169 103 HOH HOH . G 3 HOH A 38 170 104 HOH HOH . G 3 HOH A 39 171 108 HOH HOH . G 3 HOH A 40 172 112 HOH HOH . G 3 HOH A 41 173 115 HOH HOH . G 3 HOH A 42 174 111 HOH HOH . H 3 HOH B 1 133 3 HOH HOH . H 3 HOH B 2 134 7 HOH HOH . H 3 HOH B 3 135 11 HOH HOH . H 3 HOH B 4 136 12 HOH HOH . H 3 HOH B 5 137 16 HOH HOH . H 3 HOH B 6 138 18 HOH HOH . H 3 HOH B 7 139 28 HOH HOH . H 3 HOH B 8 140 29 HOH HOH . H 3 HOH B 9 141 31 HOH HOH . H 3 HOH B 10 142 34 HOH HOH . H 3 HOH B 11 143 35 HOH HOH . H 3 HOH B 12 144 41 HOH HOH . H 3 HOH B 13 145 47 HOH HOH . H 3 HOH B 14 146 49 HOH HOH . H 3 HOH B 15 147 50 HOH HOH . H 3 HOH B 16 148 53 HOH HOH . H 3 HOH B 17 149 56 HOH HOH . H 3 HOH B 18 150 58 HOH HOH . H 3 HOH B 19 151 65 HOH HOH . H 3 HOH B 20 152 68 HOH HOH . H 3 HOH B 21 153 72 HOH HOH . H 3 HOH B 22 154 73 HOH HOH . H 3 HOH B 23 155 78 HOH HOH . H 3 HOH B 24 156 80 HOH HOH . H 3 HOH B 25 157 81 HOH HOH . H 3 HOH B 26 158 86 HOH HOH . H 3 HOH B 27 159 92 HOH HOH . H 3 HOH B 28 160 95 HOH HOH . H 3 HOH B 29 161 96 HOH HOH . H 3 HOH B 30 162 97 HOH HOH . H 3 HOH B 31 163 101 HOH HOH . H 3 HOH B 32 164 105 HOH HOH . H 3 HOH B 33 165 106 HOH HOH . H 3 HOH B 34 166 109 HOH HOH . H 3 HOH B 35 167 110 HOH HOH . H 3 HOH B 36 168 114 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 . . . F 2 189.942 -54.346 22.738 1 94.16 ? C1 MPD 2 B 1 HETATM 2 C C2 MPD . . . F 2 190.794 -53.249 23.337 1 94.3 ? C2 MPD 2 B 1 HETATM 3 O O2 MPD . . . F 2 189.987 -52.655 24.373 1 94.45 ? O2 MPD 2 B 1 HETATM 4 C CM MPD . . . F 2 192.055 -53.794 23.932 1 94.21 ? CM MPD 2 B 1 HETATM 5 C C3 MPD . . . F 2 191.12 -52.1 22.343 1 93.91 ? C3 MPD 2 B 1 HETATM 6 C C4 MPD . . . F 2 192.207 -52.346 21.287 1 93.91 ? C4 MPD 2 B 1 HETATM 7 O O4 MPD . . . F 2 191.873 -53.422 20.448 1 93.82 ? O4 MPD 2 B 1 HETATM 8 C C5 MPD . . . F 2 192.402 -51.125 20.406 1 94.4 ? C5 MPD 2 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 8 #