data_4RAI # _model_server_result.job_id X6s7ZdhNDnoVO3z-WRq_LQ _model_server_result.datetime_utc '2025-04-08 04:26:56' _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 4rai # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":206}' # _entry.id 4RAI # _exptl.entry_id 4RAI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _entity.pdbx_number_of_molecules 5 _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 4RAI _cell.length_a 67.65 _cell.length_b 67.65 _cell.length_c 86.77 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4RAI _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4' # 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 tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 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,D,E,F,G,H,I,J,K,Y 1 1,2,3,4 B,L,M,N,O,P,Q,R,S,T,U,V,W,X,Z 2 1,2,3,4 # 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' 2_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 67.65 67.65 0 3 'crystal symmetry operation' 3_655 -y+1,x,z 0 -1 0 1 0 0 0 0 1 67.65 0 0 4 'crystal symmetry operation' 4_565 y,-x+1,z 0 1 0 -1 0 0 0 0 1 0 67.65 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 G N N ? 3 H N N ? 3 O N N ? 3 P N N ? 3 Q 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 metalc ? metalc1 A O THR 46 A THR 63 1_555 D NA NA . A NA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc2 A OG1 THR 46 A THR 63 1_555 E NA NA . A NA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.775 ? metalc ? metalc3 A O THR 46 A THR 63 1_555 E NA NA . A NA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.118 ? metalc ? metalc4 A O VAL 47 A VAL 64 1_555 D NA NA . A NA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.139 ? metalc ? metalc5 A O VAL 47 A VAL 64 1_555 F NA NA . A NA 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? metalc ? metalc6 A O GLY 48 A GLY 65 1_555 C NA NA . A NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.728 ? metalc ? metalc7 B O THR 46 B THR 63 1_555 M NA NA . B NA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? metalc ? metalc8 B OG1 THR 46 B THR 63 1_555 M NA NA . B NA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.077 ? metalc ? metalc9 B O THR 46 B THR 63 1_555 N NA NA . B NA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.081 ? metalc ? metalc10 B O VAL 47 B VAL 64 1_555 N NA NA . B NA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.448 ? metalc ? metalc11 B O GLY 48 B GLY 65 1_555 L NA NA . B NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.762 ? # _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 224 n n C1 H11 MPD sing 225 n n C1 H12 MPD sing 226 n n C1 H13 MPD sing 227 n n C2 O2 MPD sing 228 n n C2 CM MPD sing 229 n n C2 C3 MPD sing 230 n n O2 HO2 MPD sing 231 n n CM HM1 MPD sing 232 n n CM HM2 MPD sing 233 n n CM HM3 MPD sing 234 n n C3 C4 MPD sing 235 n n C3 H31 MPD sing 236 n n C3 H32 MPD sing 237 n n C4 O4 MPD sing 238 n n C4 C5 MPD sing 239 n n C4 H4 MPD sing 240 n n O4 HO4 MPD sing 241 n n C5 H51 MPD sing 242 n n C5 H52 MPD sing 243 n n C5 H53 MPD sing 244 n n # _atom_sites.entry_id 4RAI _atom_sites.fract_transf_matrix[1][1] 0.014782 _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] 0.014782 _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] 0.011525 _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 1 201 3 NA NA . D 2 NA A 1 202 4 NA NA . E 2 NA A 1 203 5 NA NA . F 2 NA A 1 204 7 NA K . G 3 MPD A 1 205 1 MPD MPD . H 3 MPD A 1 206 5 MPD MPD . I 4 GLY A 1 207 2 GLY GLY . J 4 GLY A 1 208 7 GLY GLY . K 4 GLY A 1 209 10 GLY GLY . L 2 NA B 1 201 1 NA NA . M 2 NA B 1 202 2 NA NA . N 2 NA B 1 203 6 NA K . O 3 MPD B 1 204 2 MPD MPD . P 3 MPD B 1 205 3 MPD MPD . Q 3 MPD B 1 206 4 MPD MPD . R 4 GLY B 1 207 1 GLY GLY . S 4 GLY B 1 208 3 GLY GLY . T 4 GLY B 1 209 4 GLY GLY . U 4 GLY B 1 210 5 GLY GLY . V 4 GLY B 1 211 6 GLY GLY . W 4 GLY B 1 212 8 GLY GLY . X 4 GLY B 1 213 9 GLY GLY . Y 5 HOH A 1 301 6 HOH HOH . Y 5 HOH A 2 302 7 HOH HOH . Y 5 HOH A 3 303 10 HOH HOH . Y 5 HOH A 4 304 11 HOH HOH . Y 5 HOH A 5 305 12 HOH HOH . Y 5 HOH A 6 306 15 HOH HOH . Y 5 HOH A 7 307 18 HOH HOH . Y 5 HOH A 8 308 20 HOH HOH . Y 5 HOH A 9 309 21 HOH HOH . Y 5 HOH A 10 310 24 HOH HOH . Y 5 HOH A 11 311 27 HOH HOH . Y 5 HOH A 12 312 28 HOH HOH . Y 5 HOH A 13 313 29 HOH HOH . Y 5 HOH A 14 314 33 HOH HOH . Y 5 HOH A 15 315 34 HOH HOH . Y 5 HOH A 16 316 35 HOH HOH . Y 5 HOH A 17 317 36 HOH HOH . Y 5 HOH A 18 318 37 HOH HOH . Y 5 HOH A 19 319 38 HOH HOH . Y 5 HOH A 20 320 40 HOH HOH . Z 5 HOH B 1 301 1 HOH HOH . Z 5 HOH B 2 302 2 HOH HOH . Z 5 HOH B 3 303 3 HOH HOH . Z 5 HOH B 4 304 4 HOH HOH . Z 5 HOH B 5 305 5 HOH HOH . Z 5 HOH B 6 306 8 HOH HOH . Z 5 HOH B 7 307 9 HOH HOH . Z 5 HOH B 8 308 13 HOH HOH . Z 5 HOH B 9 309 14 HOH HOH . Z 5 HOH B 10 310 16 HOH HOH . Z 5 HOH B 11 311 17 HOH HOH . Z 5 HOH B 12 312 19 HOH HOH . Z 5 HOH B 13 313 22 HOH HOH . Z 5 HOH B 14 314 23 HOH HOH . Z 5 HOH B 15 315 25 HOH HOH . Z 5 HOH B 16 316 26 HOH HOH . Z 5 HOH B 17 317 30 HOH HOH . Z 5 HOH B 18 318 31 HOH HOH . Z 5 HOH B 19 319 32 HOH HOH . Z 5 HOH B 20 320 39 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 . . . Q 3 29.658 8.802 9.74 1 73.19 ? C1 MPD 206 B 1 HETATM 2 C C2 MPD . . . Q 3 28.323 9.54 9.641 1 79.3 ? C2 MPD 206 B 1 HETATM 3 O O2 MPD . . . Q 3 28.252 10.131 8.322 1 72.65 ? O2 MPD 206 B 1 HETATM 4 C CM MPD . . . Q 3 27.157 8.55 9.816 1 74.16 ? CM MPD 206 B 1 HETATM 5 C C3 MPD . . . Q 3 28.322 10.685 10.687 1 80.42 ? C3 MPD 206 B 1 HETATM 6 C C4 MPD . . . Q 3 27.457 10.508 11.961 1 82.29 ? C4 MPD 206 B 1 HETATM 7 O O4 MPD . . . Q 3 28.002 9.612 12.947 1 75.4 ? O4 MPD 206 B 1 HETATM 8 C C5 MPD . . . Q 3 27.243 11.845 12.664 1 79.64 ? C5 MPD 206 B 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 8 #