data_8CU2 # _model_server_result.job_id CPK6l-L-GhNNJ9jlcuE9Ow _model_server_result.datetime_utc '2025-09-04 18:08:38' _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 8cu2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":205}' # _entry.id 8CU2 # _exptl.entry_id 8CU2 _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 15 _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 8CU2 _cell.length_a 68.816 _cell.length_b 68.816 _cell.length_c 90.365 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CU2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall 'I 4' _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,D,E,F,G,H,I,J,K,L,M,N,EA 1 1 A,D,E,F,G,H,I,J,K,L,M,N,EA 1 2 A,D,E,F,G,H,I,J,K,L,M,N,EA 1 3 A,D,E,F,G,H,I,J,K,L,M,N,EA 1 4 B,C,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,FA 2 1 B,C,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,FA 2 2 B,C,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,FA 2 3 B,C,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,FA 2 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_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 E N N ? 3 F N N ? 3 G N N ? 3 H N N ? 3 O N N ? 3 P N N ? 3 Q N N ? 3 R N N ? 3 S N N ? 3 T N N ? 3 U N N ? 3 V N N ? 3 W N N ? 3 X N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 GLC _pdbx_entity_branch_link.comp_id_2 GLC _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n C GLC 1 D 1 GLC E 1 MAL 2 n C GLC 2 D 2 GLC E 1 MAL # 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 C O4 GLC . D GLC 1 1_555 C C1 GLC . D GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? metalc ? metalc1 A O THR 45 A THR 63 1_555 K K K . A K 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.681 ? metalc ? metalc2 A O THR 45 A THR 63 1_555 K K K . A K 208 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.681 ? metalc ? metalc3 A O THR 45 A THR 63 1_555 L K K . A K 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.723 ? metalc ? metalc4 A OG1 THR 45 A THR 63 1_555 L K K . A K 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.846 ? metalc ? metalc5 A O THR 45 A THR 63 1_555 L K K . A K 209 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.723 ? metalc ? metalc6 A OG1 THR 45 A THR 63 1_555 L K K . A K 209 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.846 ? metalc ? metalc7 A O VAL 46 A VAL 64 1_555 J K K . A K 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.735 ? metalc ? metalc8 A O VAL 46 A VAL 64 1_555 J K K . A K 207 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.735 ? metalc ? metalc9 A O VAL 46 A VAL 64 1_555 K K K . A K 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.672 ? metalc ? metalc10 A O VAL 46 A VAL 64 1_555 K K K . A K 208 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.672 ? metalc ? metalc11 A O GLY 47 A GLY 65 1_555 I K K . A K 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.099 ? metalc ? metalc12 A O GLY 47 A GLY 65 1_555 I K K . A K 206 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.099 ? metalc ? metalc13 A O GLY 47 A GLY 65 1_555 J K K . A K 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.947 ? metalc ? metalc14 A O GLY 47 A GLY 65 1_555 J K K . A K 207 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.947 ? metalc ? metalc15 A O TYR 48 A TYR 66 1_555 I K K . A K 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.767 ? metalc ? metalc16 A O TYR 48 A TYR 66 1_555 I K K . A K 206 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.767 ? metalc ? metalc17 N K K . A K 211 1_555 EA O HOH . A HOH 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.564 ? metalc ? metalc18 N K K . A K 211 1_555 EA O HOH . A HOH 306 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.564 ? metalc ? metalc19 B O THR 45 B THR 63 1_555 AA K K . B K 213 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.686 ? metalc ? metalc20 B O THR 45 B THR 63 1_555 AA K K . B K 213 2_555 ? A ? ? ? ? ? ? ? ? ? ? 2.686 ? metalc ? metalc21 B O THR 45 B THR 63 1_555 BA K K . B K 214 1_555 ? A ? ? ? ? ? ? ? ? ? ? 3.076 ? metalc ? metalc22 B OG1 THR 45 B THR 63 1_555 BA K K . B K 214 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.871 ? metalc ? metalc23 B O THR 45 B THR 63 1_555 BA K K . B K 214 2_555 ? A ? ? ? ? ? ? ? ? ? ? 3.076 ? metalc ? metalc24 B OG1 THR 45 B THR 63 1_555 BA K K . B K 214 2_555 ? A ? ? ? ? ? ? ? ? ? ? 2.871 ? metalc ? metalc25 B O VAL 46 B VAL 64 1_555 Z K K . B K 212 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.769 ? metalc ? metalc26 B O VAL 46 B VAL 64 1_555 Z K K . B K 212 2_555 ? A ? ? ? ? ? ? ? ? ? ? 2.769 ? metalc ? metalc27 B O VAL 46 B VAL 64 1_555 AA K K . B K 213 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.709 ? metalc ? metalc28 B O VAL 46 B VAL 64 1_555 AA K K . B K 213 2_555 ? A ? ? ? ? ? ? ? ? ? ? 2.709 ? metalc ? metalc29 B O GLY 47 B GLY 65 1_555 Y K K . B K 211 1_555 ? A ? ? ? ? ? ? ? ? ? ? 3.498 ? metalc ? metalc30 B O GLY 47 B GLY 65 1_555 Y K K . B K 211 2_555 ? A ? ? ? ? ? ? ? ? ? ? 3.498 ? metalc ? metalc31 B O GLY 47 B GLY 65 1_555 Z K K . B K 212 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.724 ? metalc ? metalc32 B O GLY 47 B GLY 65 1_555 Z K K . B K 212 2_555 ? A ? ? ? ? ? ? ? ? ? ? 2.724 ? metalc ? metalc33 B O TYR 48 B TYR 66 1_555 Y K K . B K 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.682 ? metalc ? metalc34 B O TYR 48 B TYR 66 1_555 Y K K . B K 211 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.682 ? # _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 229 n n C1 H11 MPD sing 230 n n C1 H12 MPD sing 231 n n C1 H13 MPD sing 232 n n C2 O2 MPD sing 233 n n C2 CM MPD sing 234 n n C2 C3 MPD sing 235 n n O2 HO2 MPD sing 236 n n CM HM1 MPD sing 237 n n CM HM2 MPD sing 238 n n CM HM3 MPD sing 239 n n C3 C4 MPD sing 240 n n C3 H31 MPD sing 241 n n C3 H32 MPD sing 242 n n C4 O4 MPD sing 243 n n C4 C5 MPD sing 244 n n C4 H4 MPD sing 245 n n O4 HO4 MPD sing 246 n n C5 H51 MPD sing 247 n n C5 H52 MPD sing 248 n n C5 H53 MPD sing 249 n n # _atom_sites.entry_id 8CU2 _atom_sites.fract_transf_matrix[1][1] 0.014532 _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] 0.014532 _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] 0.011066 _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 D 3 MPD A 1 201 1 MPD MPD . E 3 MPD A 1 202 3 MPD MPD . F 3 MPD A 1 203 8 MPD MPD . G 3 MPD A 1 204 12 MPD MPD . H 3 MPD A 1 205 14 MPD MPD . I 4 K A 1 206 1 K K . J 4 K A 1 207 2 K K . K 4 K A 1 208 3 K K . L 4 K A 1 209 4 K K . M 4 K A 1 210 5 K K . N 4 K A 1 211 6 K K . O 3 MPD B 1 201 5 MPD MPD . P 3 MPD B 1 202 6 MPD MPD . Q 3 MPD B 1 203 7 MPD MPD . R 3 MPD B 1 204 9 MPD MPD . S 3 MPD B 1 205 13 MPD MPD . T 3 MPD B 1 206 16 MPD MPD . U 3 MPD B 1 207 17 MPD MPD . V 3 MPD B 1 208 20 MPD MPD . W 3 MPD B 1 209 21 MPD MPD . X 3 MPD B 1 210 22 MPD MPD . Y 4 K B 1 211 7 K K . Z 4 K B 1 212 8 K K . AA 4 K B 1 213 9 K K . BA 4 K B 1 214 10 K K . CA 4 K B 1 215 11 K K . DA 4 K B 1 216 12 K K . EA 5 HOH A 1 301 3 HOH HOH . EA 5 HOH A 2 302 11 HOH HOH . EA 5 HOH A 3 303 8 HOH HOH . EA 5 HOH A 4 304 12 HOH HOH . EA 5 HOH A 5 305 13 HOH HOH . EA 5 HOH A 6 306 68 HOH HOH . EA 5 HOH A 7 307 66 HOH HOH . EA 5 HOH A 8 308 63 HOH HOH . EA 5 HOH A 9 309 15 HOH HOH . EA 5 HOH A 10 310 14 HOH HOH . EA 5 HOH A 11 311 53 HOH HOH . EA 5 HOH A 12 312 9 HOH HOH . EA 5 HOH A 13 313 25 HOH HOH . EA 5 HOH A 14 314 10 HOH HOH . EA 5 HOH A 15 315 21 HOH HOH . EA 5 HOH A 16 316 62 HOH HOH . EA 5 HOH A 17 317 49 HOH HOH . EA 5 HOH A 18 318 55 HOH HOH . EA 5 HOH A 19 319 67 HOH HOH . EA 5 HOH A 20 320 50 HOH HOH . EA 5 HOH A 21 321 61 HOH HOH . EA 5 HOH A 22 322 57 HOH HOH . EA 5 HOH A 23 323 40 HOH HOH . EA 5 HOH A 24 324 44 HOH HOH . FA 5 HOH B 1 301 24 HOH HOH . FA 5 HOH B 2 302 1 HOH HOH . FA 5 HOH B 3 303 7 HOH HOH . FA 5 HOH B 4 304 65 HOH HOH . FA 5 HOH B 5 305 64 HOH HOH . FA 5 HOH B 6 306 17 HOH HOH . FA 5 HOH B 7 307 4 HOH HOH . FA 5 HOH B 8 308 2 HOH HOH . FA 5 HOH B 9 309 6 HOH HOH . FA 5 HOH B 10 310 54 HOH HOH . FA 5 HOH B 11 311 5 HOH HOH . FA 5 HOH B 12 312 22 HOH HOH . FA 5 HOH B 13 313 60 HOH HOH . FA 5 HOH B 14 314 38 HOH HOH . FA 5 HOH B 15 315 45 HOH HOH . FA 5 HOH B 16 316 16 HOH HOH . FA 5 HOH B 17 317 48 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 . . . H 3 19.301 -1.846 45.732 1 69.69 ? C1 MPD 205 A 1 HETATM 2 C C2 MPD . . . H 3 19.41 -2.515 47.097 1 71.75 ? C2 MPD 205 A 1 HETATM 3 O O2 MPD . . . H 3 18.114 -2.487 47.748 1 68.07 ? O2 MPD 205 A 1 HETATM 4 C CM MPD . . . H 3 19.837 -3.965 46.91 1 67.9 ? CM MPD 205 A 1 HETATM 5 C C3 MPD . . . H 3 20.421 -1.786 47.975 1 73.81 ? C3 MPD 205 A 1 HETATM 6 C C4 MPD . . . H 3 19.867 -0.473 48.518 1 74.31 ? C4 MPD 205 A 1 HETATM 7 O O4 MPD . . . H 3 18.655 -0.155 47.871 1 84.06 ? O4 MPD 205 A 1 HETATM 8 C C5 MPD . . . H 3 19.634 -0.546 50.023 1 64.96 ? C5 MPD 205 A 1 HETATM 9 H H11 MPD . . . H 3 19.749 -0.853 45.777 1 83.63 ? H11 MPD 205 A 1 HETATM 10 H H12 MPD . . . H 3 18.251 -1.759 45.453 1 83.63 ? H12 MPD 205 A 1 HETATM 11 H H13 MPD . . . H 3 19.826 -2.448 44.99 1 83.63 ? H13 MPD 205 A 1 HETATM 12 H HO2 MPD . . . H 3 18.233 -2.317 48.706 1 81.68 ? HO2 MPD 205 A 1 HETATM 13 H HM1 MPD . . . H 3 20.904 -4.058 47.111 1 81.48 ? HM1 MPD 205 A 1 HETATM 14 H HM2 MPD . . . H 3 19.632 -4.275 45.885 1 81.48 ? HM2 MPD 205 A 1 HETATM 15 H HM3 MPD . . . H 3 19.281 -4.599 47.6 1 81.48 ? HM3 MPD 205 A 1 HETATM 16 H H31 MPD . . . H 3 20.701 -2.429 48.809 1 88.57 ? H31 MPD 205 A 1 HETATM 17 H H32 MPD . . . H 3 21.32 -1.582 47.393 1 88.57 ? H32 MPD 205 A 1 HETATM 18 H H4 MPD . . . H 3 20.602 0.307 48.319 1 89.17 ? H4 MPD 205 A 1 HETATM 19 H HO4 MPD . . . H 3 17.902 -0.464 48.417 1 100.87 ? HO4 MPD 205 A 1 HETATM 20 H H51 MPD . . . H 3 18.708 -0.028 50.273 1 77.95 ? H51 MPD 205 A 1 HETATM 21 H H52 MPD . . . H 3 20.467 -0.072 50.543 1 77.95 ? H52 MPD 205 A 1 HETATM 22 H H53 MPD . . . H 3 19.561 -1.59 50.329 1 77.95 ? H53 MPD 205 A 1 # _model_server_stats.io_time_ms 54 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 22 #