data_7OPH # _model_server_result.job_id mIHchaUsV6tkh9OK673M8Q _model_server_result.datetime_utc '2025-09-04 18:59:00' _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 7oph # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":209}' # _entry.id 7OPH # _exptl.entry_id 7OPH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4R)-2-METHYLPENTANE-2,4-DIOL _entity.pdbx_number_of_molecules 6 _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 7OPH _cell.length_a 81.13 _cell.length_b 88.021 _cell.length_c 49.313 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7OPH _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall 'C 2c 2' _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # 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,R,S,T,U,V,W,X,Y,Z,AA,BA,CA 1 1 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA 1 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' 3_554 -x,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 0 -24.6565 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 K N N ? 5 L N N ? 5 M N N ? 5 N N N ? 5 O N N ? 5 AA 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 C K K . A K 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.918 ? metalc ? metalc2 A OG1 THR 46 A THR 63 1_555 C K K . A K 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.732 ? metalc ? metalc3 A O THR 46 A THR 63 1_555 C K K . A K 201 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.929 ? metalc ? metalc4 A OG1 THR 46 A THR 63 1_555 C K K . A K 201 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.746 ? metalc ? metalc5 A O THR 46 A THR 63 1_555 P K K . B K 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.918 ? metalc ? metalc6 A O THR 46 A THR 63 1_555 P K K . B K 201 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.638 ? metalc ? metalc7 A O VAL 47 A VAL 64 1_555 F K K . A K 204 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.832 ? metalc ? metalc8 A O VAL 47 A VAL 64 1_555 P K K . B K 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.943 ? metalc ? metalc9 A O VAL 47 A VAL 64 1_555 P K K . B K 201 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.772 ? metalc ? metalc10 A O GLY 48 A GLY 65 1_555 F K K . A K 204 1_555 ? ? ? ? A ? ? ? ? ? ? ? 3.086 ? metalc ? metalc11 A O GLY 48 A GLY 65 1_555 F K K . A K 204 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.955 ? metalc ? metalc12 A O SER 49 A SER 66 1_555 Q K K . B K 202 3_554 ? ? ? ? B ? ? ? ? ? ? ? 2.792 ? metalc ? metalc13 A O SER 49 A SER 66 1_555 Q K K . B K 202 3_554 ? ? ? ? A ? ? ? ? ? ? ? 2.893 ? metalc ? metalc14 A O SER 52 A SER 69 1_555 D K K . A K 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.907 ? metalc ? metalc15 A OG SER 52 A SER 69 1_555 D K K . A K 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.83 ? metalc ? metalc16 A O PRO 53 A PRO 70 1_555 D K K . A K 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.259 ? metalc ? metalc17 C K K . A K 201 1_555 B O THR 46 B THR 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.863 ? metalc ? metalc18 C K K . A K 201 1_555 B OG1 THR 46 B THR 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.769 ? metalc ? metalc19 C K K . A K 201 3_554 B O THR 46 B THR 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.868 ? metalc ? metalc20 C K K . A K 201 3_554 B OG1 THR 46 B THR 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.775 ? metalc ? metalc21 D K K . A K 202 1_555 BA O HOH . A HOH 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.044 ? metalc ? metalc22 D K K . A K 202 1_555 BA O HOH . A HOH 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? metalc ? metalc23 E K K . A K 203 1_555 CA O HOH . B HOH 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.852 ? metalc ? metalc24 E K K . A K 203 1_555 CA O HOH . B HOH 320 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.85 ? metalc ? metalc25 F K K . A K 204 1_555 BA O HOH . A HOH 312 1_555 ? B ? ? ? ? ? ? ? ? ? ? 3.244 ? metalc ? metalc26 F K K . A K 204 1_555 B O SER 49 B SER 66 1_555 ? B ? ? B ? ? ? ? ? ? ? 3.172 ? metalc ? metalc27 F K K . A K 204 1_555 CA O HOH . B HOH 305 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.754 ? metalc ? metalc28 F K K . A K 204 1_555 CA O HOH . B HOH 319 1_555 ? B ? ? B ? ? ? ? ? ? ? 3.205 ? metalc ? metalc29 B O THR 46 B THR 63 1_555 P K K . B K 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.784 ? metalc ? metalc30 B O THR 46 B THR 63 1_555 P K K . B K 201 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.913 ? metalc ? metalc31 B O VAL 47 B VAL 64 1_555 P K K . B K 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? metalc ? metalc32 B O VAL 47 B VAL 64 1_555 P K K . B K 201 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.985 ? metalc ? metalc33 B O GLY 48 B GLY 65 1_555 Q K K . B K 202 1_555 ? ? ? ? A ? ? ? ? ? ? ? 3.374 ? metalc ? metalc34 B O SER 49 B SER 66 1_555 Q K K . B K 202 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.884 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MRD _chem_comp.mon_nstd_flag . _chem_comp.name (4R)-2-METHYLPENTANE-2,4-DIOL _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 MRD sing 245 n n C1 H1C1 MRD sing 246 n n C1 H1C2 MRD sing 247 n n C1 H1C3 MRD sing 248 n n C2 O2 MRD sing 249 n n C2 CM MRD sing 250 n n C2 C3 MRD sing 251 n n O2 H2 MRD sing 252 n n CM HMC1 MRD sing 253 n n CM HMC2 MRD sing 254 n n CM HMC3 MRD sing 255 n n C3 C4 MRD sing 256 n n C3 H3C1 MRD sing 257 n n C3 H3C2 MRD sing 258 n n C4 O4 MRD sing 259 n n C4 C5 MRD sing 260 n n C4 H4 MRD sing 261 n n O4 HA MRD sing 262 n n C5 H5C1 MRD sing 263 n n C5 H5C2 MRD sing 264 n n C5 H5C3 MRD sing 265 n n # _atom_sites.entry_id 7OPH _atom_sites.fract_transf_matrix[1][1] 0.012326 _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] 0.011361 _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] 0.020279 _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 K A 1 201 1 K K . D 2 K A 1 202 4 K K . E 2 K A 1 203 5 K K . F 2 K A 1 204 6 K K . G 3 MPD A 1 205 3 MPD MPD . H 3 MPD A 1 206 11 MPD MPD . I 3 MPD A 1 207 12 MPD MPD . J 4 CL A 1 208 1 CL CL . K 5 MRD A 1 209 3 MRD MRD . L 5 MRD A 1 210 4 MRD MRD . M 5 MRD A 1 211 5 MRD MRD . N 5 MRD A 1 212 7 MRD MRD . O 5 MRD A 1 213 8 MRD MRD . P 2 K B 1 201 2 K K . Q 2 K B 1 202 7 K K . R 3 MPD B 1 203 1 MPD MPD . S 3 MPD B 1 204 2 MPD MPD . T 3 MPD B 1 205 5 MPD MPD . U 3 MPD B 1 206 6 MPD MPD . V 3 MPD B 1 207 7 MPD MPD . W 3 MPD B 1 208 8 MPD MPD . X 3 MPD B 1 209 9 MPD MPD . Y 3 MPD B 1 210 10 MPD MPD . Z 4 CL B 1 211 2 CL CL . AA 5 MRD B 1 212 6 MRD MRD . BA 6 HOH A 1 301 40 HOH HOH . BA 6 HOH A 2 302 39 HOH HOH . BA 6 HOH A 3 303 36 HOH HOH . BA 6 HOH A 4 304 80 HOH HOH . BA 6 HOH A 5 305 16 HOH HOH . BA 6 HOH A 6 306 74 HOH HOH . BA 6 HOH A 7 307 13 HOH HOH . BA 6 HOH A 8 308 12 HOH HOH . BA 6 HOH A 9 309 11 HOH HOH . BA 6 HOH A 10 310 6 HOH HOH . BA 6 HOH A 11 311 56 HOH HOH . BA 6 HOH A 12 312 10 HOH HOH . BA 6 HOH A 13 313 35 HOH HOH . BA 6 HOH A 14 314 26 HOH HOH . BA 6 HOH A 15 315 14 HOH HOH . BA 6 HOH A 16 316 4 HOH HOH . BA 6 HOH A 17 317 30 HOH HOH . BA 6 HOH A 18 318 15 HOH HOH . BA 6 HOH A 19 319 63 HOH HOH . BA 6 HOH A 20 320 5 HOH HOH . BA 6 HOH A 21 321 49 HOH HOH . BA 6 HOH A 22 322 59 HOH HOH . BA 6 HOH A 23 323 29 HOH HOH . BA 6 HOH A 24 324 91 HOH HOH . BA 6 HOH A 25 325 61 HOH HOH . BA 6 HOH A 26 326 17 HOH HOH . BA 6 HOH A 27 327 24 HOH HOH . BA 6 HOH A 28 328 58 HOH HOH . BA 6 HOH A 29 329 85 HOH HOH . BA 6 HOH A 30 330 50 HOH HOH . BA 6 HOH A 31 331 83 HOH HOH . BA 6 HOH A 32 332 96 HOH HOH . BA 6 HOH A 33 333 43 HOH HOH . BA 6 HOH A 34 334 88 HOH HOH . BA 6 HOH A 35 335 76 HOH HOH . BA 6 HOH A 36 336 65 HOH HOH . BA 6 HOH A 37 337 73 HOH HOH . BA 6 HOH A 38 338 54 HOH HOH . BA 6 HOH A 39 339 33 HOH HOH . BA 6 HOH A 40 340 81 HOH HOH . BA 6 HOH A 41 341 62 HOH HOH . CA 6 HOH B 1 301 41 HOH HOH . CA 6 HOH B 2 302 20 HOH HOH . CA 6 HOH B 3 303 21 HOH HOH . CA 6 HOH B 4 304 31 HOH HOH . CA 6 HOH B 5 305 18 HOH HOH . CA 6 HOH B 6 306 19 HOH HOH . CA 6 HOH B 7 307 42 HOH HOH . CA 6 HOH B 8 308 9 HOH HOH . CA 6 HOH B 9 309 2 HOH HOH . CA 6 HOH B 10 310 1 HOH HOH . CA 6 HOH B 11 311 22 HOH HOH . CA 6 HOH B 12 312 47 HOH HOH . CA 6 HOH B 13 313 8 HOH HOH . CA 6 HOH B 14 314 51 HOH HOH . CA 6 HOH B 15 315 25 HOH HOH . CA 6 HOH B 16 316 23 HOH HOH . CA 6 HOH B 17 317 46 HOH HOH . CA 6 HOH B 18 318 3 HOH HOH . CA 6 HOH B 19 319 7 HOH HOH . CA 6 HOH B 20 320 28 HOH HOH . CA 6 HOH B 21 321 44 HOH HOH . CA 6 HOH B 22 322 27 HOH HOH . CA 6 HOH B 23 323 52 HOH HOH . CA 6 HOH B 24 324 64 HOH HOH . CA 6 HOH B 25 325 77 HOH HOH . CA 6 HOH B 26 326 45 HOH HOH . CA 6 HOH B 27 327 53 HOH HOH . CA 6 HOH B 28 328 34 HOH HOH . CA 6 HOH B 29 329 92 HOH HOH . CA 6 HOH B 30 330 37 HOH HOH . CA 6 HOH B 31 331 32 HOH HOH . CA 6 HOH B 32 332 86 HOH HOH . CA 6 HOH B 33 333 67 HOH HOH . CA 6 HOH B 34 334 69 HOH HOH . CA 6 HOH B 35 335 60 HOH HOH . CA 6 HOH B 36 336 48 HOH HOH . CA 6 HOH B 37 337 94 HOH HOH . CA 6 HOH B 38 338 68 HOH HOH . CA 6 HOH B 39 339 38 HOH HOH . CA 6 HOH B 40 340 57 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 MRD . . . K 5 16.413 26.342 3.179 1 63.99 ? C1 MRD 209 A 1 HETATM 2 C C2 MRD . . . K 5 15.818 26.086 1.784 1 63.86 ? C2 MRD 209 A 1 HETATM 3 O O2 MRD . . . K 5 15.38 27.311 1.265 1 64.73 ? O2 MRD 209 A 1 HETATM 4 C CM MRD . . . K 5 16.846 25.588 0.816 1 63.09 ? CM MRD 209 A 1 HETATM 5 C C3 MRD . . . K 5 14.66 25.015 1.887 1 62.69 ? C3 MRD 209 A 1 HETATM 6 C C4 MRD . . . K 5 15.142 23.565 1.91 1 60.25 ? C4 MRD 209 A 1 HETATM 7 O O4 MRD . . . K 5 14.049 22.671 1.871 1 58.13 ? O4 MRD 209 A 1 HETATM 8 C C5 MRD . . . K 5 16.016 23.286 3.101 1 59.44 ? C5 MRD 209 A 1 HETATM 9 H H1C1 MRD . . . K 5 16.573 27.285 3.341 1 76.79 ? H1C1 MRD 209 A 1 HETATM 10 H H1C2 MRD . . . K 5 15.829 26.032 3.888 1 76.79 ? H1C2 MRD 209 A 1 HETATM 11 H H1C3 MRD . . . K 5 17.263 25.89 3.302 1 76.79 ? H1C3 MRD 209 A 1 HETATM 12 H H2 MRD . . . K 5 16.055 27.831 1.26 1 77.68 ? H2 MRD 209 A 1 HETATM 13 H HMC1 MRD . . . K 5 16.407 25.272 0.011 1 75.71 ? HMC1 MRD 209 A 1 HETATM 14 H HMC2 MRD . . . K 5 17.455 26.308 0.59 1 75.71 ? HMC2 MRD 209 A 1 HETATM 15 H HMC3 MRD . . . K 5 17.344 24.859 1.218 1 75.71 ? HMC3 MRD 209 A 1 HETATM 16 H H3C1 MRD . . . K 5 14.037 25.117 1.151 1 75.23 ? H3C1 MRD 209 A 1 HETATM 17 H H3C2 MRD . . . K 5 14.122 25.17 2.679 1 75.23 ? H3C2 MRD 209 A 1 HETATM 18 H H4 MRD . . . K 5 15.652 23.394 1.103 1 72.3 ? H4 MRD 209 A 1 HETATM 19 H HA MRD . . . K 5 13.336 23.123 2.017 1 69.75 ? HA MRD 209 A 1 HETATM 20 H H5C1 MRD . . . K 5 16.068 22.332 3.265 1 71.33 ? H5C1 MRD 209 A 1 HETATM 21 H H5C2 MRD . . . K 5 16.913 23.623 2.948 1 71.33 ? H5C2 MRD 209 A 1 HETATM 22 H H5C3 MRD . . . K 5 15.656 23.716 3.892 1 71.33 ? H5C3 MRD 209 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 255 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 22 #