data_6ZFL # _model_server_result.job_id J6VahtwfYD0eXhrvzbrNKw _model_server_result.datetime_utc '2025-07-04 08:44:53' _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 6zfl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 6ZFL # _exptl.entry_id 6ZFL _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 90 _cell.entry_id 6ZFL _cell.length_a 88.34 _cell.length_b 88.34 _cell.length_c 40.489 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6ZFL _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall 'P 4w' _symmetry.space_group_name_H-M 'P 41' # _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,I,J,K _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 F N N ? 2 G 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 V CYS 26 1_555 A SG CYS 57 V CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? disulf ? disulf2 A SG CYS 40 V CYS 51 1_555 B SG CYS 49 W CYS 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? disulf ? disulf3 A SG CYS 46 V CYS 57 1_555 A SG CYS 91 V CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 A SG CYS 49 V CYS 60 1_555 B SG CYS 40 W CYS 51 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? disulf ? disulf5 A SG CYS 50 V CYS 61 1_555 A SG CYS 93 V CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? disulf ? disulf6 B SG CYS 15 W CYS 26 1_555 B SG CYS 57 W CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? disulf ? disulf7 B SG CYS 46 W CYS 57 1_555 B SG CYS 91 W CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf8 B SG CYS 50 W CYS 61 1_555 B SG CYS 93 W CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? # _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 225 n n C1 H11 MPD sing 226 n n C1 H12 MPD sing 227 n n C1 H13 MPD sing 228 n n C2 O2 MPD sing 229 n n C2 CM MPD sing 230 n n C2 C3 MPD sing 231 n n O2 HO2 MPD sing 232 n n CM HM1 MPD sing 233 n n CM HM2 MPD sing 234 n n CM HM3 MPD sing 235 n n C3 C4 MPD sing 236 n n C3 H31 MPD sing 237 n n C3 H32 MPD sing 238 n n C4 O4 MPD sing 239 n n C4 C5 MPD sing 240 n n C4 H4 MPD sing 241 n n O4 HO4 MPD sing 242 n n C5 H51 MPD sing 243 n n C5 H52 MPD sing 244 n n C5 H53 MPD sing 245 n n # _atom_sites.entry_id 6ZFL _atom_sites.fract_transf_matrix[1][1] 0.01132 _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] 0.01132 _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] 0.024698 _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 V 1 201 3 MPD MPD . D 2 MPD V 1 202 4 MPD MPD . E 3 PO4 V 1 203 6 PO4 PO4 . F 2 MPD W 1 201 1 MPD MPD . G 2 MPD W 1 202 2 MPD MPD . H 3 PO4 W 1 203 5 PO4 PO4 . I 3 PO4 W 1 204 7 PO4 PO4 . J 4 HOH V 1 301 178 HOH HOH . J 4 HOH V 2 302 25 HOH HOH . J 4 HOH V 3 303 216 HOH HOH . J 4 HOH V 4 304 173 HOH HOH . J 4 HOH V 5 305 140 HOH HOH . J 4 HOH V 6 306 12 HOH HOH . J 4 HOH V 7 307 24 HOH HOH . J 4 HOH V 8 308 189 HOH HOH . J 4 HOH V 9 309 105 HOH HOH . J 4 HOH V 10 310 62 HOH HOH . J 4 HOH V 11 311 3 HOH HOH . J 4 HOH V 12 312 175 HOH HOH . J 4 HOH V 13 313 181 HOH HOH . J 4 HOH V 14 314 70 HOH HOH . J 4 HOH V 15 315 192 HOH HOH . J 4 HOH V 16 316 71 HOH HOH . J 4 HOH V 17 317 61 HOH HOH . J 4 HOH V 18 318 159 HOH HOH . J 4 HOH V 19 319 75 HOH HOH . J 4 HOH V 20 320 64 HOH HOH . J 4 HOH V 21 321 101 HOH HOH . J 4 HOH V 22 322 119 HOH HOH . J 4 HOH V 23 323 63 HOH HOH . J 4 HOH V 24 324 53 HOH HOH . J 4 HOH V 25 325 144 HOH HOH . J 4 HOH V 26 326 97 HOH HOH . J 4 HOH V 27 327 219 HOH HOH . J 4 HOH V 28 328 102 HOH HOH . J 4 HOH V 29 329 18 HOH HOH . J 4 HOH V 30 330 116 HOH HOH . J 4 HOH V 31 331 27 HOH HOH . J 4 HOH V 32 332 74 HOH HOH . J 4 HOH V 33 333 38 HOH HOH . J 4 HOH V 34 334 156 HOH HOH . J 4 HOH V 35 335 123 HOH HOH . J 4 HOH V 36 336 72 HOH HOH . J 4 HOH V 37 337 31 HOH HOH . J 4 HOH V 38 338 90 HOH HOH . J 4 HOH V 39 339 16 HOH HOH . J 4 HOH V 40 340 1 HOH HOH . J 4 HOH V 41 341 51 HOH HOH . J 4 HOH V 42 342 103 HOH HOH . J 4 HOH V 43 343 2 HOH HOH . J 4 HOH V 44 344 39 HOH HOH . J 4 HOH V 45 345 117 HOH HOH . J 4 HOH V 46 346 149 HOH HOH . J 4 HOH V 47 347 124 HOH HOH . J 4 HOH V 48 348 160 HOH HOH . J 4 HOH V 49 349 35 HOH HOH . J 4 HOH V 50 350 28 HOH HOH . J 4 HOH V 51 351 115 HOH HOH . J 4 HOH V 52 352 4 HOH HOH . J 4 HOH V 53 353 55 HOH HOH . J 4 HOH V 54 354 196 HOH HOH . J 4 HOH V 55 355 40 HOH HOH . J 4 HOH V 56 356 217 HOH HOH . J 4 HOH V 57 357 96 HOH HOH . J 4 HOH V 58 358 125 HOH HOH . J 4 HOH V 59 359 69 HOH HOH . J 4 HOH V 60 360 7 HOH HOH . J 4 HOH V 61 361 184 HOH HOH . J 4 HOH V 62 362 84 HOH HOH . J 4 HOH V 63 363 170 HOH HOH . J 4 HOH V 64 364 112 HOH HOH . J 4 HOH V 65 365 130 HOH HOH . J 4 HOH V 66 366 141 HOH HOH . J 4 HOH V 67 367 65 HOH HOH . J 4 HOH V 68 368 223 HOH HOH . J 4 HOH V 69 369 98 HOH HOH . J 4 HOH V 70 370 33 HOH HOH . J 4 HOH V 71 371 22 HOH HOH . J 4 HOH V 72 372 208 HOH HOH . J 4 HOH V 73 373 26 HOH HOH . J 4 HOH V 74 374 48 HOH HOH . J 4 HOH V 75 375 186 HOH HOH . J 4 HOH V 76 376 138 HOH HOH . J 4 HOH V 77 377 77 HOH HOH . J 4 HOH V 78 378 163 HOH HOH . J 4 HOH V 79 379 88 HOH HOH . J 4 HOH V 80 380 133 HOH HOH . J 4 HOH V 81 381 129 HOH HOH . J 4 HOH V 82 382 135 HOH HOH . J 4 HOH V 83 383 177 HOH HOH . J 4 HOH V 84 384 95 HOH HOH . J 4 HOH V 85 385 94 HOH HOH . J 4 HOH V 86 386 134 HOH HOH . J 4 HOH V 87 387 113 HOH HOH . J 4 HOH V 88 388 107 HOH HOH . J 4 HOH V 89 389 50 HOH HOH . J 4 HOH V 90 390 132 HOH HOH . J 4 HOH V 91 391 128 HOH HOH . J 4 HOH V 92 392 46 HOH HOH . J 4 HOH V 93 393 167 HOH HOH . J 4 HOH V 94 394 218 HOH HOH . J 4 HOH V 95 395 162 HOH HOH . J 4 HOH V 96 396 174 HOH HOH . J 4 HOH V 97 397 171 HOH HOH . J 4 HOH V 98 398 82 HOH HOH . J 4 HOH V 99 399 118 HOH HOH . K 4 HOH W 1 301 15 HOH HOH . K 4 HOH W 2 302 154 HOH HOH . K 4 HOH W 3 303 121 HOH HOH . K 4 HOH W 4 304 87 HOH HOH . K 4 HOH W 5 305 60 HOH HOH . K 4 HOH W 6 306 169 HOH HOH . K 4 HOH W 7 307 76 HOH HOH . K 4 HOH W 8 308 30 HOH HOH . K 4 HOH W 9 309 190 HOH HOH . K 4 HOH W 10 310 111 HOH HOH . K 4 HOH W 11 311 13 HOH HOH . K 4 HOH W 12 312 187 HOH HOH . K 4 HOH W 13 313 143 HOH HOH . K 4 HOH W 14 314 153 HOH HOH . K 4 HOH W 15 315 191 HOH HOH . K 4 HOH W 16 316 73 HOH HOH . K 4 HOH W 17 317 99 HOH HOH . K 4 HOH W 18 318 21 HOH HOH . K 4 HOH W 19 319 43 HOH HOH . K 4 HOH W 20 320 161 HOH HOH . K 4 HOH W 21 321 93 HOH HOH . K 4 HOH W 22 322 147 HOH HOH . K 4 HOH W 23 323 142 HOH HOH . K 4 HOH W 24 324 66 HOH HOH . K 4 HOH W 25 325 23 HOH HOH . K 4 HOH W 26 326 176 HOH HOH . K 4 HOH W 27 327 9 HOH HOH . K 4 HOH W 28 328 56 HOH HOH . K 4 HOH W 29 329 52 HOH HOH . K 4 HOH W 30 330 126 HOH HOH . K 4 HOH W 31 331 68 HOH HOH . K 4 HOH W 32 332 127 HOH HOH . K 4 HOH W 33 333 14 HOH HOH . K 4 HOH W 34 334 11 HOH HOH . K 4 HOH W 35 335 139 HOH HOH . K 4 HOH W 36 336 78 HOH HOH . K 4 HOH W 37 337 137 HOH HOH . K 4 HOH W 38 338 59 HOH HOH . K 4 HOH W 39 339 17 HOH HOH . K 4 HOH W 40 340 131 HOH HOH . K 4 HOH W 41 341 80 HOH HOH . K 4 HOH W 42 342 81 HOH HOH . K 4 HOH W 43 343 36 HOH HOH . K 4 HOH W 44 344 10 HOH HOH . K 4 HOH W 45 345 148 HOH HOH . K 4 HOH W 46 346 20 HOH HOH . K 4 HOH W 47 347 193 HOH HOH . K 4 HOH W 48 348 8 HOH HOH . K 4 HOH W 49 349 32 HOH HOH . K 4 HOH W 50 350 6 HOH HOH . K 4 HOH W 51 351 54 HOH HOH . K 4 HOH W 52 352 197 HOH HOH . K 4 HOH W 53 353 57 HOH HOH . K 4 HOH W 54 354 19 HOH HOH . K 4 HOH W 55 355 165 HOH HOH . K 4 HOH W 56 356 166 HOH HOH . K 4 HOH W 57 357 151 HOH HOH . K 4 HOH W 58 358 106 HOH HOH . K 4 HOH W 59 359 204 HOH HOH . K 4 HOH W 60 360 168 HOH HOH . K 4 HOH W 61 361 34 HOH HOH . K 4 HOH W 62 362 5 HOH HOH . K 4 HOH W 63 363 182 HOH HOH . K 4 HOH W 64 364 85 HOH HOH . K 4 HOH W 65 365 29 HOH HOH . K 4 HOH W 66 366 79 HOH HOH . K 4 HOH W 67 367 146 HOH HOH . K 4 HOH W 68 368 157 HOH HOH . K 4 HOH W 69 369 44 HOH HOH . K 4 HOH W 70 370 49 HOH HOH . K 4 HOH W 71 371 37 HOH HOH . K 4 HOH W 72 372 104 HOH HOH . K 4 HOH W 73 373 91 HOH HOH . K 4 HOH W 74 374 179 HOH HOH . K 4 HOH W 75 375 200 HOH HOH . K 4 HOH W 76 376 207 HOH HOH . K 4 HOH W 77 377 194 HOH HOH . K 4 HOH W 78 378 185 HOH HOH . K 4 HOH W 79 379 42 HOH HOH . K 4 HOH W 80 380 206 HOH HOH . K 4 HOH W 81 381 110 HOH HOH . K 4 HOH W 82 382 180 HOH HOH . K 4 HOH W 83 383 100 HOH HOH . K 4 HOH W 84 384 47 HOH HOH . K 4 HOH W 85 385 109 HOH HOH . K 4 HOH W 86 386 198 HOH HOH . K 4 HOH W 87 387 201 HOH HOH . K 4 HOH W 88 388 195 HOH HOH . K 4 HOH W 89 389 203 HOH HOH . K 4 HOH W 90 390 120 HOH HOH . K 4 HOH W 91 391 164 HOH HOH . K 4 HOH W 92 392 86 HOH HOH . K 4 HOH W 93 393 108 HOH HOH . K 4 HOH W 94 394 89 HOH HOH . K 4 HOH W 95 395 210 HOH HOH . K 4 HOH W 96 396 114 HOH HOH . K 4 HOH W 97 397 188 HOH HOH . K 4 HOH W 98 398 122 HOH HOH . K 4 HOH W 99 399 136 HOH HOH . K 4 HOH W 100 400 67 HOH HOH . K 4 HOH W 101 401 145 HOH HOH . K 4 HOH W 102 402 92 HOH HOH . K 4 HOH W 103 403 199 HOH HOH . K 4 HOH W 104 404 158 HOH HOH . K 4 HOH W 105 405 45 HOH HOH . K 4 HOH W 106 406 58 HOH HOH . K 4 HOH W 107 407 83 HOH HOH . K 4 HOH W 108 408 41 HOH HOH . K 4 HOH W 109 409 155 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 . . . C 2 17.341 27.173 21.966 1 53.54 ? C1 MPD 201 V 1 HETATM 2 C C2 MPD . . . C 2 17.537 28.29 20.953 1 48.26 ? C2 MPD 201 V 1 HETATM 3 O O2 MPD . . . C 2 16.458 29.249 21.064 1 48.04 ? O2 MPD 201 V 1 HETATM 4 C CM MPD . . . C 2 17.537 27.725 19.534 1 47.82 ? CM MPD 201 V 1 HETATM 5 C C3 MPD . . . C 2 18.846 28.974 21.322 1 44.91 ? C3 MPD 201 V 1 HETATM 6 C C4 MPD . . . C 2 19.248 30.057 20.345 1 42.75 ? C4 MPD 201 V 1 HETATM 7 O O4 MPD . . . C 2 18.384 31.161 20.496 1 38.97 ? O4 MPD 201 V 1 HETATM 8 C C5 MPD . . . C 2 20.67 30.486 20.65 1 34.7 ? C5 MPD 201 V 1 HETATM 9 H H11 MPD . . . C 2 18.051 27.296 22.783 1 64.26 ? H11 MPD 201 V 1 HETATM 10 H H12 MPD . . . C 2 17.51 26.206 21.493 1 64.26 ? H12 MPD 201 V 1 HETATM 11 H H13 MPD . . . C 2 16.325 27.213 22.359 1 64.26 ? H13 MPD 201 V 1 HETATM 12 H HO2 MPD . . . C 2 16.816 30.112 21.36 1 57.66 ? HO2 MPD 201 V 1 HETATM 13 H HM1 MPD . . . C 2 18.563 27.555 19.209 1 57.4 ? HM1 MPD 201 V 1 HETATM 14 H HM2 MPD . . . C 2 17.064 28.443 18.864 1 57.4 ? HM2 MPD 201 V 1 HETATM 15 H HM3 MPD . . . C 2 16.982 26.788 19.502 1 57.4 ? HM3 MPD 201 V 1 HETATM 16 H H31 MPD . . . C 2 19.637 28.226 21.367 1 53.91 ? H31 MPD 201 V 1 HETATM 17 H H32 MPD . . . C 2 18.751 29.412 22.316 1 53.91 ? H32 MPD 201 V 1 HETATM 18 H H4 MPD . . . C 2 19.209 29.681 19.324 1 51.32 ? H4 MPD 201 V 1 HETATM 19 H HO4 MPD . . . C 2 18.446 31.502 21.413 1 46.78 ? HO4 MPD 201 V 1 HETATM 20 H H51 MPD . . . C 2 20.735 31.571 20.597 1 41.66 ? H51 MPD 201 V 1 HETATM 21 H H52 MPD . . . C 2 21.349 30.044 19.921 1 41.66 ? H52 MPD 201 V 1 HETATM 22 H H53 MPD . . . C 2 20.944 30.154 21.651 1 41.66 ? H53 MPD 201 V 1 # _model_server_stats.io_time_ms 68 _model_server_stats.parse_time_ms 44 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 1014 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 22 #