data_1PZN # _model_server_result.job_id CBHjDU8thqvJEVT2xqTexg _model_server_result.datetime_utc '2024-11-24 18:46:01' _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 1pzn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"IA","auth_seq_id":377}' # _entry.id 1PZN # _exptl.entry_id 1PZN _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 (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 1PZN _cell.length_a 144.163 _cell.length_b 193.124 _cell.length_c 176.93 _cell.Z_PDB 56 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1PZN _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? tetradecameric 14 author_defined_assembly 1 PISA,PQS heptameric 7 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,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,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA 1 1,2 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,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA 2 1 # 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_353 -x-2,y,-z-3/2 -1 0 0 0 1 0 0 0 -1 -288.326 0 -265.395 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 S N N ? 5 BA N N ? 5 IA N N ? 5 JA 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 covale ? covale1 A C PHE 97 A PHE 97 1_555 A N MSE 98 A MSE 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale2 A C MSE 98 A MSE 98 1_555 A N ARG 99 A ARG 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale3 A C VAL 153 A VAL 153 1_555 A N MSE 154 A MSE 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 A C MSE 154 A MSE 154 1_555 A N VAL 155 A VAL 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale5 A C GLN 211 A GLN 211 1_555 A N MSE 212 A MSE 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale6 A C MSE 212 A MSE 212 1_555 A N LEU 213 A LEU 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? covale ? covale7 B C PHE 97 B PHE 97 1_555 B N MSE 98 B MSE 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale8 B C MSE 98 B MSE 98 1_555 B N ARG 99 B ARG 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale9 B C VAL 153 B VAL 153 1_555 B N MSE 154 B MSE 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale10 B C MSE 154 B MSE 154 1_555 B N VAL 155 B VAL 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale11 B C GLN 211 B GLN 211 1_555 B N MSE 212 B MSE 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale12 B C MSE 212 B MSE 212 1_555 B N LEU 213 B LEU 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale13 C C PHE 97 C PHE 97 1_555 C N MSE 98 C MSE 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale14 C C MSE 98 C MSE 98 1_555 C N ARG 99 C ARG 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale15 C C VAL 153 C VAL 153 1_555 C N MSE 154 C MSE 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale16 C C MSE 154 C MSE 154 1_555 C N VAL 155 C VAL 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale17 C C GLN 211 C GLN 211 1_555 C N MSE 212 C MSE 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale18 C C MSE 212 C MSE 212 1_555 C N LEU 213 C LEU 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale19 D C PHE 97 D PHE 97 1_555 D N MSE 98 D MSE 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale20 D C MSE 98 D MSE 98 1_555 D N ARG 99 D ARG 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale21 D C VAL 153 D VAL 153 1_555 D N MSE 154 D MSE 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale22 D C MSE 154 D MSE 154 1_555 D N VAL 155 D VAL 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale23 D C GLN 211 D GLN 211 1_555 D N MSE 212 D MSE 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale24 D C MSE 212 D MSE 212 1_555 D N LEU 213 D LEU 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale25 E C PHE 97 E PHE 97 1_555 E N MSE 98 E MSE 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale26 E C MSE 98 E MSE 98 1_555 E N ARG 99 E ARG 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale27 E C VAL 153 E VAL 153 1_555 E N MSE 154 E MSE 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale28 E C MSE 154 E MSE 154 1_555 E N VAL 155 E VAL 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale29 E C GLN 211 E GLN 211 1_555 E N MSE 212 E MSE 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale30 E C MSE 212 E MSE 212 1_555 E N LEU 213 E LEU 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale31 F C PHE 97 F PHE 97 1_555 F N MSE 98 F MSE 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale32 F C MSE 98 F MSE 98 1_555 F N ARG 99 F ARG 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale33 F C VAL 153 F VAL 153 1_555 F N MSE 154 F MSE 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale34 F C MSE 154 F MSE 154 1_555 F N VAL 155 F VAL 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale35 F C GLN 211 F GLN 211 1_555 F N MSE 212 F MSE 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale36 F C MSE 212 F MSE 212 1_555 F N LEU 213 F LEU 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale37 G C PHE 97 G PHE 97 1_555 G N MSE 98 G MSE 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale38 G C MSE 98 G MSE 98 1_555 G N ARG 99 G ARG 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale39 G C VAL 153 G VAL 153 1_555 G N MSE 154 G MSE 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale40 G C MSE 154 G MSE 154 1_555 G N VAL 155 G VAL 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale41 G C GLN 211 G GLN 211 1_555 G N MSE 212 G MSE 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale42 G C MSE 212 G MSE 212 1_555 G N LEU 213 G LEU 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? # _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 247 n n C1 H11 MPD sing 248 n n C1 H12 MPD sing 249 n n C1 H13 MPD sing 250 n n C2 O2 MPD sing 251 n n C2 CM MPD sing 252 n n C2 C3 MPD sing 253 n n O2 HO2 MPD sing 254 n n CM HM1 MPD sing 255 n n CM HM2 MPD sing 256 n n CM HM3 MPD sing 257 n n C3 C4 MPD sing 258 n n C3 H31 MPD sing 259 n n C3 H32 MPD sing 260 n n C4 O4 MPD sing 261 n n C4 C5 MPD sing 262 n n C4 H4 MPD sing 263 n n O4 HO4 MPD sing 264 n n C5 H51 MPD sing 265 n n C5 H52 MPD sing 266 n n C5 H53 MPD sing 267 n n # _atom_sites.entry_id 1PZN _atom_sites.fract_transf_matrix[1][1] 0.006937 _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] 0.005178 _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] 0.005652 _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 H 2 SO4 A 1 350 350 SO4 SO4 . I 3 IMD A 1 357 357 IMD IMD . J 3 IMD A 1 358 358 IMD IMD . K 3 IMD A 1 361 361 IMD IMD . L 3 IMD A 1 364 364 IMD IMD . M 4 GOL A 1 374 374 GOL GOL . N 2 SO4 B 1 351 351 SO4 SO4 . O 3 IMD B 1 359 359 IMD IMD . P 3 IMD B 1 360 360 IMD IMD . Q 3 IMD B 1 365 365 IMD IMD . R 4 GOL B 1 367 367 GOL GOL . S 5 MPD B 1 375 375 MPD MPD . T 2 SO4 C 1 352 352 SO4 SO4 . U 3 IMD C 1 362 362 IMD IMD . V 4 GOL C 1 368 368 GOL GOL . W 4 GOL C 1 370 370 GOL GOL . X 2 SO4 D 1 353 353 SO4 SO4 . Y 4 GOL D 1 369 369 GOL GOL . Z 2 SO4 E 1 354 354 SO4 SO4 . AA 4 GOL E 1 371 371 GOL GOL . BA 5 MPD E 1 376 376 MPD MPD . CA 2 SO4 F 1 355 355 SO4 SO4 . DA 3 IMD F 1 363 363 IMD IMD . EA 4 GOL F 1 366 366 GOL GOL . FA 4 GOL F 1 372 372 GOL GOL . GA 4 GOL F 1 373 373 GOL GOL . HA 2 SO4 G 1 356 356 SO4 SO4 . IA 5 MPD G 1 377 377 MPD MPD . JA 5 MPD G 1 378 378 MPD MPD . KA 6 HOH A 1 389 389 HOH HOH . KA 6 HOH A 2 391 391 HOH HOH . KA 6 HOH A 3 406 406 HOH HOH . KA 6 HOH A 4 407 407 HOH HOH . KA 6 HOH A 5 410 410 HOH HOH . KA 6 HOH A 6 418 418 HOH HOH . KA 6 HOH A 7 419 419 HOH HOH . KA 6 HOH A 8 420 420 HOH HOH . KA 6 HOH A 9 421 421 HOH HOH . KA 6 HOH A 10 422 422 HOH HOH . KA 6 HOH A 11 423 423 HOH HOH . KA 6 HOH A 12 428 428 HOH HOH . KA 6 HOH A 13 429 429 HOH HOH . KA 6 HOH A 14 430 430 HOH HOH . KA 6 HOH A 15 431 431 HOH HOH . KA 6 HOH A 16 432 432 HOH HOH . KA 6 HOH A 17 433 433 HOH HOH . KA 6 HOH A 18 437 437 HOH HOH . KA 6 HOH A 19 442 442 HOH HOH . KA 6 HOH A 20 444 444 HOH HOH . LA 6 HOH B 1 386 386 HOH HOH . LA 6 HOH B 2 390 390 HOH HOH . LA 6 HOH B 3 395 395 HOH HOH . LA 6 HOH B 4 397 397 HOH HOH . LA 6 HOH B 5 424 424 HOH HOH . LA 6 HOH B 6 438 438 HOH HOH . MA 6 HOH C 1 379 379 HOH HOH . MA 6 HOH C 2 384 384 HOH HOH . MA 6 HOH C 3 404 404 HOH HOH . MA 6 HOH C 4 425 425 HOH HOH . MA 6 HOH C 5 426 426 HOH HOH . MA 6 HOH C 6 439 439 HOH HOH . MA 6 HOH C 7 443 443 HOH HOH . NA 6 HOH D 1 385 385 HOH HOH . NA 6 HOH D 2 394 394 HOH HOH . NA 6 HOH D 3 399 399 HOH HOH . NA 6 HOH D 4 402 402 HOH HOH . NA 6 HOH D 5 405 405 HOH HOH . NA 6 HOH D 6 411 411 HOH HOH . NA 6 HOH D 7 414 414 HOH HOH . NA 6 HOH D 8 415 415 HOH HOH . NA 6 HOH D 9 416 416 HOH HOH . NA 6 HOH D 10 427 427 HOH HOH . NA 6 HOH D 11 440 440 HOH HOH . OA 6 HOH E 1 381 381 HOH HOH . OA 6 HOH E 2 387 387 HOH HOH . OA 6 HOH E 3 400 400 HOH HOH . OA 6 HOH E 4 403 403 HOH HOH . OA 6 HOH E 5 408 408 HOH HOH . OA 6 HOH E 6 409 409 HOH HOH . OA 6 HOH E 7 413 413 HOH HOH . OA 6 HOH E 8 417 417 HOH HOH . OA 6 HOH E 9 441 441 HOH HOH . OA 6 HOH E 10 445 445 HOH HOH . PA 6 HOH F 1 388 388 HOH HOH . PA 6 HOH F 2 396 396 HOH HOH . PA 6 HOH F 3 398 398 HOH HOH . PA 6 HOH F 4 412 412 HOH HOH . PA 6 HOH F 5 434 434 HOH HOH . PA 6 HOH F 6 436 436 HOH HOH . QA 6 HOH G 1 380 380 HOH HOH . QA 6 HOH G 2 382 382 HOH HOH . QA 6 HOH G 3 383 383 HOH HOH . QA 6 HOH G 4 392 392 HOH HOH . QA 6 HOH G 5 393 393 HOH HOH . QA 6 HOH G 6 401 401 HOH HOH . QA 6 HOH G 7 435 435 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 . . . IA 5 -133.89 -206.183 -113.784 1 106.93 ? C1 MPD 377 G 1 HETATM 2 C C2 MPD . . . IA 5 -134.478 -205.204 -112.742 1 106.93 ? C2 MPD 377 G 1 HETATM 3 O O2 MPD . . . IA 5 -133.943 -203.886 -113.062 1 106.93 ? O2 MPD 377 G 1 HETATM 4 C CM MPD . . . IA 5 -135.982 -205.17 -112.805 1 106.93 ? CM MPD 377 G 1 HETATM 5 C C3 MPD . . . IA 5 -134.066 -205.509 -111.268 1 106.93 ? C3 MPD 377 G 1 HETATM 6 C C4 MPD . . . IA 5 -132.554 -205.572 -110.953 1 106.93 ? C4 MPD 377 G 1 HETATM 7 O O4 MPD . . . IA 5 -131.907 -204.338 -111.28 1 106.93 ? O4 MPD 377 G 1 HETATM 8 C C5 MPD . . . IA 5 -132.314 -205.872 -109.461 1 106.93 ? C5 MPD 377 G 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 377 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 8 #