data_7DAH # _model_server_result.job_id a8_bJvm5EgSCe5YQsuNvtg _model_server_result.datetime_utc '2024-12-26 20:39:56' _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 7dah # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":403}' # _entry.id 7DAH # _exptl.entry_id 7DAH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 2 _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 120 _cell.entry_id 7DAH _cell.length_a 136.603 _cell.length_b 136.603 _cell.length_c 121.931 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7DAH _symmetry.cell_setting ? _symmetry.Int_Tables_number 145 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,C,D,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,W,X,Y,Z,AA,CA,DA,FA 1 1 B,BA 1 2 E,V,EA 1 3 # 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_664 -y+1,x-y+1,z-1/3 -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 68.3015 118.301668 -40.643667 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z+1/3 -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 68.3015 118.301668 40.643667 # 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 R 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 C OD1 ASP 66 C ASP 60 1_555 L MG MG . C MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.78 ? metalc ? metalc2 C OD2 ASP 66 C ASP 60 1_555 L MG MG . C MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.839 ? metalc ? metalc3 C OD2 ASP 67 C ASP 61 1_555 L MG MG . C MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.745 ? metalc ? metalc4 L MG MG . C MG 401 1_555 M O2B ATP . C ATP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.871 ? metalc ? metalc5 F OD1 ASP 66 F ASP 60 1_555 W MG MG . F MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.904 ? metalc ? metalc6 F OD1 ASP 67 F ASP 61 1_555 W MG MG . F MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.466 ? metalc ? metalc7 W MG MG . F MG 401 1_555 Z O2G ATP . F ATP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.895 ? metalc ? metalc8 W MG MG . F MG 401 1_555 Z O1B ATP . F ATP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 O1 GOL sing 187 n n C1 C2 GOL sing 188 n n C1 H11 GOL sing 189 n n C1 H12 GOL sing 190 n n O1 HO1 GOL sing 191 n n C2 O2 GOL sing 192 n n C2 C3 GOL sing 193 n n C2 H2 GOL sing 194 n n O2 HO2 GOL sing 195 n n C3 O3 GOL sing 196 n n C3 H31 GOL sing 197 n n C3 H32 GOL sing 198 n n O3 HO3 GOL sing 199 n n # _atom_sites.entry_id 7DAH _atom_sites.fract_transf_matrix[1][1] 0.00732 _atom_sites.fract_transf_matrix[1][2] 0.004226 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008453 _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] 0.008201 _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 G 2 PEG A 1 401 305 PEG PEG . H 3 EDO A 1 402 306 EDO EDO . I 3 EDO A 1 403 307 EDO EDO . J 4 PO4 A 1 404 308 PO4 PO4 . K 5 GOL A 1 405 305 GOL GOL . L 6 MG C 1 401 306 MG MG . M 7 ATP C 1 402 307 ATP ATP . N 8 PRP C 1 403 308 PRP PRP . O 3 EDO C 1 404 309 EDO EDO . P 2 PEG D 1 401 305 PEG PEG . Q 3 EDO D 1 402 306 EDO EDO . R 5 GOL D 1 403 307 GOL GOL . S 3 EDO D 1 404 308 EDO EDO . T 3 EDO D 1 405 309 EDO EDO . U 4 PO4 D 1 406 310 PO4 PO4 . V 3 EDO E 1 401 305 EDO EDO . W 6 MG F 1 401 305 MG MG . X 3 EDO F 1 402 306 EDO EDO . Y 8 PRP F 1 403 307 PRP PRP . Z 7 ATP F 1 404 308 ATP ATP . AA 9 HOH A 1 501 326 HOH HOH . AA 9 HOH A 2 502 316 HOH HOH . AA 9 HOH A 3 503 338 HOH HOH . AA 9 HOH A 4 504 335 HOH HOH . AA 9 HOH A 5 505 317 HOH HOH . AA 9 HOH A 6 506 319 HOH HOH . AA 9 HOH A 7 507 320 HOH HOH . AA 9 HOH A 8 508 315 HOH HOH . AA 9 HOH A 9 509 321 HOH HOH . AA 9 HOH A 10 510 322 HOH HOH . AA 9 HOH A 11 511 318 HOH HOH . AA 9 HOH A 12 512 324 HOH HOH . AA 9 HOH A 13 513 341 HOH HOH . AA 9 HOH A 14 514 342 HOH HOH . AA 9 HOH A 15 515 325 HOH HOH . AA 9 HOH A 16 516 323 HOH HOH . AA 9 HOH A 17 517 311 HOH HOH . AA 9 HOH A 18 518 329 HOH HOH . AA 9 HOH A 19 519 339 HOH HOH . AA 9 HOH A 20 520 333 HOH HOH . AA 9 HOH A 21 521 313 HOH HOH . AA 9 HOH A 22 522 331 HOH HOH . AA 9 HOH A 23 523 309 HOH HOH . AA 9 HOH A 24 524 327 HOH HOH . AA 9 HOH A 25 525 336 HOH HOH . AA 9 HOH A 26 526 340 HOH HOH . AA 9 HOH A 27 527 343 HOH HOH . AA 9 HOH A 28 528 328 HOH HOH . AA 9 HOH A 29 529 314 HOH HOH . AA 9 HOH A 30 530 310 HOH HOH . AA 9 HOH A 31 531 330 HOH HOH . AA 9 HOH A 32 532 337 HOH HOH . AA 9 HOH A 33 533 334 HOH HOH . AA 9 HOH A 34 534 332 HOH HOH . AA 9 HOH A 35 535 312 HOH HOH . BA 9 HOH B 1 401 328 HOH HOH . BA 9 HOH B 2 402 326 HOH HOH . BA 9 HOH B 3 403 329 HOH HOH . BA 9 HOH B 4 404 305 HOH HOH . BA 9 HOH B 5 405 309 HOH HOH . BA 9 HOH B 6 406 318 HOH HOH . BA 9 HOH B 7 407 325 HOH HOH . BA 9 HOH B 8 408 306 HOH HOH . BA 9 HOH B 9 409 327 HOH HOH . BA 9 HOH B 10 410 323 HOH HOH . BA 9 HOH B 11 411 316 HOH HOH . BA 9 HOH B 12 412 304 HOH HOH . BA 9 HOH B 13 413 313 HOH HOH . BA 9 HOH B 14 414 308 HOH HOH . BA 9 HOH B 15 415 330 HOH HOH . BA 9 HOH B 16 416 310 HOH HOH . BA 9 HOH B 17 417 311 HOH HOH . BA 9 HOH B 18 418 312 HOH HOH . BA 9 HOH B 19 419 321 HOH HOH . BA 9 HOH B 20 420 324 HOH HOH . BA 9 HOH B 21 421 317 HOH HOH . BA 9 HOH B 22 422 331 HOH HOH . BA 9 HOH B 23 423 307 HOH HOH . BA 9 HOH B 24 424 322 HOH HOH . BA 9 HOH B 25 425 314 HOH HOH . BA 9 HOH B 26 426 319 HOH HOH . BA 9 HOH B 27 427 320 HOH HOH . CA 9 HOH C 1 501 318 HOH HOH . CA 9 HOH C 2 502 345 HOH HOH . CA 9 HOH C 3 503 346 HOH HOH . CA 9 HOH C 4 504 342 HOH HOH . CA 9 HOH C 5 505 348 HOH HOH . CA 9 HOH C 6 506 350 HOH HOH . CA 9 HOH C 7 507 329 HOH HOH . CA 9 HOH C 8 508 334 HOH HOH . CA 9 HOH C 9 509 314 HOH HOH . CA 9 HOH C 10 510 315 HOH HOH . CA 9 HOH C 11 511 332 HOH HOH . CA 9 HOH C 12 512 327 HOH HOH . CA 9 HOH C 13 513 331 HOH HOH . CA 9 HOH C 14 514 324 HOH HOH . CA 9 HOH C 15 515 330 HOH HOH . CA 9 HOH C 16 516 344 HOH HOH . CA 9 HOH C 17 517 315 HOH HOH . CA 9 HOH C 18 518 323 HOH HOH . CA 9 HOH C 19 519 340 HOH HOH . CA 9 HOH C 20 520 310 HOH HOH . CA 9 HOH C 21 521 347 HOH HOH . CA 9 HOH C 22 522 317 HOH HOH . CA 9 HOH C 23 523 311 HOH HOH . CA 9 HOH C 24 524 339 HOH HOH . CA 9 HOH C 25 525 352 HOH HOH . CA 9 HOH C 26 526 313 HOH HOH . CA 9 HOH C 27 527 338 HOH HOH . CA 9 HOH C 28 528 335 HOH HOH . CA 9 HOH C 29 529 333 HOH HOH . CA 9 HOH C 30 530 319 HOH HOH . CA 9 HOH C 31 531 336 HOH HOH . CA 9 HOH C 32 532 354 HOH HOH . CA 9 HOH C 33 533 341 HOH HOH . CA 9 HOH C 34 534 328 HOH HOH . CA 9 HOH C 35 535 321 HOH HOH . CA 9 HOH C 36 536 355 HOH HOH . CA 9 HOH C 37 537 325 HOH HOH . CA 9 HOH C 38 538 351 HOH HOH . CA 9 HOH C 39 539 320 HOH HOH . CA 9 HOH C 40 540 349 HOH HOH . CA 9 HOH C 41 541 316 HOH HOH . CA 9 HOH C 42 542 353 HOH HOH . CA 9 HOH C 43 543 322 HOH HOH . CA 9 HOH C 44 544 337 HOH HOH . CA 9 HOH C 45 545 312 HOH HOH . CA 9 HOH C 46 546 343 HOH HOH . CA 9 HOH C 47 547 326 HOH HOH . DA 9 HOH D 1 501 345 HOH HOH . DA 9 HOH D 2 502 325 HOH HOH . DA 9 HOH D 3 503 326 HOH HOH . DA 9 HOH D 4 504 336 HOH HOH . DA 9 HOH D 5 505 317 HOH HOH . DA 9 HOH D 6 506 340 HOH HOH . DA 9 HOH D 7 507 313 HOH HOH . DA 9 HOH D 8 508 347 HOH HOH . DA 9 HOH D 9 509 331 HOH HOH . DA 9 HOH D 10 510 327 HOH HOH . DA 9 HOH D 11 511 350 HOH HOH . DA 9 HOH D 12 512 329 HOH HOH . DA 9 HOH D 13 513 337 HOH HOH . DA 9 HOH D 14 514 348 HOH HOH . DA 9 HOH D 15 515 321 HOH HOH . DA 9 HOH D 16 516 316 HOH HOH . DA 9 HOH D 17 517 342 HOH HOH . DA 9 HOH D 18 518 332 HOH HOH . DA 9 HOH D 19 519 318 HOH HOH . DA 9 HOH D 20 520 315 HOH HOH . DA 9 HOH D 21 521 312 HOH HOH . DA 9 HOH D 22 522 323 HOH HOH . DA 9 HOH D 23 523 335 HOH HOH . DA 9 HOH D 24 524 314 HOH HOH . DA 9 HOH D 25 525 324 HOH HOH . DA 9 HOH D 26 526 330 HOH HOH . DA 9 HOH D 27 527 341 HOH HOH . DA 9 HOH D 28 528 352 HOH HOH . DA 9 HOH D 29 529 319 HOH HOH . DA 9 HOH D 30 530 320 HOH HOH . DA 9 HOH D 31 531 346 HOH HOH . DA 9 HOH D 32 532 338 HOH HOH . DA 9 HOH D 33 533 339 HOH HOH . DA 9 HOH D 34 534 333 HOH HOH . DA 9 HOH D 35 535 344 HOH HOH . DA 9 HOH D 36 536 334 HOH HOH . DA 9 HOH D 37 537 309 HOH HOH . DA 9 HOH D 38 538 349 HOH HOH . DA 9 HOH D 39 539 311 HOH HOH . DA 9 HOH D 40 540 328 HOH HOH . DA 9 HOH D 41 541 343 HOH HOH . DA 9 HOH D 42 542 351 HOH HOH . EA 9 HOH E 1 501 321 HOH HOH . EA 9 HOH E 2 502 319 HOH HOH . EA 9 HOH E 3 503 323 HOH HOH . EA 9 HOH E 4 504 311 HOH HOH . EA 9 HOH E 5 505 322 HOH HOH . EA 9 HOH E 6 506 313 HOH HOH . EA 9 HOH E 7 507 308 HOH HOH . EA 9 HOH E 8 508 314 HOH HOH . EA 9 HOH E 9 509 317 HOH HOH . EA 9 HOH E 10 510 309 HOH HOH . EA 9 HOH E 11 511 307 HOH HOH . EA 9 HOH E 12 512 324 HOH HOH . EA 9 HOH E 13 513 310 HOH HOH . EA 9 HOH E 14 514 306 HOH HOH . EA 9 HOH E 15 515 312 HOH HOH . EA 9 HOH E 16 516 325 HOH HOH . EA 9 HOH E 17 517 315 HOH HOH . EA 9 HOH E 18 518 316 HOH HOH . EA 9 HOH E 19 519 1 HOH HOH . EA 9 HOH E 20 520 318 HOH HOH . EA 9 HOH E 21 521 322 HOH HOH . EA 9 HOH E 22 522 2 HOH HOH . FA 9 HOH F 1 501 319 HOH HOH . FA 9 HOH F 2 502 324 HOH HOH . FA 9 HOH F 3 503 331 HOH HOH . FA 9 HOH F 4 504 334 HOH HOH . FA 9 HOH F 5 505 316 HOH HOH . FA 9 HOH F 6 506 326 HOH HOH . FA 9 HOH F 7 507 310 HOH HOH . FA 9 HOH F 8 508 314 HOH HOH . FA 9 HOH F 9 509 312 HOH HOH . FA 9 HOH F 10 510 333 HOH HOH . FA 9 HOH F 11 511 330 HOH HOH . FA 9 HOH F 12 512 318 HOH HOH . FA 9 HOH F 13 513 313 HOH HOH . FA 9 HOH F 14 514 320 HOH HOH . FA 9 HOH F 15 515 327 HOH HOH . FA 9 HOH F 16 516 325 HOH HOH . FA 9 HOH F 17 517 329 HOH HOH . FA 9 HOH F 18 518 311 HOH HOH . FA 9 HOH F 19 519 332 HOH HOH . FA 9 HOH F 20 520 323 HOH HOH . FA 9 HOH F 21 521 321 HOH HOH . FA 9 HOH F 22 522 315 HOH HOH . FA 9 HOH F 23 523 317 HOH HOH . FA 9 HOH F 24 524 328 HOH HOH . FA 9 HOH F 25 525 322 HOH HOH . FA 9 HOH F 26 526 335 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 GOL . . . R 5 55.572 24.23 -23.053 1 67.43 ? C1 GOL 403 D 1 HETATM 2 O O1 GOL . . . R 5 56.572 24.535 -24.023 1 67.45 ? O1 GOL 403 D 1 HETATM 3 C C2 GOL . . . R 5 54.17 24.404 -23.612 1 69.79 ? C2 GOL 403 D 1 HETATM 4 O O2 GOL . . . R 5 54.152 24.041 -24.989 1 70.19 ? O2 GOL 403 D 1 HETATM 5 C C3 GOL . . . R 5 53.11 23.597 -22.881 1 71.01 ? C3 GOL 403 D 1 HETATM 6 O O3 GOL . . . R 5 51.989 24.398 -22.508 1 68.81 ? O3 GOL 403 D 1 # _model_server_stats.io_time_ms 37 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 336 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #