data_6DOI # _model_server_result.job_id 5omUVkWqu6dpeKHmXK9o2A _model_server_result.datetime_utc '2024-11-16 23:26:16' _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 6doi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":209}' # _entry.id 6DOI # _exptl.entry_id 6DOI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 96.22 _cell.angle_gamma 90 _cell.entry_id 6DOI _cell.length_a 81.456 _cell.length_b 38.02 _cell.length_c 62.071 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DOI _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_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,L,M,N,O,P,Q,R,S,T,U,V _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 ? 8 L N N ? 8 M N N ? 8 O N N ? 8 P 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 B O3' U 4 B U 4 1_555 C P C 1 b C 5 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.595 sing metalc ? metalc1 A OD1 ASP 11 A ASP 71 1_555 E K K . A K 201 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.878 ? metalc ? metalc2 A OD2 ASP 11 A ASP 71 1_555 E K K . A K 201 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.945 ? metalc ? metalc3 A OD2 ASP 11 A ASP 71 1_555 F K K . A K 202 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.531 ? metalc ? metalc4 A OD1 ASP 11 A ASP 71 1_555 G CA CA . A CA 203 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.571 ? metalc ? metalc5 A OD2 ASP 11 A ASP 71 1_555 G CA CA . A CA 203 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.821 ? metalc ? metalc6 A O VAL 12 A VAL 72 1_555 E K K . A K 201 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.674 ? metalc ? metalc7 A OE2 GLU 49 A GLU 109 1_555 F K K . A K 202 1_555 ? B ? ? B ? ? ? ? ? ? ? 3.363 ? metalc ? metalc8 A OD1 ASP 72 A ASP 132 1_555 F K K . A K 202 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.633 ? metalc ? metalc9 A OD2 ASP 72 A ASP 132 1_555 F K K . A K 202 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.732 ? metalc ? metalc10 A OD1 ASP 132 A ASP 192 1_555 G CA CA . A CA 203 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.299 ? metalc ? metalc11 E K K . A K 201 1_555 C OP1 C 1 b C 5 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.686 ? metalc ? metalc12 E K K . A K 201 1_555 C OP2 G 2 b G 6 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.897 ? metalc ? metalc13 F K K . A K 202 1_555 S O HOH . A HOH 327 1_555 ? B ? ? ? ? ? ? ? ? ? ? 3.034 ? metalc ? metalc14 T O HOH . B HOH 112 1_555 Q K K . C K 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.722 ? metalc ? metalc15 D O4 DT 4 C DT 4 1_555 Q K K . C K 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.498 ? metalc ? metalc16 D O6 DG 5 C DG 5 1_555 Q K K . C K 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? metalc ? metalc17 Q K K . C K 101 1_555 V O HOH . C HOH 206 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.391 ? metalc ? metalc18 Q K K . C K 101 1_555 V O HOH . C HOH 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.338 ? hydrog WATSON-CRICK hydrog1 B N1 A 1 B A 1 1_555 D N3 DT 6 C DT 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N6 A 1 B A 1 1_555 D O4 DT 6 C DT 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B N3 C 2 B C 2 1_555 D N1 DG 5 C DG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N4 C 2 B C 2 1_555 D O6 DG 5 C DG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B O2 C 2 B C 2 1_555 D N2 DG 5 C DG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B N1 A 3 B A 3 1_555 D N3 DT 4 C DT 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B N6 A 3 B A 3 1_555 D O4 DT 4 C DT 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B N3 U 4 B U 4 1_555 D N1 DA 3 C DA 3 1_555 ? A ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B O4 U 4 B U 4 1_555 D N6 DA 3 C DA 3 1_555 ? A ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 C N3 C 1 b C 5 1_555 D N1 DG 2 C DG 2 1_555 ? A ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 C N4 C 1 b C 5 1_555 D O6 DG 2 C DG 2 1_555 ? A ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 C O2 C 1 b C 5 1_555 D N2 DG 2 C DG 2 1_555 ? A ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 C N1 G 2 b G 6 1_555 D N3 DC 1 C DC 1 1_555 ? A ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 C N2 G 2 b G 6 1_555 D O2 DC 1 C DC 1 1_555 ? A ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 C O6 G 2 b G 6 1_555 D N4 DC 1 C DC 1 1_555 ? A ? ? ? ? ? ? ? ? ? ? ? ? # _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 389 n n C1 C2 GOL sing 390 n n C1 H11 GOL sing 391 n n C1 H12 GOL sing 392 n n O1 HO1 GOL sing 393 n n C2 O2 GOL sing 394 n n C2 C3 GOL sing 395 n n C2 H2 GOL sing 396 n n O2 HO2 GOL sing 397 n n C3 O3 GOL sing 398 n n C3 H31 GOL sing 399 n n C3 H32 GOL sing 400 n n O3 HO3 GOL sing 401 n n # _atom_sites.entry_id 6DOI _atom_sites.fract_transf_matrix[1][1] 0.012277 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001337 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.026302 _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] 0.016206 _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 E 5 K A 1 201 201 K K . F 5 K A 1 202 202 K K . G 6 CA A 1 203 203 CA CA . H 7 IOD A 1 204 204 IOD IOD . I 7 IOD A 1 205 205 IOD IOD . J 7 IOD A 1 206 206 IOD IOD . K 7 IOD A 1 207 207 IOD IOD . L 8 GOL A 1 208 208 GOL GOL . M 8 GOL A 1 209 209 GOL GOL . N 9 EDO A 1 210 210 EDO EDO . O 8 GOL A 1 211 211 GOL GOL . P 8 GOL A 1 212 212 GOL GOL . Q 5 K C 1 101 101 K K . R 9 EDO C 1 102 102 EDO EDO . S 10 HOH A 1 301 301 HOH HOH . S 10 HOH A 2 302 302 HOH HOH . S 10 HOH A 3 303 303 HOH HOH . S 10 HOH A 4 304 304 HOH HOH . S 10 HOH A 5 305 305 HOH HOH . S 10 HOH A 6 306 306 HOH HOH . S 10 HOH A 7 307 307 HOH HOH . S 10 HOH A 8 308 308 HOH HOH . S 10 HOH A 9 309 309 HOH HOH . S 10 HOH A 10 310 310 HOH HOH . S 10 HOH A 11 311 311 HOH HOH . S 10 HOH A 12 312 312 HOH HOH . S 10 HOH A 13 313 313 HOH HOH . S 10 HOH A 14 314 314 HOH HOH . S 10 HOH A 15 315 315 HOH HOH . S 10 HOH A 16 316 316 HOH HOH . S 10 HOH A 17 317 317 HOH HOH . S 10 HOH A 18 318 318 HOH HOH . S 10 HOH A 19 319 319 HOH HOH . S 10 HOH A 20 320 320 HOH HOH . S 10 HOH A 21 321 321 HOH HOH . S 10 HOH A 22 322 322 HOH HOH . S 10 HOH A 23 323 323 HOH HOH . S 10 HOH A 24 324 324 HOH HOH . S 10 HOH A 25 325 325 HOH HOH . S 10 HOH A 26 326 326 HOH HOH . S 10 HOH A 27 327 327 HOH HOH . S 10 HOH A 28 328 328 HOH HOH . S 10 HOH A 29 329 329 HOH HOH . S 10 HOH A 30 330 330 HOH HOH . S 10 HOH A 31 331 331 HOH HOH . S 10 HOH A 32 332 332 HOH HOH . S 10 HOH A 33 333 333 HOH HOH . S 10 HOH A 34 334 334 HOH HOH . S 10 HOH A 35 335 335 HOH HOH . S 10 HOH A 36 336 336 HOH HOH . S 10 HOH A 37 337 337 HOH HOH . S 10 HOH A 38 338 338 HOH HOH . S 10 HOH A 39 339 339 HOH HOH . S 10 HOH A 40 340 340 HOH HOH . S 10 HOH A 41 341 341 HOH HOH . S 10 HOH A 42 342 342 HOH HOH . S 10 HOH A 43 343 343 HOH HOH . S 10 HOH A 44 344 344 HOH HOH . S 10 HOH A 45 345 345 HOH HOH . S 10 HOH A 46 346 346 HOH HOH . S 10 HOH A 47 347 347 HOH HOH . S 10 HOH A 48 348 348 HOH HOH . S 10 HOH A 49 349 349 HOH HOH . S 10 HOH A 50 350 350 HOH HOH . S 10 HOH A 51 351 351 HOH HOH . S 10 HOH A 52 352 352 HOH HOH . S 10 HOH A 53 353 353 HOH HOH . S 10 HOH A 54 354 354 HOH HOH . S 10 HOH A 55 355 355 HOH HOH . S 10 HOH A 56 356 356 HOH HOH . S 10 HOH A 57 357 357 HOH HOH . S 10 HOH A 58 358 358 HOH HOH . S 10 HOH A 59 359 359 HOH HOH . S 10 HOH A 60 360 360 HOH HOH . S 10 HOH A 61 361 361 HOH HOH . S 10 HOH A 62 362 362 HOH HOH . S 10 HOH A 63 363 363 HOH HOH . S 10 HOH A 64 364 364 HOH HOH . S 10 HOH A 65 365 365 HOH HOH . S 10 HOH A 66 366 366 HOH HOH . S 10 HOH A 67 367 367 HOH HOH . S 10 HOH A 68 368 368 HOH HOH . S 10 HOH A 69 369 369 HOH HOH . S 10 HOH A 70 370 370 HOH HOH . S 10 HOH A 71 371 371 HOH HOH . S 10 HOH A 72 372 372 HOH HOH . S 10 HOH A 73 373 373 HOH HOH . S 10 HOH A 74 374 374 HOH HOH . S 10 HOH A 75 375 375 HOH HOH . S 10 HOH A 76 376 376 HOH HOH . S 10 HOH A 77 377 377 HOH HOH . S 10 HOH A 78 378 378 HOH HOH . S 10 HOH A 79 379 379 HOH HOH . S 10 HOH A 80 380 380 HOH HOH . S 10 HOH A 81 381 381 HOH HOH . S 10 HOH A 82 382 382 HOH HOH . S 10 HOH A 83 383 383 HOH HOH . S 10 HOH A 84 384 384 HOH HOH . S 10 HOH A 85 385 385 HOH HOH . S 10 HOH A 86 386 386 HOH HOH . S 10 HOH A 87 387 387 HOH HOH . S 10 HOH A 88 388 388 HOH HOH . S 10 HOH A 89 389 389 HOH HOH . S 10 HOH A 90 390 390 HOH HOH . S 10 HOH A 91 391 391 HOH HOH . S 10 HOH A 92 392 392 HOH HOH . S 10 HOH A 93 393 393 HOH HOH . S 10 HOH A 94 394 394 HOH HOH . S 10 HOH A 95 395 395 HOH HOH . S 10 HOH A 96 396 396 HOH HOH . S 10 HOH A 97 397 397 HOH HOH . S 10 HOH A 98 398 398 HOH HOH . S 10 HOH A 99 399 399 HOH HOH . S 10 HOH A 100 400 400 HOH HOH . S 10 HOH A 101 401 401 HOH HOH . S 10 HOH A 102 402 402 HOH HOH . S 10 HOH A 103 403 403 HOH HOH . S 10 HOH A 104 404 404 HOH HOH . S 10 HOH A 105 405 405 HOH HOH . S 10 HOH A 106 406 406 HOH HOH . S 10 HOH A 107 407 407 HOH HOH . S 10 HOH A 108 408 408 HOH HOH . S 10 HOH A 109 409 409 HOH HOH . S 10 HOH A 110 410 410 HOH HOH . S 10 HOH A 111 411 411 HOH HOH . S 10 HOH A 112 412 412 HOH HOH . S 10 HOH A 113 413 413 HOH HOH . S 10 HOH A 114 414 414 HOH HOH . S 10 HOH A 115 415 415 HOH HOH . S 10 HOH A 116 416 416 HOH HOH . S 10 HOH A 117 417 417 HOH HOH . S 10 HOH A 118 418 418 HOH HOH . S 10 HOH A 119 419 419 HOH HOH . S 10 HOH A 120 420 420 HOH HOH . S 10 HOH A 121 421 421 HOH HOH . S 10 HOH A 122 422 422 HOH HOH . S 10 HOH A 123 423 423 HOH HOH . S 10 HOH A 124 424 424 HOH HOH . S 10 HOH A 125 425 425 HOH HOH . S 10 HOH A 126 426 426 HOH HOH . S 10 HOH A 127 427 427 HOH HOH . S 10 HOH A 128 428 428 HOH HOH . S 10 HOH A 129 429 429 HOH HOH . S 10 HOH A 130 430 430 HOH HOH . S 10 HOH A 131 431 431 HOH HOH . T 10 HOH B 1 101 101 HOH HOH . T 10 HOH B 2 102 102 HOH HOH . T 10 HOH B 3 103 103 HOH HOH . T 10 HOH B 4 104 104 HOH HOH . T 10 HOH B 5 105 105 HOH HOH . T 10 HOH B 6 106 106 HOH HOH . T 10 HOH B 7 107 107 HOH HOH . T 10 HOH B 8 108 108 HOH HOH . T 10 HOH B 9 109 109 HOH HOH . T 10 HOH B 10 110 110 HOH HOH . T 10 HOH B 11 111 111 HOH HOH . T 10 HOH B 12 112 112 HOH HOH . T 10 HOH B 13 113 113 HOH HOH . U 10 HOH b 1 101 101 HOH HOH . U 10 HOH b 2 102 102 HOH HOH . U 10 HOH b 3 103 103 HOH HOH . U 10 HOH b 4 104 104 HOH HOH . U 10 HOH b 5 105 105 HOH HOH . V 10 HOH C 1 201 201 HOH HOH . V 10 HOH C 2 202 202 HOH HOH . V 10 HOH C 3 203 203 HOH HOH . V 10 HOH C 4 204 204 HOH HOH . V 10 HOH C 5 205 205 HOH HOH . V 10 HOH C 6 206 206 HOH HOH . V 10 HOH C 7 207 207 HOH HOH . V 10 HOH C 8 208 208 HOH HOH . V 10 HOH C 9 209 209 HOH HOH . V 10 HOH C 10 210 210 HOH HOH . V 10 HOH C 11 211 211 HOH HOH . V 10 HOH C 12 212 212 HOH HOH . V 10 HOH C 13 213 213 HOH HOH . V 10 HOH C 14 214 214 HOH HOH . V 10 HOH C 15 215 215 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 . . . M 8 27.685 10.988 29.908 1 67.2 ? C1 GOL 209 A 1 HETATM 2 O O1 GOL . . . M 8 27.782 12 30.881 1 61.95 ? O1 GOL 209 A 1 HETATM 3 C C2 GOL . . . M 8 27.135 11.546 28.605 1 70.06 ? C2 GOL 209 A 1 HETATM 4 O O2 GOL . . . M 8 26.158 12.515 28.895 1 68.48 ? O2 GOL 209 A 1 HETATM 5 C C3 GOL . . . M 8 28.262 12.146 27.764 1 67.54 ? C3 GOL 209 A 1 HETATM 6 O O3 GOL . . . M 8 27.765 12.545 26.499 1 65.7 ? O3 GOL 209 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 6 #