data_5L79 # _model_server_result.job_id 1GoxVhtQCHXgtWLdwp8Jxw _model_server_result.datetime_utc '2024-11-23 03:47:37' _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 5l79 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":312}' # _entry.id 5L79 # _exptl.entry_id 5L79 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 1 _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 5L79 _cell.length_a 70.9 _cell.length_b 62.79 _cell.length_c 37.74 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5L79 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,L,M,N _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 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id M _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 G N4 R47 . A R47 306 1_555 H C32 6PJ . A 6PJ 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.387 ? metalc ? metalc1 A OD1 ASP 20 A ASP 124 1_555 F CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.714 ? metalc ? metalc2 A OD2 ASP 20 A ASP 124 1_555 F CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc3 A O ASP 54 A ASP 158 1_555 E CA CA . A CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? metalc ? metalc4 A NE2 HIS 64 A HIS 168 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc5 A OD2 ASP 66 A ASP 170 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? metalc ? metalc6 A OD1 ASP 71 A ASP 175 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? metalc ? metalc7 A O GLY 72 A GLY 176 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc8 A O GLY 74 A GLY 178 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.42 ? metalc ? metalc9 A O ILE 76 A ILE 180 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc10 A NE2 HIS 79 A HIS 183 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc11 A O GLY 86 A GLY 190 1_555 E CA CA . A CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? metalc ? metalc12 A O GLY 88 A GLY 192 1_555 E CA CA . A CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc13 A OD1 ASP 90 A ASP 194 1_555 E CA CA . A CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? metalc ? metalc14 A ND1 HIS 92 A HIS 196 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc15 A OD2 ASP 94 A ASP 198 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? metalc ? metalc16 A O GLU 95 A GLU 199 1_555 F CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc17 A OE2 GLU 95 A GLU 199 1_555 F CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc18 A OE2 GLU 97 A GLU 201 1_555 D CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc19 A O GLU 97 A GLU 201 1_555 F CA CA . A CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? metalc ? metalc20 A NE2 HIS 114 A HIS 218 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc21 A NE2 HIS 118 A HIS 222 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? metalc ? metalc22 A NE2 HIS 124 A HIS 228 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc23 B ZN ZN . A ZN 301 1_555 G O2 R47 . A R47 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.942 ? metalc ? metalc24 E CA CA . A CA 304 1_555 N O HOH . A HOH 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc25 E CA CA . A CA 304 1_555 N O HOH . A HOH 424 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? metalc ? metalc26 F CA CA . A CA 305 1_555 N O HOH . A HOH 458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? metalc ? metalc27 F CA CA . A CA 305 1_555 N O HOH . A HOH 467 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.638 ? # _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 268 n n C1 C2 GOL sing 269 n n C1 H11 GOL sing 270 n n C1 H12 GOL sing 271 n n O1 HO1 GOL sing 272 n n C2 O2 GOL sing 273 n n C2 C3 GOL sing 274 n n C2 H2 GOL sing 275 n n O2 HO2 GOL sing 276 n n C3 O3 GOL sing 277 n n C3 H31 GOL sing 278 n n C3 H32 GOL sing 279 n n O3 HO3 GOL sing 280 n n # _atom_sites.entry_id 5L79 _atom_sites.fract_transf_matrix[1][1] 0.014104 _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] 0.015926 _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] 0.026497 _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 B 2 ZN A 1 301 301 ZN ZN . C 2 ZN A 1 302 302 ZN ZN . D 3 CA A 1 303 303 CA CA . E 3 CA A 1 304 304 CA CA . F 3 CA A 1 305 305 CA CA . G 4 R47 A 1 306 306 R47 R47 . H 5 6PJ A 1 307 307 6PJ 6PJ . I 6 EDO A 1 308 308 EDO EDO . J 6 EDO A 1 309 309 EDO EDO . K 6 EDO A 1 310 310 EDO EDO . L 6 EDO A 1 311 311 EDO EDO . M 7 GOL A 1 312 312 GOL GOL . N 8 HOH A 1 401 405 HOH HOH . N 8 HOH A 2 402 401 HOH HOH . N 8 HOH A 3 403 402 HOH HOH . N 8 HOH A 4 404 403 HOH HOH . N 8 HOH A 5 405 404 HOH HOH . N 8 HOH A 6 406 406 HOH HOH . N 8 HOH A 7 407 407 HOH HOH . N 8 HOH A 8 408 409 HOH HOH . N 8 HOH A 9 409 410 HOH HOH . N 8 HOH A 10 410 411 HOH HOH . N 8 HOH A 11 411 412 HOH HOH . N 8 HOH A 12 412 408 HOH HOH . N 8 HOH A 13 413 413 HOH HOH . N 8 HOH A 14 414 414 HOH HOH . N 8 HOH A 15 415 415 HOH HOH . N 8 HOH A 16 416 416 HOH HOH . N 8 HOH A 17 417 417 HOH HOH . N 8 HOH A 18 418 418 HOH HOH . N 8 HOH A 19 419 419 HOH HOH . N 8 HOH A 20 420 420 HOH HOH . N 8 HOH A 21 421 421 HOH HOH . N 8 HOH A 22 422 422 HOH HOH . N 8 HOH A 23 423 423 HOH HOH . N 8 HOH A 24 424 424 HOH HOH . N 8 HOH A 25 425 426 HOH HOH . N 8 HOH A 26 426 427 HOH HOH . N 8 HOH A 27 427 425 HOH HOH . N 8 HOH A 28 428 428 HOH HOH . N 8 HOH A 29 429 429 HOH HOH . N 8 HOH A 30 430 430 HOH HOH . N 8 HOH A 31 431 431 HOH HOH . N 8 HOH A 32 432 432 HOH HOH . N 8 HOH A 33 433 433 HOH HOH . N 8 HOH A 34 434 434 HOH HOH . N 8 HOH A 35 435 435 HOH HOH . N 8 HOH A 36 436 436 HOH HOH . N 8 HOH A 37 437 437 HOH HOH . N 8 HOH A 38 438 438 HOH HOH . N 8 HOH A 39 439 439 HOH HOH . N 8 HOH A 40 440 440 HOH HOH . N 8 HOH A 41 441 441 HOH HOH . N 8 HOH A 42 442 442 HOH HOH . N 8 HOH A 43 443 443 HOH HOH . N 8 HOH A 44 444 444 HOH HOH . N 8 HOH A 45 445 445 HOH HOH . N 8 HOH A 46 446 446 HOH HOH . N 8 HOH A 47 447 447 HOH HOH . N 8 HOH A 48 448 448 HOH HOH . N 8 HOH A 49 449 449 HOH HOH . N 8 HOH A 50 450 450 HOH HOH . N 8 HOH A 51 451 451 HOH HOH . N 8 HOH A 52 452 452 HOH HOH . N 8 HOH A 53 453 453 HOH HOH . N 8 HOH A 54 454 454 HOH HOH . N 8 HOH A 55 455 455 HOH HOH . N 8 HOH A 56 456 456 HOH HOH . N 8 HOH A 57 457 457 HOH HOH . N 8 HOH A 58 458 458 HOH HOH . N 8 HOH A 59 459 459 HOH HOH . N 8 HOH A 60 460 460 HOH HOH . N 8 HOH A 61 461 461 HOH HOH . N 8 HOH A 62 462 462 HOH HOH . N 8 HOH A 63 463 463 HOH HOH . N 8 HOH A 64 464 464 HOH HOH . N 8 HOH A 65 465 465 HOH HOH . N 8 HOH A 66 466 466 HOH HOH . N 8 HOH A 67 467 467 HOH HOH . N 8 HOH A 68 468 468 HOH HOH . N 8 HOH A 69 469 469 HOH HOH . N 8 HOH A 70 470 470 HOH HOH . N 8 HOH A 71 471 471 HOH HOH . N 8 HOH A 72 472 472 HOH HOH . N 8 HOH A 73 473 473 HOH HOH . N 8 HOH A 74 474 474 HOH HOH . N 8 HOH A 75 475 475 HOH HOH . N 8 HOH A 76 476 476 HOH HOH . N 8 HOH A 77 477 477 HOH HOH . N 8 HOH A 78 478 478 HOH HOH . N 8 HOH A 79 479 479 HOH HOH . N 8 HOH A 80 480 480 HOH HOH . N 8 HOH A 81 481 481 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 7 23.261 15.676 -1.167 1 65.55 ? C1 GOL 312 A 1 HETATM 2 O O1 GOL . . . M 7 22.609 16.457 -0.192 1 65.38 ? O1 GOL 312 A 1 HETATM 3 C C2 GOL . . . M 7 22.429 15.635 -2.441 1 65.71 ? C2 GOL 312 A 1 HETATM 4 O O2 GOL . . . M 7 22.118 14.293 -2.749 1 66.05 ? O2 GOL 312 A 1 HETATM 5 C C3 GOL . . . M 7 23.246 16.23 -3.581 1 65.64 ? C3 GOL 312 A 1 HETATM 6 O O3 GOL . . . M 7 24.395 15.442 -3.8 1 65.31 ? O3 GOL 312 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 15 _model_server_stats.element_count 6 #