data_4YHK # _model_server_result.job_id M56ycEUSNjyQtX6kOwSSrg _model_server_result.datetime_utc '2024-11-10 01:21:59' _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 4yhk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":302}' # _entry.id 4YHK # _exptl.entry_id 4YHK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _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 90 _cell.entry_id 4YHK _cell.length_a 48.201 _cell.length_b 59.739 _cell.length_c 127.689 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4YHK _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 ? 4 D N N ? 4 E 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 22 H CYS 22 1_555 A SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf2 A SG CYS 146 H CYS 146 1_555 A SG CYS 202 H CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 B SG CYS 23 L CYS 23 1_555 B SG CYS 93 L CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf4 B SG CYS 139 L CYS 139 1_555 B SG CYS 199 L CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? # _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 192 n n C1 C2 GOL sing 193 n n C1 H11 GOL sing 194 n n C1 H12 GOL sing 195 n n O1 HO1 GOL sing 196 n n C2 O2 GOL sing 197 n n C2 C3 GOL sing 198 n n C2 H2 GOL sing 199 n n O2 HO2 GOL sing 200 n n C3 O3 GOL sing 201 n n C3 H31 GOL sing 202 n n C3 H32 GOL sing 203 n n O3 HO3 GOL sing 204 n n # _atom_sites.entry_id 4YHK _atom_sites.fract_transf_matrix[1][1] 0.020746 _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] 0.016739 _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] 0.007832 _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 3 4CC H 1 301 1 4CC LIG . D 4 GOL H 1 302 1 GOL GOL . E 4 GOL L 1 301 2 GOL GOL . F 5 HOH H 1 401 249 HOH HOH . F 5 HOH H 2 402 89 HOH HOH . F 5 HOH H 3 403 193 HOH HOH . F 5 HOH H 4 404 99 HOH HOH . F 5 HOH H 5 405 96 HOH HOH . F 5 HOH H 6 406 208 HOH HOH . F 5 HOH H 7 407 218 HOH HOH . F 5 HOH H 8 408 164 HOH HOH . F 5 HOH H 9 409 245 HOH HOH . F 5 HOH H 10 410 105 HOH HOH . F 5 HOH H 11 411 76 HOH HOH . F 5 HOH H 12 412 34 HOH HOH . F 5 HOH H 13 413 145 HOH HOH . F 5 HOH H 14 414 125 HOH HOH . F 5 HOH H 15 415 176 HOH HOH . F 5 HOH H 16 416 171 HOH HOH . F 5 HOH H 17 417 56 HOH HOH . F 5 HOH H 18 418 102 HOH HOH . F 5 HOH H 19 419 147 HOH HOH . F 5 HOH H 20 420 227 HOH HOH . F 5 HOH H 21 421 73 HOH HOH . F 5 HOH H 22 422 199 HOH HOH . F 5 HOH H 23 423 177 HOH HOH . F 5 HOH H 24 424 136 HOH HOH . F 5 HOH H 25 425 153 HOH HOH . F 5 HOH H 26 426 163 HOH HOH . F 5 HOH H 27 427 81 HOH HOH . F 5 HOH H 28 428 47 HOH HOH . F 5 HOH H 29 429 235 HOH HOH . F 5 HOH H 30 430 243 HOH HOH . F 5 HOH H 31 431 221 HOH HOH . F 5 HOH H 32 432 72 HOH HOH . F 5 HOH H 33 433 71 HOH HOH . F 5 HOH H 34 434 85 HOH HOH . F 5 HOH H 35 435 91 HOH HOH . F 5 HOH H 36 436 212 HOH HOH . F 5 HOH H 37 437 225 HOH HOH . F 5 HOH H 38 438 141 HOH HOH . F 5 HOH H 39 439 186 HOH HOH . F 5 HOH H 40 440 165 HOH HOH . F 5 HOH H 41 441 123 HOH HOH . F 5 HOH H 42 442 217 HOH HOH . F 5 HOH H 43 443 205 HOH HOH . F 5 HOH H 44 444 129 HOH HOH . F 5 HOH H 45 445 69 HOH HOH . F 5 HOH H 46 446 189 HOH HOH . F 5 HOH H 47 447 122 HOH HOH . F 5 HOH H 48 448 14 HOH HOH . F 5 HOH H 49 449 52 HOH HOH . F 5 HOH H 50 450 180 HOH HOH . F 5 HOH H 51 451 108 HOH HOH . F 5 HOH H 52 452 204 HOH HOH . F 5 HOH H 53 453 152 HOH HOH . F 5 HOH H 54 454 130 HOH HOH . F 5 HOH H 55 455 92 HOH HOH . F 5 HOH H 56 456 12 HOH HOH . F 5 HOH H 57 457 49 HOH HOH . F 5 HOH H 58 458 194 HOH HOH . F 5 HOH H 59 459 131 HOH HOH . F 5 HOH H 60 460 170 HOH HOH . F 5 HOH H 61 461 238 HOH HOH . F 5 HOH H 62 462 118 HOH HOH . F 5 HOH H 63 463 248 HOH HOH . F 5 HOH H 64 464 196 HOH HOH . F 5 HOH H 65 465 138 HOH HOH . F 5 HOH H 66 466 100 HOH HOH . F 5 HOH H 67 467 1 HOH HOH . F 5 HOH H 68 468 2 HOH HOH . F 5 HOH H 69 469 3 HOH HOH . F 5 HOH H 70 470 7 HOH HOH . F 5 HOH H 71 471 8 HOH HOH . F 5 HOH H 72 472 10 HOH HOH . F 5 HOH H 73 473 15 HOH HOH . F 5 HOH H 74 474 19 HOH HOH . F 5 HOH H 75 475 20 HOH HOH . F 5 HOH H 76 476 28 HOH HOH . F 5 HOH H 77 477 29 HOH HOH . F 5 HOH H 78 478 30 HOH HOH . F 5 HOH H 79 479 31 HOH HOH . F 5 HOH H 80 480 37 HOH HOH . F 5 HOH H 81 481 38 HOH HOH . F 5 HOH H 82 482 40 HOH HOH . F 5 HOH H 83 483 45 HOH HOH . F 5 HOH H 84 484 50 HOH HOH . F 5 HOH H 85 485 51 HOH HOH . F 5 HOH H 86 486 53 HOH HOH . F 5 HOH H 87 487 59 HOH HOH . F 5 HOH H 88 488 65 HOH HOH . F 5 HOH H 89 489 68 HOH HOH . F 5 HOH H 90 490 70 HOH HOH . F 5 HOH H 91 491 79 HOH HOH . F 5 HOH H 92 492 83 HOH HOH . F 5 HOH H 93 493 87 HOH HOH . F 5 HOH H 94 494 90 HOH HOH . F 5 HOH H 95 495 101 HOH HOH . F 5 HOH H 96 496 107 HOH HOH . F 5 HOH H 97 497 111 HOH HOH . F 5 HOH H 98 498 115 HOH HOH . F 5 HOH H 99 499 126 HOH HOH . F 5 HOH H 100 500 140 HOH HOH . F 5 HOH H 101 501 148 HOH HOH . F 5 HOH H 102 502 150 HOH HOH . F 5 HOH H 103 503 156 HOH HOH . F 5 HOH H 104 504 169 HOH HOH . F 5 HOH H 105 505 175 HOH HOH . F 5 HOH H 106 506 179 HOH HOH . F 5 HOH H 107 507 182 HOH HOH . F 5 HOH H 108 508 187 HOH HOH . F 5 HOH H 109 509 188 HOH HOH . F 5 HOH H 110 510 203 HOH HOH . F 5 HOH H 111 511 226 HOH HOH . F 5 HOH H 112 512 232 HOH HOH . F 5 HOH H 113 513 233 HOH HOH . F 5 HOH H 114 514 242 HOH HOH . G 5 HOH L 1 401 86 HOH HOH . G 5 HOH L 2 402 74 HOH HOH . G 5 HOH L 3 403 13 HOH HOH . G 5 HOH L 4 404 124 HOH HOH . G 5 HOH L 5 405 44 HOH HOH . G 5 HOH L 6 406 61 HOH HOH . G 5 HOH L 7 407 120 HOH HOH . G 5 HOH L 8 408 240 HOH HOH . G 5 HOH L 9 409 157 HOH HOH . G 5 HOH L 10 410 11 HOH HOH . G 5 HOH L 11 411 166 HOH HOH . G 5 HOH L 12 412 78 HOH HOH . G 5 HOH L 13 413 137 HOH HOH . G 5 HOH L 14 414 58 HOH HOH . G 5 HOH L 15 415 160 HOH HOH . G 5 HOH L 16 416 173 HOH HOH . G 5 HOH L 17 417 63 HOH HOH . G 5 HOH L 18 418 67 HOH HOH . G 5 HOH L 19 419 112 HOH HOH . G 5 HOH L 20 420 168 HOH HOH . G 5 HOH L 21 421 4 HOH HOH . G 5 HOH L 22 422 132 HOH HOH . G 5 HOH L 23 423 94 HOH HOH . G 5 HOH L 24 424 211 HOH HOH . G 5 HOH L 25 425 201 HOH HOH . G 5 HOH L 26 426 117 HOH HOH . G 5 HOH L 27 427 109 HOH HOH . G 5 HOH L 28 428 84 HOH HOH . G 5 HOH L 29 429 202 HOH HOH . G 5 HOH L 30 430 62 HOH HOH . G 5 HOH L 31 431 162 HOH HOH . G 5 HOH L 32 432 247 HOH HOH . G 5 HOH L 33 433 174 HOH HOH . G 5 HOH L 34 434 106 HOH HOH . G 5 HOH L 35 435 183 HOH HOH . G 5 HOH L 36 436 172 HOH HOH . G 5 HOH L 37 437 198 HOH HOH . G 5 HOH L 38 438 195 HOH HOH . G 5 HOH L 39 439 21 HOH HOH . G 5 HOH L 40 440 209 HOH HOH . G 5 HOH L 41 441 161 HOH HOH . G 5 HOH L 42 442 121 HOH HOH . G 5 HOH L 43 443 26 HOH HOH . G 5 HOH L 44 444 158 HOH HOH . G 5 HOH L 45 445 178 HOH HOH . G 5 HOH L 46 446 127 HOH HOH . G 5 HOH L 47 447 143 HOH HOH . G 5 HOH L 48 448 206 HOH HOH . G 5 HOH L 49 449 155 HOH HOH . G 5 HOH L 50 450 24 HOH HOH . G 5 HOH L 51 451 9 HOH HOH . G 5 HOH L 52 452 110 HOH HOH . G 5 HOH L 53 453 42 HOH HOH . G 5 HOH L 54 454 213 HOH HOH . G 5 HOH L 55 455 146 HOH HOH . G 5 HOH L 56 456 181 HOH HOH . G 5 HOH L 57 457 230 HOH HOH . G 5 HOH L 58 458 41 HOH HOH . G 5 HOH L 59 459 27 HOH HOH . G 5 HOH L 60 460 39 HOH HOH . G 5 HOH L 61 461 139 HOH HOH . G 5 HOH L 62 462 33 HOH HOH . G 5 HOH L 63 463 236 HOH HOH . G 5 HOH L 64 464 228 HOH HOH . G 5 HOH L 65 465 119 HOH HOH . G 5 HOH L 66 466 234 HOH HOH . G 5 HOH L 67 467 25 HOH HOH . G 5 HOH L 68 468 216 HOH HOH . G 5 HOH L 69 469 191 HOH HOH . G 5 HOH L 70 470 184 HOH HOH . G 5 HOH L 71 471 237 HOH HOH . G 5 HOH L 72 472 192 HOH HOH . G 5 HOH L 73 473 151 HOH HOH . G 5 HOH L 74 474 200 HOH HOH . G 5 HOH L 75 475 5 HOH HOH . G 5 HOH L 76 476 6 HOH HOH . G 5 HOH L 77 477 16 HOH HOH . G 5 HOH L 78 478 17 HOH HOH . G 5 HOH L 79 479 18 HOH HOH . G 5 HOH L 80 480 22 HOH HOH . G 5 HOH L 81 481 23 HOH HOH . G 5 HOH L 82 482 32 HOH HOH . G 5 HOH L 83 483 35 HOH HOH . G 5 HOH L 84 484 36 HOH HOH . G 5 HOH L 85 485 43 HOH HOH . G 5 HOH L 86 486 46 HOH HOH . G 5 HOH L 87 487 48 HOH HOH . G 5 HOH L 88 488 54 HOH HOH . G 5 HOH L 89 489 55 HOH HOH . G 5 HOH L 90 490 57 HOH HOH . G 5 HOH L 91 491 60 HOH HOH . G 5 HOH L 92 492 64 HOH HOH . G 5 HOH L 93 493 66 HOH HOH . G 5 HOH L 94 494 75 HOH HOH . G 5 HOH L 95 495 77 HOH HOH . G 5 HOH L 96 496 80 HOH HOH . G 5 HOH L 97 497 82 HOH HOH . G 5 HOH L 98 498 88 HOH HOH . G 5 HOH L 99 499 93 HOH HOH . G 5 HOH L 100 500 95 HOH HOH . G 5 HOH L 101 501 97 HOH HOH . G 5 HOH L 102 502 98 HOH HOH . G 5 HOH L 103 503 103 HOH HOH . G 5 HOH L 104 504 104 HOH HOH . G 5 HOH L 105 505 113 HOH HOH . G 5 HOH L 106 506 114 HOH HOH . G 5 HOH L 107 507 116 HOH HOH . G 5 HOH L 108 508 128 HOH HOH . G 5 HOH L 109 509 133 HOH HOH . G 5 HOH L 110 510 134 HOH HOH . G 5 HOH L 111 511 135 HOH HOH . G 5 HOH L 112 512 142 HOH HOH . G 5 HOH L 113 513 144 HOH HOH . G 5 HOH L 114 514 149 HOH HOH . G 5 HOH L 115 515 154 HOH HOH . G 5 HOH L 116 516 159 HOH HOH . G 5 HOH L 117 517 167 HOH HOH . G 5 HOH L 118 518 185 HOH HOH . G 5 HOH L 119 519 190 HOH HOH . G 5 HOH L 120 520 197 HOH HOH . G 5 HOH L 121 521 207 HOH HOH . G 5 HOH L 122 522 210 HOH HOH . G 5 HOH L 123 523 214 HOH HOH . G 5 HOH L 124 524 215 HOH HOH . G 5 HOH L 125 525 219 HOH HOH . G 5 HOH L 126 526 220 HOH HOH . G 5 HOH L 127 527 222 HOH HOH . G 5 HOH L 128 528 223 HOH HOH . G 5 HOH L 129 529 224 HOH HOH . G 5 HOH L 130 530 229 HOH HOH . G 5 HOH L 131 531 231 HOH HOH . G 5 HOH L 132 532 239 HOH HOH . G 5 HOH L 133 533 241 HOH HOH . G 5 HOH L 134 534 244 HOH HOH . G 5 HOH L 135 535 246 HOH HOH . G 5 HOH L 136 536 250 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 . . . D 4 -3.563 5.572 16.216 1 52.03 ? C1 GOL 302 H 1 HETATM 2 O O1 GOL . . . D 4 -4.839 5.307 16.788 1 53.17 ? O1 GOL 302 H 1 HETATM 3 C C2 GOL . . . D 4 -2.491 5.604 17.281 1 50.57 ? C2 GOL 302 H 1 HETATM 4 O O2 GOL . . . D 4 -2.164 4.267 17.668 1 50.15 ? O2 GOL 302 H 1 HETATM 5 C C3 GOL . . . D 4 -1.255 6.308 16.768 1 49.07 ? C3 GOL 302 H 1 HETATM 6 O O3 GOL . . . D 4 -0.216 6.3 17.741 1 47.32 ? O3 GOL 302 H 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #