data_4NJ4 # _model_server_result.job_id b-INVYmWlfki4POwqDUpJA _model_server_result.datetime_utc '2024-11-24 03:45:04' _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 4nj4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":304}' # _entry.id 4NJ4 # _exptl.entry_id 4NJ4 _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 3 _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 4NJ4 _cell.length_a 67.1 _cell.length_b 82.66 _cell.length_c 89.171 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4NJ4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 2 21 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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_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,C,D,E,F,G,M 1 1 B,H,I,J,K,L,N 2 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 E N N ? 4 F N N ? 4 K 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 188 A CYS 230 1_555 A SG CYS 225 A CYS 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? disulf ? disulf2 B SG CYS 188 B CYS 230 1_555 B SG CYS 225 B CYS 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? covale ? covale1 A SG CYS 158 A CYS 200 1_555 G C7 UN9 . A UN9 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.812 ? covale ? covale2 B SG CYS 158 B CYS 200 1_555 L C7 UN9 . B UN9 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.768 ? metalc ? metalc1 A NE2 HIS 162 A HIS 204 1_555 C MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc2 A OD1 ASP 164 A ASP 206 1_555 C MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.232 ? metalc ? metalc3 A NE2 HIS 224 A HIS 266 1_555 C MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc4 C MN MN . A MN 301 1_555 M O HOH . A HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc5 C MN MN . A MN 301 1_555 M O HOH . A HOH 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.212 ? metalc ? metalc6 C MN MN . A MN 301 1_555 M O HOH . A HOH 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc7 B NE2 HIS 162 B HIS 204 1_555 H MN MN . B MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? metalc ? metalc8 B OD1 ASP 164 B ASP 206 1_555 H MN MN . B MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc9 B NE2 HIS 224 B HIS 266 1_555 H MN MN . B MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? metalc ? metalc10 H MN MN . B MN 301 1_555 N O HOH . B HOH 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.235 ? metalc ? metalc11 H MN MN . B MN 301 1_555 N O HOH . B HOH 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc12 H MN MN . B MN 301 1_555 N O HOH . B HOH 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? # _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 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 4NJ4 _atom_sites.fract_transf_matrix[1][1] 0.014903 _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] 0.012098 _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] 0.011214 _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 2 MN A 1 301 301 MN MN . D 3 NO3 A 1 302 401 NO3 NO3 . E 4 GOL A 1 303 501 GOL GOL . F 4 GOL A 1 304 601 GOL GOL . G 5 UN9 A 1 305 701 UN9 UN9 . H 2 MN B 1 301 301 MN MN . I 3 NO3 B 1 302 401 NO3 NO3 . J 3 NO3 B 1 303 501 NO3 NO3 . K 4 GOL B 1 304 601 GOL GOL . L 5 UN9 B 1 305 701 UN9 UN9 . M 6 HOH A 1 401 1 HOH HOH . M 6 HOH A 2 402 2 HOH HOH . M 6 HOH A 3 403 4 HOH HOH . M 6 HOH A 4 404 6 HOH HOH . M 6 HOH A 5 405 7 HOH HOH . M 6 HOH A 6 406 8 HOH HOH . M 6 HOH A 7 407 9 HOH HOH . M 6 HOH A 8 408 10 HOH HOH . M 6 HOH A 9 409 12 HOH HOH . M 6 HOH A 10 410 13 HOH HOH . M 6 HOH A 11 411 14 HOH HOH . M 6 HOH A 12 412 15 HOH HOH . M 6 HOH A 13 413 16 HOH HOH . M 6 HOH A 14 414 17 HOH HOH . M 6 HOH A 15 415 18 HOH HOH . M 6 HOH A 16 416 19 HOH HOH . M 6 HOH A 17 417 21 HOH HOH . M 6 HOH A 18 418 22 HOH HOH . M 6 HOH A 19 419 24 HOH HOH . M 6 HOH A 20 420 26 HOH HOH . M 6 HOH A 21 421 27 HOH HOH . M 6 HOH A 22 422 28 HOH HOH . M 6 HOH A 23 423 30 HOH HOH . M 6 HOH A 24 424 32 HOH HOH . M 6 HOH A 25 425 35 HOH HOH . M 6 HOH A 26 426 37 HOH HOH . M 6 HOH A 27 427 38 HOH HOH . M 6 HOH A 28 428 39 HOH HOH . M 6 HOH A 29 429 40 HOH HOH . M 6 HOH A 30 430 41 HOH HOH . M 6 HOH A 31 431 42 HOH HOH . M 6 HOH A 32 432 43 HOH HOH . M 6 HOH A 33 433 44 HOH HOH . M 6 HOH A 34 434 46 HOH HOH . M 6 HOH A 35 435 50 HOH HOH . M 6 HOH A 36 436 51 HOH HOH . M 6 HOH A 37 437 52 HOH HOH . M 6 HOH A 38 438 54 HOH HOH . M 6 HOH A 39 439 57 HOH HOH . M 6 HOH A 40 440 60 HOH HOH . M 6 HOH A 41 441 61 HOH HOH . M 6 HOH A 42 442 62 HOH HOH . M 6 HOH A 43 443 65 HOH HOH . M 6 HOH A 44 444 67 HOH HOH . M 6 HOH A 45 445 69 HOH HOH . M 6 HOH A 46 446 72 HOH HOH . M 6 HOH A 47 447 73 HOH HOH . M 6 HOH A 48 448 76 HOH HOH . M 6 HOH A 49 449 78 HOH HOH . M 6 HOH A 50 450 80 HOH HOH . M 6 HOH A 51 451 81 HOH HOH . M 6 HOH A 52 452 82 HOH HOH . M 6 HOH A 53 453 85 HOH HOH . M 6 HOH A 54 454 86 HOH HOH . M 6 HOH A 55 455 87 HOH HOH . M 6 HOH A 56 456 89 HOH HOH . M 6 HOH A 57 457 90 HOH HOH . M 6 HOH A 58 458 92 HOH HOH . M 6 HOH A 59 459 95 HOH HOH . M 6 HOH A 60 460 97 HOH HOH . M 6 HOH A 61 461 98 HOH HOH . M 6 HOH A 62 462 99 HOH HOH . M 6 HOH A 63 463 100 HOH HOH . M 6 HOH A 64 464 104 HOH HOH . M 6 HOH A 65 465 106 HOH HOH . M 6 HOH A 66 466 107 HOH HOH . M 6 HOH A 67 467 108 HOH HOH . M 6 HOH A 68 468 109 HOH HOH . M 6 HOH A 69 469 110 HOH HOH . M 6 HOH A 70 470 118 HOH HOH . M 6 HOH A 71 471 119 HOH HOH . M 6 HOH A 72 472 121 HOH HOH . M 6 HOH A 73 473 122 HOH HOH . M 6 HOH A 74 474 123 HOH HOH . M 6 HOH A 75 475 126 HOH HOH . M 6 HOH A 76 476 127 HOH HOH . M 6 HOH A 77 477 128 HOH HOH . M 6 HOH A 78 478 134 HOH HOH . M 6 HOH A 79 479 135 HOH HOH . M 6 HOH A 80 480 136 HOH HOH . M 6 HOH A 81 481 138 HOH HOH . M 6 HOH A 82 482 140 HOH HOH . M 6 HOH A 83 483 141 HOH HOH . M 6 HOH A 84 484 142 HOH HOH . M 6 HOH A 85 485 151 HOH HOH . M 6 HOH A 86 486 155 HOH HOH . M 6 HOH A 87 487 156 HOH HOH . M 6 HOH A 88 488 159 HOH HOH . M 6 HOH A 89 489 160 HOH HOH . M 6 HOH A 90 490 161 HOH HOH . M 6 HOH A 91 491 162 HOH HOH . M 6 HOH A 92 492 167 HOH HOH . M 6 HOH A 93 493 168 HOH HOH . M 6 HOH A 94 494 170 HOH HOH . M 6 HOH A 95 495 171 HOH HOH . M 6 HOH A 96 496 173 HOH HOH . M 6 HOH A 97 497 176 HOH HOH . M 6 HOH A 98 498 178 HOH HOH . M 6 HOH A 99 499 179 HOH HOH . M 6 HOH A 100 500 180 HOH HOH . M 6 HOH A 101 501 182 HOH HOH . M 6 HOH A 102 502 183 HOH HOH . M 6 HOH A 103 503 185 HOH HOH . M 6 HOH A 104 504 188 HOH HOH . M 6 HOH A 105 505 190 HOH HOH . M 6 HOH A 106 506 193 HOH HOH . M 6 HOH A 107 507 194 HOH HOH . M 6 HOH A 108 508 199 HOH HOH . M 6 HOH A 109 509 200 HOH HOH . M 6 HOH A 110 510 201 HOH HOH . M 6 HOH A 111 511 204 HOH HOH . M 6 HOH A 112 512 208 HOH HOH . M 6 HOH A 113 513 216 HOH HOH . M 6 HOH A 114 514 218 HOH HOH . M 6 HOH A 115 515 219 HOH HOH . M 6 HOH A 116 516 222 HOH HOH . M 6 HOH A 117 517 224 HOH HOH . M 6 HOH A 118 518 239 HOH HOH . M 6 HOH A 119 519 240 HOH HOH . M 6 HOH A 120 520 248 HOH HOH . M 6 HOH A 121 521 254 HOH HOH . M 6 HOH A 122 522 256 HOH HOH . M 6 HOH A 123 523 257 HOH HOH . M 6 HOH A 124 524 258 HOH HOH . M 6 HOH A 125 525 259 HOH HOH . M 6 HOH A 126 526 260 HOH HOH . M 6 HOH A 127 527 261 HOH HOH . M 6 HOH A 128 528 262 HOH HOH . M 6 HOH A 129 529 265 HOH HOH . M 6 HOH A 130 530 267 HOH HOH . M 6 HOH A 131 531 268 HOH HOH . M 6 HOH A 132 532 269 HOH HOH . M 6 HOH A 133 533 277 HOH HOH . M 6 HOH A 134 534 278 HOH HOH . M 6 HOH A 135 535 283 HOH HOH . M 6 HOH A 136 536 284 HOH HOH . M 6 HOH A 137 537 285 HOH HOH . M 6 HOH A 138 538 286 HOH HOH . M 6 HOH A 139 539 289 HOH HOH . M 6 HOH A 140 540 296 HOH HOH . M 6 HOH A 141 541 297 HOH HOH . M 6 HOH A 142 542 298 HOH HOH . M 6 HOH A 143 543 302 HOH HOH . N 6 HOH B 1 401 3 HOH HOH . N 6 HOH B 2 402 5 HOH HOH . N 6 HOH B 3 403 20 HOH HOH . N 6 HOH B 4 404 23 HOH HOH . N 6 HOH B 5 405 25 HOH HOH . N 6 HOH B 6 406 29 HOH HOH . N 6 HOH B 7 407 31 HOH HOH . N 6 HOH B 8 408 33 HOH HOH . N 6 HOH B 9 409 34 HOH HOH . N 6 HOH B 10 410 36 HOH HOH . N 6 HOH B 11 411 47 HOH HOH . N 6 HOH B 12 412 48 HOH HOH . N 6 HOH B 13 413 49 HOH HOH . N 6 HOH B 14 414 53 HOH HOH . N 6 HOH B 15 415 55 HOH HOH . N 6 HOH B 16 416 59 HOH HOH . N 6 HOH B 17 417 63 HOH HOH . N 6 HOH B 18 418 66 HOH HOH . N 6 HOH B 19 419 70 HOH HOH . N 6 HOH B 20 420 71 HOH HOH . N 6 HOH B 21 421 74 HOH HOH . N 6 HOH B 22 422 77 HOH HOH . N 6 HOH B 23 423 84 HOH HOH . N 6 HOH B 24 424 88 HOH HOH . N 6 HOH B 25 425 91 HOH HOH . N 6 HOH B 26 426 93 HOH HOH . N 6 HOH B 27 427 94 HOH HOH . N 6 HOH B 28 428 96 HOH HOH . N 6 HOH B 29 429 101 HOH HOH . N 6 HOH B 30 430 102 HOH HOH . N 6 HOH B 31 431 103 HOH HOH . N 6 HOH B 32 432 105 HOH HOH . N 6 HOH B 33 433 111 HOH HOH . N 6 HOH B 34 434 113 HOH HOH . N 6 HOH B 35 435 114 HOH HOH . N 6 HOH B 36 436 116 HOH HOH . N 6 HOH B 37 437 117 HOH HOH . N 6 HOH B 38 438 120 HOH HOH . N 6 HOH B 39 439 129 HOH HOH . N 6 HOH B 40 440 130 HOH HOH . N 6 HOH B 41 441 139 HOH HOH . N 6 HOH B 42 442 143 HOH HOH . N 6 HOH B 43 443 144 HOH HOH . N 6 HOH B 44 444 148 HOH HOH . N 6 HOH B 45 445 149 HOH HOH . N 6 HOH B 46 446 165 HOH HOH . N 6 HOH B 47 447 166 HOH HOH . N 6 HOH B 48 448 174 HOH HOH . N 6 HOH B 49 449 175 HOH HOH . N 6 HOH B 50 450 177 HOH HOH . N 6 HOH B 51 451 181 HOH HOH . N 6 HOH B 52 452 184 HOH HOH . N 6 HOH B 53 453 187 HOH HOH . N 6 HOH B 54 454 195 HOH HOH . N 6 HOH B 55 455 198 HOH HOH . N 6 HOH B 56 456 202 HOH HOH . N 6 HOH B 57 457 205 HOH HOH . N 6 HOH B 58 458 207 HOH HOH . N 6 HOH B 59 459 215 HOH HOH . N 6 HOH B 60 460 220 HOH HOH . N 6 HOH B 61 461 221 HOH HOH . N 6 HOH B 62 462 223 HOH HOH . N 6 HOH B 63 463 238 HOH HOH . N 6 HOH B 64 464 241 HOH HOH . N 6 HOH B 65 465 244 HOH HOH . N 6 HOH B 66 466 250 HOH HOH . N 6 HOH B 67 467 251 HOH HOH . N 6 HOH B 68 468 252 HOH HOH . N 6 HOH B 69 469 253 HOH HOH . N 6 HOH B 70 470 263 HOH HOH . N 6 HOH B 71 471 264 HOH HOH . N 6 HOH B 72 472 270 HOH HOH . N 6 HOH B 73 473 276 HOH HOH . N 6 HOH B 74 474 291 HOH HOH . N 6 HOH B 75 475 292 HOH HOH . N 6 HOH B 76 476 293 HOH HOH . N 6 HOH B 77 477 294 HOH HOH . N 6 HOH B 78 478 295 HOH HOH . N 6 HOH B 79 479 299 HOH HOH . N 6 HOH B 80 480 301 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 . . . K 4 -16.907 76.96 111.239 1 81.74 ? C1 GOL 304 B 1 HETATM 2 O O1 GOL . . . K 4 -16.6 77.007 112.615 1 64.38 ? O1 GOL 304 B 1 HETATM 3 C C2 GOL . . . K 4 -17.948 78.031 110.923 1 84.16 ? C2 GOL 304 B 1 HETATM 4 O O2 GOL . . . K 4 -17.368 79.312 111.045 1 80.06 ? O2 GOL 304 B 1 HETATM 5 C C3 GOL . . . K 4 -18.515 77.868 109.517 1 70.35 ? C3 GOL 304 B 1 HETATM 6 O O3 GOL . . . K 4 -19.164 79.066 109.139 1 77.91 ? O3 GOL 304 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 373 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #