data_4K28 # _model_server_result.job_id VB_uJFe6L2aBSR-fPvTCRw _model_server_result.datetime_utc '2025-01-02 15:51:29' _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 4k28 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":303}' # _entry.id 4K28 # _exptl.entry_id 4K28 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 54.938 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MANGANESE (II) ION' _entity.pdbx_number_of_molecules 6 _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 4K28 _cell.length_a 44.437 _cell.length_b 76.688 _cell.length_c 153.333 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4K28 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 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 software_defined_assembly 1 PISA monomeric 1 software_defined_assembly 2 PISA dimeric 2 software_defined_assembly 3 # 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,L 1 1 B,G,H,I,J,K,M 2 1 B,G,H,I,J,K,M 3 1 A,C,D,E,F,L 3 2 # 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' 3_554 -x,y+1/2,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 38.344 -76.6665 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 E N N ? 3 F N N ? 3 I N N ? 3 J N N ? 3 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 metalc ? metalc1 A SG CYS 34 A CYS 34 1_555 F MN MN . A MN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? metalc ? metalc2 A SG CYS 155 A CYS 155 1_555 D MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc3 A SG CYS 166 A CYS 166 1_555 E MN MN . A MN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc4 B SG CYS 34 B CYS 34 1_555 I MN MN . B MN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc5 B SG CYS 155 B CYS 155 1_555 J MN MN . B MN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc6 B SG CYS 166 B CYS 166 1_555 K MN MN . B MN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? # _chem_comp.formula 'Mn 2' _chem_comp.formula_weight 54.938 _chem_comp.id MN _chem_comp.mon_nstd_flag . _chem_comp.name 'MANGANESE (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 4K28 _atom_sites.fract_transf_matrix[1][1] 0.022504 _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] 0.01304 _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] 0.006522 _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 NAD A 1 301 272 NAD NAD . D 3 MN A 1 302 1 MN MN . E 3 MN A 1 303 2 MN MN . F 3 MN A 1 304 3 MN MN . G 2 NAD B 1 301 272 NAD NAD . H 4 NA B 1 302 1 NA NA . I 3 MN B 1 303 4 MN MN . J 3 MN B 1 304 5 MN MN . K 3 MN B 1 305 6 MN MN . L 5 HOH A 1 401 2 HOH HOH . L 5 HOH A 2 402 3 HOH HOH . L 5 HOH A 3 403 4 HOH HOH . L 5 HOH A 4 404 5 HOH HOH . L 5 HOH A 5 405 8 HOH HOH . L 5 HOH A 6 406 9 HOH HOH . L 5 HOH A 7 407 12 HOH HOH . L 5 HOH A 8 408 13 HOH HOH . L 5 HOH A 9 409 15 HOH HOH . L 5 HOH A 10 410 16 HOH HOH . L 5 HOH A 11 411 18 HOH HOH . L 5 HOH A 12 412 19 HOH HOH . L 5 HOH A 13 413 20 HOH HOH . L 5 HOH A 14 414 23 HOH HOH . L 5 HOH A 15 415 25 HOH HOH . L 5 HOH A 16 416 26 HOH HOH . L 5 HOH A 17 417 32 HOH HOH . L 5 HOH A 18 418 34 HOH HOH . L 5 HOH A 19 419 39 HOH HOH . L 5 HOH A 20 420 40 HOH HOH . L 5 HOH A 21 421 41 HOH HOH . L 5 HOH A 22 422 44 HOH HOH . L 5 HOH A 23 423 46 HOH HOH . L 5 HOH A 24 424 49 HOH HOH . L 5 HOH A 25 425 50 HOH HOH . L 5 HOH A 26 426 52 HOH HOH . L 5 HOH A 27 427 53 HOH HOH . L 5 HOH A 28 428 55 HOH HOH . L 5 HOH A 29 429 56 HOH HOH . L 5 HOH A 30 430 60 HOH HOH . L 5 HOH A 31 431 61 HOH HOH . L 5 HOH A 32 432 67 HOH HOH . L 5 HOH A 33 433 68 HOH HOH . L 5 HOH A 34 434 70 HOH HOH . L 5 HOH A 35 435 75 HOH HOH . L 5 HOH A 36 436 78 HOH HOH . L 5 HOH A 37 437 79 HOH HOH . L 5 HOH A 38 438 81 HOH HOH . L 5 HOH A 39 439 86 HOH HOH . L 5 HOH A 40 440 87 HOH HOH . L 5 HOH A 41 441 90 HOH HOH . L 5 HOH A 42 442 92 HOH HOH . L 5 HOH A 43 443 95 HOH HOH . L 5 HOH A 44 444 97 HOH HOH . L 5 HOH A 45 445 99 HOH HOH . L 5 HOH A 46 446 101 HOH HOH . L 5 HOH A 47 447 102 HOH HOH . L 5 HOH A 48 448 105 HOH HOH . L 5 HOH A 49 449 106 HOH HOH . L 5 HOH A 50 450 107 HOH HOH . L 5 HOH A 51 451 108 HOH HOH . L 5 HOH A 52 452 109 HOH HOH . L 5 HOH A 53 453 110 HOH HOH . L 5 HOH A 54 454 111 HOH HOH . L 5 HOH A 55 455 112 HOH HOH . L 5 HOH A 56 456 113 HOH HOH . L 5 HOH A 57 457 114 HOH HOH . L 5 HOH A 58 458 115 HOH HOH . L 5 HOH A 59 459 116 HOH HOH . L 5 HOH A 60 460 118 HOH HOH . L 5 HOH A 61 461 119 HOH HOH . L 5 HOH A 62 462 120 HOH HOH . L 5 HOH A 63 463 121 HOH HOH . L 5 HOH A 64 464 122 HOH HOH . L 5 HOH A 65 465 123 HOH HOH . L 5 HOH A 66 466 124 HOH HOH . L 5 HOH A 67 467 133 HOH HOH . L 5 HOH A 68 468 136 HOH HOH . L 5 HOH A 69 469 138 HOH HOH . L 5 HOH A 70 470 140 HOH HOH . L 5 HOH A 71 471 141 HOH HOH . L 5 HOH A 72 472 143 HOH HOH . L 5 HOH A 73 473 144 HOH HOH . L 5 HOH A 74 474 145 HOH HOH . L 5 HOH A 75 475 146 HOH HOH . L 5 HOH A 76 476 148 HOH HOH . L 5 HOH A 77 477 151 HOH HOH . L 5 HOH A 78 478 152 HOH HOH . L 5 HOH A 79 479 154 HOH HOH . L 5 HOH A 80 480 155 HOH HOH . L 5 HOH A 81 481 156 HOH HOH . L 5 HOH A 82 482 159 HOH HOH . L 5 HOH A 83 483 160 HOH HOH . L 5 HOH A 84 484 162 HOH HOH . L 5 HOH A 85 485 163 HOH HOH . L 5 HOH A 86 486 164 HOH HOH . L 5 HOH A 87 487 165 HOH HOH . L 5 HOH A 88 488 166 HOH HOH . L 5 HOH A 89 489 168 HOH HOH . L 5 HOH A 90 490 171 HOH HOH . L 5 HOH A 91 491 173 HOH HOH . L 5 HOH A 92 492 174 HOH HOH . L 5 HOH A 93 493 176 HOH HOH . L 5 HOH A 94 494 178 HOH HOH . L 5 HOH A 95 495 179 HOH HOH . L 5 HOH A 96 496 180 HOH HOH . L 5 HOH A 97 497 181 HOH HOH . L 5 HOH A 98 498 182 HOH HOH . L 5 HOH A 99 499 188 HOH HOH . L 5 HOH A 100 500 193 HOH HOH . L 5 HOH A 101 501 195 HOH HOH . L 5 HOH A 102 502 197 HOH HOH . L 5 HOH A 103 503 202 HOH HOH . L 5 HOH A 104 504 204 HOH HOH . L 5 HOH A 105 505 205 HOH HOH . L 5 HOH A 106 506 206 HOH HOH . L 5 HOH A 107 507 209 HOH HOH . L 5 HOH A 108 508 212 HOH HOH . L 5 HOH A 109 509 213 HOH HOH . L 5 HOH A 110 510 214 HOH HOH . L 5 HOH A 111 511 215 HOH HOH . L 5 HOH A 112 512 216 HOH HOH . L 5 HOH A 113 513 217 HOH HOH . L 5 HOH A 114 514 218 HOH HOH . L 5 HOH A 115 515 219 HOH HOH . L 5 HOH A 116 516 220 HOH HOH . L 5 HOH A 117 517 223 HOH HOH . L 5 HOH A 118 518 224 HOH HOH . L 5 HOH A 119 519 225 HOH HOH . L 5 HOH A 120 520 227 HOH HOH . L 5 HOH A 121 521 229 HOH HOH . L 5 HOH A 122 522 231 HOH HOH . L 5 HOH A 123 523 232 HOH HOH . L 5 HOH A 124 524 233 HOH HOH . L 5 HOH A 125 525 235 HOH HOH . L 5 HOH A 126 526 238 HOH HOH . L 5 HOH A 127 527 240 HOH HOH . L 5 HOH A 128 528 242 HOH HOH . L 5 HOH A 129 529 243 HOH HOH . L 5 HOH A 130 530 245 HOH HOH . L 5 HOH A 131 531 247 HOH HOH . L 5 HOH A 132 532 252 HOH HOH . L 5 HOH A 133 533 253 HOH HOH . L 5 HOH A 134 534 254 HOH HOH . L 5 HOH A 135 535 255 HOH HOH . L 5 HOH A 136 536 256 HOH HOH . L 5 HOH A 137 537 257 HOH HOH . M 5 HOH B 1 401 1 HOH HOH . M 5 HOH B 2 402 6 HOH HOH . M 5 HOH B 3 403 7 HOH HOH . M 5 HOH B 4 404 10 HOH HOH . M 5 HOH B 5 405 11 HOH HOH . M 5 HOH B 6 406 14 HOH HOH . M 5 HOH B 7 407 17 HOH HOH . M 5 HOH B 8 408 21 HOH HOH . M 5 HOH B 9 409 22 HOH HOH . M 5 HOH B 10 410 24 HOH HOH . M 5 HOH B 11 411 27 HOH HOH . M 5 HOH B 12 412 28 HOH HOH . M 5 HOH B 13 413 29 HOH HOH . M 5 HOH B 14 414 30 HOH HOH . M 5 HOH B 15 415 31 HOH HOH . M 5 HOH B 16 416 33 HOH HOH . M 5 HOH B 17 417 35 HOH HOH . M 5 HOH B 18 418 36 HOH HOH . M 5 HOH B 19 419 37 HOH HOH . M 5 HOH B 20 420 38 HOH HOH . M 5 HOH B 21 421 42 HOH HOH . M 5 HOH B 22 422 43 HOH HOH . M 5 HOH B 23 423 45 HOH HOH . M 5 HOH B 24 424 47 HOH HOH . M 5 HOH B 25 425 48 HOH HOH . M 5 HOH B 26 426 51 HOH HOH . M 5 HOH B 27 427 54 HOH HOH . M 5 HOH B 28 428 57 HOH HOH . M 5 HOH B 29 429 58 HOH HOH . M 5 HOH B 30 430 59 HOH HOH . M 5 HOH B 31 431 62 HOH HOH . M 5 HOH B 32 432 63 HOH HOH . M 5 HOH B 33 433 64 HOH HOH . M 5 HOH B 34 434 65 HOH HOH . M 5 HOH B 35 435 66 HOH HOH . M 5 HOH B 36 436 69 HOH HOH . M 5 HOH B 37 437 71 HOH HOH . M 5 HOH B 38 438 72 HOH HOH . M 5 HOH B 39 439 73 HOH HOH . M 5 HOH B 40 440 74 HOH HOH . M 5 HOH B 41 441 76 HOH HOH . M 5 HOH B 42 442 77 HOH HOH . M 5 HOH B 43 443 80 HOH HOH . M 5 HOH B 44 444 82 HOH HOH . M 5 HOH B 45 445 83 HOH HOH . M 5 HOH B 46 446 84 HOH HOH . M 5 HOH B 47 447 85 HOH HOH . M 5 HOH B 48 448 88 HOH HOH . M 5 HOH B 49 449 89 HOH HOH . M 5 HOH B 50 450 91 HOH HOH . M 5 HOH B 51 451 93 HOH HOH . M 5 HOH B 52 452 94 HOH HOH . M 5 HOH B 53 453 96 HOH HOH . M 5 HOH B 54 454 98 HOH HOH . M 5 HOH B 55 455 100 HOH HOH . M 5 HOH B 56 456 103 HOH HOH . M 5 HOH B 57 457 104 HOH HOH . M 5 HOH B 58 458 117 HOH HOH . M 5 HOH B 59 459 125 HOH HOH . M 5 HOH B 60 460 126 HOH HOH . M 5 HOH B 61 461 127 HOH HOH . M 5 HOH B 62 462 128 HOH HOH . M 5 HOH B 63 463 129 HOH HOH . M 5 HOH B 64 464 130 HOH HOH . M 5 HOH B 65 465 131 HOH HOH . M 5 HOH B 66 466 132 HOH HOH . M 5 HOH B 67 467 134 HOH HOH . M 5 HOH B 68 468 135 HOH HOH . M 5 HOH B 69 469 137 HOH HOH . M 5 HOH B 70 470 139 HOH HOH . M 5 HOH B 71 471 142 HOH HOH . M 5 HOH B 72 472 147 HOH HOH . M 5 HOH B 73 473 149 HOH HOH . M 5 HOH B 74 474 150 HOH HOH . M 5 HOH B 75 475 153 HOH HOH . M 5 HOH B 76 476 157 HOH HOH . M 5 HOH B 77 477 158 HOH HOH . M 5 HOH B 78 478 161 HOH HOH . M 5 HOH B 79 479 167 HOH HOH . M 5 HOH B 80 480 169 HOH HOH . M 5 HOH B 81 481 170 HOH HOH . M 5 HOH B 82 482 172 HOH HOH . M 5 HOH B 83 483 175 HOH HOH . M 5 HOH B 84 484 177 HOH HOH . M 5 HOH B 85 485 183 HOH HOH . M 5 HOH B 86 486 184 HOH HOH . M 5 HOH B 87 487 185 HOH HOH . M 5 HOH B 88 488 186 HOH HOH . M 5 HOH B 89 489 187 HOH HOH . M 5 HOH B 90 490 189 HOH HOH . M 5 HOH B 91 491 190 HOH HOH . M 5 HOH B 92 492 191 HOH HOH . M 5 HOH B 93 493 192 HOH HOH . M 5 HOH B 94 494 194 HOH HOH . M 5 HOH B 95 495 196 HOH HOH . M 5 HOH B 96 496 198 HOH HOH . M 5 HOH B 97 497 199 HOH HOH . M 5 HOH B 98 498 200 HOH HOH . M 5 HOH B 99 499 201 HOH HOH . M 5 HOH B 100 500 203 HOH HOH . M 5 HOH B 101 501 207 HOH HOH . M 5 HOH B 102 502 208 HOH HOH . M 5 HOH B 103 503 210 HOH HOH . M 5 HOH B 104 504 211 HOH HOH . M 5 HOH B 105 505 221 HOH HOH . M 5 HOH B 106 506 222 HOH HOH . M 5 HOH B 107 507 226 HOH HOH . M 5 HOH B 108 508 228 HOH HOH . M 5 HOH B 109 509 230 HOH HOH . M 5 HOH B 110 510 234 HOH HOH . M 5 HOH B 111 511 236 HOH HOH . M 5 HOH B 112 512 237 HOH HOH . M 5 HOH B 113 513 239 HOH HOH . M 5 HOH B 114 514 241 HOH HOH . M 5 HOH B 115 515 244 HOH HOH . M 5 HOH B 116 516 246 HOH HOH . M 5 HOH B 117 517 248 HOH HOH . M 5 HOH B 118 518 249 HOH HOH . M 5 HOH B 119 519 250 HOH HOH . M 5 HOH B 120 520 251 HOH HOH . M 5 HOH B 121 521 258 HOH HOH . M 5 HOH B 122 522 259 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MN _atom_site.label_atom_id MN _atom_site.label_comp_id MN _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id E _atom_site.label_entity_id 3 _atom_site.Cartn_x -22.746 _atom_site.Cartn_y 8.102 _atom_site.Cartn_z -1.994 _atom_site.occupancy 0.67 _atom_site.B_iso_or_equiv 38.79 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MN _atom_site.auth_comp_id MN _atom_site.auth_seq_id 303 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 62 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #