data_1YVT # _model_server_result.job_id sck7jo1v0vxqCnXlMIBQJg _model_server_result.datetime_utc '2024-11-22 13:18:55' _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 1yvt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":501}' # _entry.id 1YVT # _exptl.entry_id 1YVT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 28.01 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CARBON MONOXIDE' _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 1YVT _cell.length_a 53.502 _cell.length_b 53.502 _cell.length_c 191.958 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YVT _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 8_445 -y-1,-x-1,-z+1/2 0 -1 0 -1 0 0 0 0 -1 -53.502 -53.502 95.979 # 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 F 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 NE2 HIS 87 A HIS 87 1_555 C FE HEM . A HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc2 C FE HEM . A HEM 401 1_555 D C CMO . A CMO 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.859 ? metalc ? metalc3 C FE HEM . A HEM 401 1_555 D O CMO . A CMO 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.96 ? metalc ? metalc4 B NE2 HIS 92 B HIS 92 1_555 E FE HEM . B HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc5 E FE HEM . B HEM 402 1_555 F C CMO . B CMO 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.847 ? metalc ? metalc6 E FE HEM . B HEM 402 1_555 F O CMO . B CMO 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.903 ? # _chem_comp.formula 'C O' _chem_comp.formula_weight 28.01 _chem_comp.id CMO _chem_comp.mon_nstd_flag . _chem_comp.name 'CARBON MONOXIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _chem_comp_bond.atom_id_1 C _chem_comp_bond.atom_id_2 O _chem_comp_bond.comp_id CMO _chem_comp_bond.value_order trip _chem_comp_bond.pdbx_ordinal 70 _chem_comp_bond.pdbx_stereo_config n _chem_comp_bond.pdbx_aromatic_flag n # _atom_sites.entry_id 1YVT _atom_sites.fract_transf_matrix[1][1] 0.018691 _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] 0.018691 _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] 0.005209 _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 HEM A 1 401 201 HEM HEM . D 4 CMO A 1 501 301 CMO CMO . E 3 HEM B 1 402 202 HEM HEM . F 4 CMO B 1 502 302 CMO CMO . G 5 GOL B 1 503 203 GOL GOL . H 6 HOH A 1 502 1 HOH HOH . H 6 HOH A 2 503 3 HOH HOH . H 6 HOH A 3 504 4 HOH HOH . H 6 HOH A 4 505 7 HOH HOH . H 6 HOH A 5 506 10 HOH HOH . H 6 HOH A 6 507 11 HOH HOH . H 6 HOH A 7 508 14 HOH HOH . H 6 HOH A 8 509 15 HOH HOH . H 6 HOH A 9 510 16 HOH HOH . H 6 HOH A 10 511 17 HOH HOH . H 6 HOH A 11 512 18 HOH HOH . H 6 HOH A 12 513 19 HOH HOH . H 6 HOH A 13 514 22 HOH HOH . H 6 HOH A 14 515 23 HOH HOH . H 6 HOH A 15 516 25 HOH HOH . H 6 HOH A 16 517 26 HOH HOH . H 6 HOH A 17 518 28 HOH HOH . H 6 HOH A 18 519 29 HOH HOH . H 6 HOH A 19 520 30 HOH HOH . H 6 HOH A 20 521 32 HOH HOH . H 6 HOH A 21 522 33 HOH HOH . H 6 HOH A 22 523 36 HOH HOH . H 6 HOH A 23 524 37 HOH HOH . H 6 HOH A 24 525 39 HOH HOH . H 6 HOH A 25 526 40 HOH HOH . H 6 HOH A 26 527 43 HOH HOH . H 6 HOH A 27 528 44 HOH HOH . H 6 HOH A 28 529 46 HOH HOH . H 6 HOH A 29 530 48 HOH HOH . H 6 HOH A 30 531 49 HOH HOH . H 6 HOH A 31 532 53 HOH HOH . H 6 HOH A 32 533 57 HOH HOH . H 6 HOH A 33 534 59 HOH HOH . H 6 HOH A 34 535 64 HOH HOH . H 6 HOH A 35 536 67 HOH HOH . H 6 HOH A 36 537 70 HOH HOH . H 6 HOH A 37 538 71 HOH HOH . H 6 HOH A 38 539 76 HOH HOH . H 6 HOH A 39 540 79 HOH HOH . H 6 HOH A 40 541 82 HOH HOH . H 6 HOH A 41 542 85 HOH HOH . H 6 HOH A 42 543 87 HOH HOH . H 6 HOH A 43 544 90 HOH HOH . H 6 HOH A 44 545 93 HOH HOH . H 6 HOH A 45 546 94 HOH HOH . H 6 HOH A 46 547 95 HOH HOH . H 6 HOH A 47 548 97 HOH HOH . H 6 HOH A 48 549 98 HOH HOH . H 6 HOH A 49 550 99 HOH HOH . H 6 HOH A 50 551 100 HOH HOH . H 6 HOH A 51 552 101 HOH HOH . H 6 HOH A 52 553 103 HOH HOH . H 6 HOH A 53 554 104 HOH HOH . H 6 HOH A 54 555 105 HOH HOH . H 6 HOH A 55 556 106 HOH HOH . H 6 HOH A 56 557 109 HOH HOH . H 6 HOH A 57 558 113 HOH HOH . H 6 HOH A 58 559 114 HOH HOH . H 6 HOH A 59 560 116 HOH HOH . H 6 HOH A 60 561 117 HOH HOH . H 6 HOH A 61 562 119 HOH HOH . H 6 HOH A 62 563 120 HOH HOH . H 6 HOH A 63 564 122 HOH HOH . H 6 HOH A 64 565 127 HOH HOH . H 6 HOH A 65 566 128 HOH HOH . H 6 HOH A 66 567 129 HOH HOH . H 6 HOH A 67 568 131 HOH HOH . H 6 HOH A 68 569 132 HOH HOH . H 6 HOH A 69 570 134 HOH HOH . H 6 HOH A 70 571 137 HOH HOH . H 6 HOH A 71 572 139 HOH HOH . H 6 HOH A 72 573 142 HOH HOH . H 6 HOH A 73 574 143 HOH HOH . H 6 HOH A 74 575 145 HOH HOH . H 6 HOH A 75 576 146 HOH HOH . H 6 HOH A 76 577 148 HOH HOH . H 6 HOH A 77 578 151 HOH HOH . H 6 HOH A 78 579 152 HOH HOH . H 6 HOH A 79 580 154 HOH HOH . H 6 HOH A 80 581 156 HOH HOH . H 6 HOH A 81 582 157 HOH HOH . H 6 HOH A 82 583 158 HOH HOH . H 6 HOH A 83 584 161 HOH HOH . H 6 HOH A 84 585 167 HOH HOH . H 6 HOH A 85 586 172 HOH HOH . H 6 HOH A 86 587 173 HOH HOH . H 6 HOH A 87 588 174 HOH HOH . H 6 HOH A 88 589 176 HOH HOH . H 6 HOH A 89 590 177 HOH HOH . H 6 HOH A 90 591 180 HOH HOH . H 6 HOH A 91 592 181 HOH HOH . H 6 HOH A 92 593 182 HOH HOH . H 6 HOH A 93 594 189 HOH HOH . H 6 HOH A 94 595 190 HOH HOH . H 6 HOH A 95 596 192 HOH HOH . H 6 HOH A 96 597 193 HOH HOH . H 6 HOH A 97 598 198 HOH HOH . H 6 HOH A 98 599 203 HOH HOH . H 6 HOH A 99 600 204 HOH HOH . H 6 HOH A 100 601 210 HOH HOH . H 6 HOH A 101 602 212 HOH HOH . H 6 HOH A 102 603 216 HOH HOH . H 6 HOH A 103 604 226 HOH HOH . H 6 HOH A 104 605 229 HOH HOH . H 6 HOH A 105 606 230 HOH HOH . H 6 HOH A 106 607 231 HOH HOH . H 6 HOH A 107 608 236 HOH HOH . H 6 HOH A 108 609 240 HOH HOH . H 6 HOH A 109 610 242 HOH HOH . H 6 HOH A 110 611 245 HOH HOH . H 6 HOH A 111 612 248 HOH HOH . H 6 HOH A 112 613 251 HOH HOH . H 6 HOH A 113 614 252 HOH HOH . H 6 HOH A 114 615 255 HOH HOH . H 6 HOH A 115 616 256 HOH HOH . H 6 HOH A 116 617 282 HOH HOH . H 6 HOH A 117 618 298 HOH HOH . I 6 HOH B 1 504 2 HOH HOH . I 6 HOH B 2 505 6 HOH HOH . I 6 HOH B 3 506 8 HOH HOH . I 6 HOH B 4 507 9 HOH HOH . I 6 HOH B 5 508 12 HOH HOH . I 6 HOH B 6 509 13 HOH HOH . I 6 HOH B 7 510 20 HOH HOH . I 6 HOH B 8 511 21 HOH HOH . I 6 HOH B 9 512 24 HOH HOH . I 6 HOH B 10 513 27 HOH HOH . I 6 HOH B 11 514 31 HOH HOH . I 6 HOH B 12 515 34 HOH HOH . I 6 HOH B 13 516 35 HOH HOH . I 6 HOH B 14 517 38 HOH HOH . I 6 HOH B 15 518 41 HOH HOH . I 6 HOH B 16 519 42 HOH HOH . I 6 HOH B 17 520 45 HOH HOH . I 6 HOH B 18 521 47 HOH HOH . I 6 HOH B 19 522 50 HOH HOH . I 6 HOH B 20 523 51 HOH HOH . I 6 HOH B 21 524 52 HOH HOH . I 6 HOH B 22 525 54 HOH HOH . I 6 HOH B 23 526 55 HOH HOH . I 6 HOH B 24 527 56 HOH HOH . I 6 HOH B 25 528 58 HOH HOH . I 6 HOH B 26 529 60 HOH HOH . I 6 HOH B 27 530 61 HOH HOH . I 6 HOH B 28 531 62 HOH HOH . I 6 HOH B 29 532 63 HOH HOH . I 6 HOH B 30 533 65 HOH HOH . I 6 HOH B 31 534 66 HOH HOH . I 6 HOH B 32 535 68 HOH HOH . I 6 HOH B 33 536 72 HOH HOH . I 6 HOH B 34 537 73 HOH HOH . I 6 HOH B 35 538 74 HOH HOH . I 6 HOH B 36 539 75 HOH HOH . I 6 HOH B 37 540 77 HOH HOH . I 6 HOH B 38 541 78 HOH HOH . I 6 HOH B 39 542 80 HOH HOH . I 6 HOH B 40 543 81 HOH HOH . I 6 HOH B 41 544 83 HOH HOH . I 6 HOH B 42 545 84 HOH HOH . I 6 HOH B 43 546 86 HOH HOH . I 6 HOH B 44 547 88 HOH HOH . I 6 HOH B 45 548 89 HOH HOH . I 6 HOH B 46 549 91 HOH HOH . I 6 HOH B 47 550 92 HOH HOH . I 6 HOH B 48 551 96 HOH HOH . I 6 HOH B 49 552 102 HOH HOH . I 6 HOH B 50 553 108 HOH HOH . I 6 HOH B 51 554 110 HOH HOH . I 6 HOH B 52 555 111 HOH HOH . I 6 HOH B 53 556 112 HOH HOH . I 6 HOH B 54 557 115 HOH HOH . I 6 HOH B 55 558 118 HOH HOH . I 6 HOH B 56 559 121 HOH HOH . I 6 HOH B 57 560 123 HOH HOH . I 6 HOH B 58 561 124 HOH HOH . I 6 HOH B 59 562 125 HOH HOH . I 6 HOH B 60 563 130 HOH HOH . I 6 HOH B 61 564 133 HOH HOH . I 6 HOH B 62 565 135 HOH HOH . I 6 HOH B 63 566 136 HOH HOH . I 6 HOH B 64 567 140 HOH HOH . I 6 HOH B 65 568 141 HOH HOH . I 6 HOH B 66 569 144 HOH HOH . I 6 HOH B 67 570 147 HOH HOH . I 6 HOH B 68 571 150 HOH HOH . I 6 HOH B 69 572 153 HOH HOH . I 6 HOH B 70 573 155 HOH HOH . I 6 HOH B 71 574 159 HOH HOH . I 6 HOH B 72 575 160 HOH HOH . I 6 HOH B 73 576 162 HOH HOH . I 6 HOH B 74 577 163 HOH HOH . I 6 HOH B 75 578 164 HOH HOH . I 6 HOH B 76 579 165 HOH HOH . I 6 HOH B 77 580 166 HOH HOH . I 6 HOH B 78 581 168 HOH HOH . I 6 HOH B 79 582 169 HOH HOH . I 6 HOH B 80 583 171 HOH HOH . I 6 HOH B 81 584 175 HOH HOH . I 6 HOH B 82 585 178 HOH HOH . I 6 HOH B 83 586 184 HOH HOH . I 6 HOH B 84 587 185 HOH HOH . I 6 HOH B 85 588 186 HOH HOH . I 6 HOH B 86 589 188 HOH HOH . I 6 HOH B 87 590 191 HOH HOH . I 6 HOH B 88 591 194 HOH HOH . I 6 HOH B 89 592 196 HOH HOH . I 6 HOH B 90 593 199 HOH HOH . I 6 HOH B 91 594 200 HOH HOH . I 6 HOH B 92 595 205 HOH HOH . I 6 HOH B 93 596 209 HOH HOH . I 6 HOH B 94 597 211 HOH HOH . I 6 HOH B 95 598 213 HOH HOH . I 6 HOH B 96 599 214 HOH HOH . I 6 HOH B 97 600 215 HOH HOH . I 6 HOH B 98 601 217 HOH HOH . I 6 HOH B 99 602 218 HOH HOH . I 6 HOH B 100 603 220 HOH HOH . I 6 HOH B 101 604 223 HOH HOH . I 6 HOH B 102 605 224 HOH HOH . I 6 HOH B 103 606 225 HOH HOH . I 6 HOH B 104 607 227 HOH HOH . I 6 HOH B 105 608 228 HOH HOH . I 6 HOH B 106 609 232 HOH HOH . I 6 HOH B 107 610 234 HOH HOH . I 6 HOH B 108 611 237 HOH HOH . I 6 HOH B 109 612 238 HOH HOH . I 6 HOH B 110 613 239 HOH HOH . I 6 HOH B 111 614 241 HOH HOH . I 6 HOH B 112 615 243 HOH HOH . I 6 HOH B 113 616 246 HOH HOH . I 6 HOH B 114 617 247 HOH HOH . I 6 HOH B 115 618 250 HOH HOH . I 6 HOH B 116 619 253 HOH HOH . I 6 HOH B 117 620 257 HOH HOH . I 6 HOH B 118 621 258 HOH HOH . I 6 HOH B 119 622 259 HOH HOH . I 6 HOH B 120 623 260 HOH HOH . I 6 HOH B 121 624 261 HOH HOH . I 6 HOH B 122 625 262 HOH HOH . I 6 HOH B 123 626 263 HOH HOH . I 6 HOH B 124 627 264 HOH HOH . I 6 HOH B 125 628 265 HOH HOH . I 6 HOH B 126 629 266 HOH HOH . I 6 HOH B 127 630 267 HOH HOH . I 6 HOH B 128 631 268 HOH HOH . I 6 HOH B 129 632 269 HOH HOH . I 6 HOH B 130 633 270 HOH HOH . I 6 HOH B 131 634 271 HOH HOH . I 6 HOH B 132 635 272 HOH HOH . I 6 HOH B 133 636 273 HOH HOH . I 6 HOH B 134 637 274 HOH HOH . I 6 HOH B 135 638 275 HOH HOH . I 6 HOH B 136 639 276 HOH HOH . I 6 HOH B 137 640 277 HOH HOH . I 6 HOH B 138 641 278 HOH HOH . I 6 HOH B 139 642 279 HOH HOH . I 6 HOH B 140 643 280 HOH HOH . I 6 HOH B 141 644 281 HOH HOH . I 6 HOH B 142 645 283 HOH HOH . I 6 HOH B 143 646 284 HOH HOH . I 6 HOH B 144 647 285 HOH HOH . I 6 HOH B 145 648 286 HOH HOH . I 6 HOH B 146 649 287 HOH HOH . I 6 HOH B 147 650 288 HOH HOH . I 6 HOH B 148 651 289 HOH HOH . I 6 HOH B 149 652 290 HOH HOH . I 6 HOH B 150 653 291 HOH HOH . I 6 HOH B 151 654 292 HOH HOH . I 6 HOH B 152 655 293 HOH HOH . I 6 HOH B 153 656 294 HOH HOH . I 6 HOH B 154 657 295 HOH HOH . I 6 HOH B 155 658 296 HOH HOH . I 6 HOH B 156 659 297 HOH HOH . I 6 HOH B 157 660 299 HOH HOH . I 6 HOH B 158 661 300 HOH HOH . I 6 HOH B 159 662 301 HOH HOH . I 6 HOH B 160 663 302 HOH HOH . I 6 HOH B 161 664 303 HOH HOH . I 6 HOH B 162 665 304 HOH HOH . I 6 HOH B 163 666 305 HOH HOH . I 6 HOH B 164 667 306 HOH HOH . I 6 HOH B 165 668 307 HOH HOH . I 6 HOH B 166 669 308 HOH HOH . I 6 HOH B 167 670 309 HOH HOH . I 6 HOH B 168 671 310 HOH HOH . I 6 HOH B 169 672 311 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 C CMO . . . D 4 -24.269 -39.114 64.717 1 20.24 ? C CMO 501 A 1 HETATM 2 O O CMO . . . D 4 -24.477 -38.273 65.412 1 22.35 ? O CMO 501 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 2 #