data_5HZM # _model_server_result.job_id PUc_9d1QJeyvraor0N8xKQ _model_server_result.datetime_utc '2024-10-17 05:37:59' _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 5hzm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 5HZM # _exptl.entry_id 5HZM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYL-L-HOMOCYSTEINE _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 5HZM _cell.length_a 94.19 _cell.length_b 94.19 _cell.length_c 109.609 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5HZM _symmetry.cell_setting ? _symmetry.Int_Tables_number 80 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41' # _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,H,I,J,K,L,M _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' 6_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 0 94.19 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 51 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 50 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 230 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 229 _struct_conn.ptnr2_symmetry 6_565 _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 2.063 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag n _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _chem_comp.type 'l-peptide linking' _chem_comp.pdbx_synonyms ? # 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 N CA SAH sing 277 n n N HN1 SAH sing 278 n n N HN2 SAH sing 279 n n CA CB SAH sing 280 n n CA C SAH sing 281 n n CA HA SAH sing 282 n n CB CG SAH sing 283 n n CB HB1 SAH sing 284 n n CB HB2 SAH sing 285 n n CG SD SAH sing 286 n n CG HG1 SAH sing 287 n n CG HG2 SAH sing 288 n n SD C5' SAH sing 289 n n C O SAH doub 290 n n C OXT SAH sing 291 n n OXT HXT SAH sing 292 n n C5' C4' SAH sing 293 n n C5' "H5'1" SAH sing 294 n n C5' "H5'2" SAH sing 295 n n C4' O4' SAH sing 296 n n C4' C3' SAH sing 297 n n C4' H4' SAH sing 298 n n O4' C1' SAH sing 299 n n C3' O3' SAH sing 300 n n C3' C2' SAH sing 301 n n C3' H3' SAH sing 302 n n O3' HO3' SAH sing 303 n n C2' O2' SAH sing 304 n n C2' C1' SAH sing 305 n n C2' H2' SAH sing 306 n n O2' HO2' SAH sing 307 n n C1' N9 SAH sing 308 n n C1' H1' SAH sing 309 n n N9 C8 SAH sing 310 n y N9 C4 SAH sing 311 n y C8 N7 SAH doub 312 n y C8 H8 SAH sing 313 n n N7 C5 SAH sing 314 n y C5 C6 SAH sing 315 n y C5 C4 SAH doub 316 n y C6 N6 SAH sing 317 n n C6 N1 SAH doub 318 n y N6 HN61 SAH sing 319 n n N6 HN62 SAH sing 320 n n N1 C2 SAH sing 321 n y C2 N3 SAH doub 322 n y C2 H2 SAH sing 323 n n N3 C4 SAH sing 324 n y # _atom_sites.entry_id 5HZM _atom_sites.fract_transf_matrix[1][1] 0.010617 _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] 0.010617 _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] 0.009123 _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 SAH A 1 401 401 SAH SAH . C 3 UNX A 1 402 1001 UNX UNX . D 3 UNX A 1 403 1002 UNX UNX . E 3 UNX A 1 404 1003 UNX UNX . F 3 UNX A 1 405 1004 UNX UNX . G 3 UNX A 1 406 1005 UNX UNX . H 3 UNX A 1 407 1006 UNX UNX . I 3 UNX A 1 408 1007 UNX UNX . J 3 UNX A 1 409 1008 UNX UNX . K 3 UNX A 1 410 1009 UNX UNX . L 3 UNX A 1 411 1010 UNX UNX . M 4 HOH A 1 501 50 HOH HOH . M 4 HOH A 2 502 83 HOH HOH . M 4 HOH A 3 503 32 HOH HOH . M 4 HOH A 4 504 52 HOH HOH . M 4 HOH A 5 505 24 HOH HOH . M 4 HOH A 6 506 20 HOH HOH . M 4 HOH A 7 507 180 HOH HOH . M 4 HOH A 8 508 15 HOH HOH . M 4 HOH A 9 509 63 HOH HOH . M 4 HOH A 10 510 14 HOH HOH . M 4 HOH A 11 511 99 HOH HOH . M 4 HOH A 12 512 64 HOH HOH . M 4 HOH A 13 513 181 HOH HOH . M 4 HOH A 14 514 136 HOH HOH . M 4 HOH A 15 515 86 HOH HOH . M 4 HOH A 16 516 140 HOH HOH . M 4 HOH A 17 517 68 HOH HOH . M 4 HOH A 18 518 92 HOH HOH . M 4 HOH A 19 519 95 HOH HOH . M 4 HOH A 20 520 157 HOH HOH . M 4 HOH A 21 521 162 HOH HOH . M 4 HOH A 22 522 170 HOH HOH . M 4 HOH A 23 523 122 HOH HOH . M 4 HOH A 24 524 109 HOH HOH . M 4 HOH A 25 525 47 HOH HOH . M 4 HOH A 26 526 89 HOH HOH . M 4 HOH A 27 527 37 HOH HOH . M 4 HOH A 28 528 186 HOH HOH . M 4 HOH A 29 529 53 HOH HOH . M 4 HOH A 30 530 12 HOH HOH . M 4 HOH A 31 531 34 HOH HOH . M 4 HOH A 32 532 33 HOH HOH . M 4 HOH A 33 533 1 HOH HOH . M 4 HOH A 34 534 4 HOH HOH . M 4 HOH A 35 535 66 HOH HOH . M 4 HOH A 36 536 164 HOH HOH . M 4 HOH A 37 537 130 HOH HOH . M 4 HOH A 38 538 116 HOH HOH . M 4 HOH A 39 539 49 HOH HOH . M 4 HOH A 40 540 182 HOH HOH . M 4 HOH A 41 541 10 HOH HOH . M 4 HOH A 42 542 17 HOH HOH . M 4 HOH A 43 543 22 HOH HOH . M 4 HOH A 44 544 13 HOH HOH . M 4 HOH A 45 545 42 HOH HOH . M 4 HOH A 46 546 115 HOH HOH . M 4 HOH A 47 547 185 HOH HOH . M 4 HOH A 48 548 74 HOH HOH . M 4 HOH A 49 549 125 HOH HOH . M 4 HOH A 50 550 6 HOH HOH . M 4 HOH A 51 551 23 HOH HOH . M 4 HOH A 52 552 165 HOH HOH . M 4 HOH A 53 553 21 HOH HOH . M 4 HOH A 54 554 19 HOH HOH . M 4 HOH A 55 555 167 HOH HOH . M 4 HOH A 56 556 73 HOH HOH . M 4 HOH A 57 557 3 HOH HOH . M 4 HOH A 58 558 69 HOH HOH . M 4 HOH A 59 559 113 HOH HOH . M 4 HOH A 60 560 38 HOH HOH . M 4 HOH A 61 561 40 HOH HOH . M 4 HOH A 62 562 39 HOH HOH . M 4 HOH A 63 563 25 HOH HOH . M 4 HOH A 64 564 54 HOH HOH . M 4 HOH A 65 565 30 HOH HOH . M 4 HOH A 66 566 57 HOH HOH . M 4 HOH A 67 567 44 HOH HOH . M 4 HOH A 68 568 36 HOH HOH . M 4 HOH A 69 569 132 HOH HOH . M 4 HOH A 70 570 78 HOH HOH . M 4 HOH A 71 571 110 HOH HOH . M 4 HOH A 72 572 134 HOH HOH . M 4 HOH A 73 573 90 HOH HOH . M 4 HOH A 74 574 56 HOH HOH . M 4 HOH A 75 575 82 HOH HOH . M 4 HOH A 76 576 16 HOH HOH . M 4 HOH A 77 577 94 HOH HOH . M 4 HOH A 78 578 41 HOH HOH . M 4 HOH A 79 579 148 HOH HOH . M 4 HOH A 80 580 100 HOH HOH . M 4 HOH A 81 581 96 HOH HOH . M 4 HOH A 82 582 48 HOH HOH . M 4 HOH A 83 583 114 HOH HOH . M 4 HOH A 84 584 72 HOH HOH . M 4 HOH A 85 585 7 HOH HOH . M 4 HOH A 86 586 120 HOH HOH . M 4 HOH A 87 587 146 HOH HOH . M 4 HOH A 88 588 84 HOH HOH . M 4 HOH A 89 589 59 HOH HOH . M 4 HOH A 90 590 108 HOH HOH . M 4 HOH A 91 591 51 HOH HOH . M 4 HOH A 92 592 187 HOH HOH . M 4 HOH A 93 593 107 HOH HOH . M 4 HOH A 94 594 91 HOH HOH . M 4 HOH A 95 595 177 HOH HOH . M 4 HOH A 96 596 121 HOH HOH . M 4 HOH A 97 597 70 HOH HOH . M 4 HOH A 98 598 118 HOH HOH . M 4 HOH A 99 599 127 HOH HOH . M 4 HOH A 100 600 174 HOH HOH . M 4 HOH A 101 601 133 HOH HOH . M 4 HOH A 102 602 139 HOH HOH . M 4 HOH A 103 603 179 HOH HOH . M 4 HOH A 104 604 126 HOH HOH . M 4 HOH A 105 605 117 HOH HOH . M 4 HOH A 106 606 105 HOH HOH . M 4 HOH A 107 607 75 HOH HOH . M 4 HOH A 108 608 128 HOH HOH . M 4 HOH A 109 609 102 HOH HOH . M 4 HOH A 110 610 58 HOH HOH . M 4 HOH A 111 611 80 HOH HOH . M 4 HOH A 112 612 81 HOH HOH . M 4 HOH A 113 613 35 HOH HOH . M 4 HOH A 114 614 172 HOH HOH . M 4 HOH A 115 615 2 HOH HOH . M 4 HOH A 116 616 31 HOH HOH . M 4 HOH A 117 617 28 HOH HOH . M 4 HOH A 118 618 129 HOH HOH . M 4 HOH A 119 619 26 HOH HOH . M 4 HOH A 120 620 155 HOH HOH . M 4 HOH A 121 621 112 HOH HOH . M 4 HOH A 122 622 178 HOH HOH . M 4 HOH A 123 623 55 HOH HOH . M 4 HOH A 124 624 9 HOH HOH . M 4 HOH A 125 625 123 HOH HOH . M 4 HOH A 126 626 138 HOH HOH . M 4 HOH A 127 627 5 HOH HOH . M 4 HOH A 128 628 93 HOH HOH . M 4 HOH A 129 629 45 HOH HOH . M 4 HOH A 130 630 119 HOH HOH . M 4 HOH A 131 631 76 HOH HOH . M 4 HOH A 132 632 67 HOH HOH . M 4 HOH A 133 633 101 HOH HOH . M 4 HOH A 134 634 176 HOH HOH . M 4 HOH A 135 635 147 HOH HOH . M 4 HOH A 136 636 29 HOH HOH . M 4 HOH A 137 637 46 HOH HOH . M 4 HOH A 138 638 150 HOH HOH . M 4 HOH A 139 639 169 HOH HOH . M 4 HOH A 140 640 137 HOH HOH . M 4 HOH A 141 641 77 HOH HOH . M 4 HOH A 142 642 143 HOH HOH . M 4 HOH A 143 643 43 HOH HOH . M 4 HOH A 144 644 97 HOH HOH . M 4 HOH A 145 645 142 HOH HOH . M 4 HOH A 146 646 11 HOH HOH . M 4 HOH A 147 647 8 HOH HOH . M 4 HOH A 148 648 183 HOH HOH . M 4 HOH A 149 649 18 HOH HOH . M 4 HOH A 150 650 135 HOH HOH . M 4 HOH A 151 651 171 HOH HOH . M 4 HOH A 152 652 98 HOH HOH . M 4 HOH A 153 653 106 HOH HOH . M 4 HOH A 154 654 87 HOH HOH . M 4 HOH A 155 655 131 HOH HOH . M 4 HOH A 156 656 60 HOH HOH . M 4 HOH A 157 657 152 HOH HOH . M 4 HOH A 158 658 153 HOH HOH . M 4 HOH A 159 659 71 HOH HOH . M 4 HOH A 160 660 168 HOH HOH . M 4 HOH A 161 661 184 HOH HOH . M 4 HOH A 162 662 144 HOH HOH . M 4 HOH A 163 663 158 HOH HOH . M 4 HOH A 164 664 124 HOH HOH . M 4 HOH A 165 665 27 HOH HOH . M 4 HOH A 166 666 151 HOH HOH . M 4 HOH A 167 667 149 HOH HOH . M 4 HOH A 168 668 166 HOH HOH . M 4 HOH A 169 669 175 HOH HOH . M 4 HOH A 170 670 62 HOH HOH . M 4 HOH A 171 671 163 HOH HOH . M 4 HOH A 172 672 111 HOH HOH . M 4 HOH A 173 673 154 HOH HOH . M 4 HOH A 174 674 65 HOH HOH . M 4 HOH A 175 675 61 HOH HOH . M 4 HOH A 176 676 141 HOH HOH . M 4 HOH A 177 677 160 HOH HOH . M 4 HOH A 178 678 156 HOH HOH . M 4 HOH A 179 679 173 HOH HOH . M 4 HOH A 180 680 145 HOH HOH . M 4 HOH A 181 681 85 HOH HOH . M 4 HOH A 182 682 79 HOH HOH . M 4 HOH A 183 683 159 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 N N SAH . . . B 2 20.32 59.078 5.469 1 35.72 ? N SAH 401 A 1 HETATM 2 C CA SAH . . . B 2 18.85 59.104 5.765 1 35.44 ? CA SAH 401 A 1 HETATM 3 C CB SAH . . . B 2 18.035 58.3 4.715 1 36.68 ? CB SAH 401 A 1 HETATM 4 C CG SAH . . . B 2 18.317 56.808 4.57 1 37.17 ? CG SAH 401 A 1 HETATM 5 S SD SAH . . . B 2 17.174 56.033 3.412 1 36.05 ? SD SAH 401 A 1 HETATM 6 C C SAH . . . B 2 18.645 58.584 7.16 1 37.65 ? C SAH 401 A 1 HETATM 7 O O SAH . . . B 2 19.526 57.828 7.644 1 37.2 ? O SAH 401 A 1 HETATM 8 O OXT SAH . . . B 2 17.617 58.864 7.834 1 34.46 ? OXT SAH 401 A 1 HETATM 9 C C5' SAH . . . B 2 18.115 55.936 1.913 1 36.26 ? C5' SAH 401 A 1 HETATM 10 C C4' SAH . . . B 2 17.963 57.182 1.032 1 37.55 ? C4' SAH 401 A 1 HETATM 11 O O4' SAH . . . B 2 18.834 57.101 -0.117 1 33.72 ? O4' SAH 401 A 1 HETATM 12 C C3' SAH . . . B 2 16.556 57.44 0.482 1 37.14 ? C3' SAH 401 A 1 HETATM 13 O O3' SAH . . . B 2 16.224 58.807 0.798 1 37.46 ? O3' SAH 401 A 1 HETATM 14 C C2' SAH . . . B 2 16.708 57.205 -1.023 1 36.67 ? C2' SAH 401 A 1 HETATM 15 O O2' SAH . . . B 2 15.986 58.105 -1.836 1 38.5 ? O2' SAH 401 A 1 HETATM 16 C C1' SAH . . . B 2 18.168 57.55 -1.286 1 34.81 ? C1' SAH 401 A 1 HETATM 17 N N9 SAH . . . B 2 18.841 56.891 -2.407 1 34.1 ? N9 SAH 401 A 1 HETATM 18 C C8 SAH . . . B 2 18.67 55.625 -2.811 1 34.67 ? C8 SAH 401 A 1 HETATM 19 N N7 SAH . . . B 2 19.52 55.363 -3.827 1 35.04 ? N7 SAH 401 A 1 HETATM 20 C C5 SAH . . . B 2 20.249 56.453 -4.04 1 32.37 ? C5 SAH 401 A 1 HETATM 21 C C6 SAH . . . B 2 21.315 56.819 -4.972 1 31.17 ? C6 SAH 401 A 1 HETATM 22 N N6 SAH . . . B 2 21.736 55.904 -5.84 1 32.68 ? N6 SAH 401 A 1 HETATM 23 N N1 SAH . . . B 2 21.833 58.051 -4.896 1 32.41 ? N1 SAH 401 A 1 HETATM 24 C C2 SAH . . . B 2 21.378 58.959 -4.005 1 30.89 ? C2 SAH 401 A 1 HETATM 25 N N3 SAH . . . B 2 20.391 58.668 -3.133 1 30.89 ? N3 SAH 401 A 1 HETATM 26 C C4 SAH . . . B 2 19.818 57.457 -3.106 1 30.45 ? C4 SAH 401 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 26 #