data_4J7F # _model_server_result.job_id pGEhIrsuAZ57SJ8rPHxohw _model_server_result.datetime_utc '2025-01-18 11:14:05' _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 4j7f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 4J7F # _exptl.entry_id 4J7F _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 3 _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 120 _cell.entry_id 4J7F _cell.length_a 83.046 _cell.length_b 83.046 _cell.length_c 95.524 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4J7F _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA tetrameric 4 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,B,C,D,E 1 1 A,B,C,D,E 2 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' 5_555 x-y,-y,-z+1/3 1 0 0 0 -1 0 0 0 -1 0 0 31.841333 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 covale ? covale1 A C ALA 229 A ALA 334 1_555 A N HOX 230 A HOX 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale2 A C HOX 230 A HOX 335 1_555 A N GLY 231 A GLY 336 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? # _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 ? # _atom_sites.entry_id 4J7F _atom_sites.fract_transf_matrix[1][1] 0.012042 _atom_sites.fract_transf_matrix[1][2] 0.006952 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013904 _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] 0.010469 _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 SAH A 1 401 1 SAH SAH . D 4 HOH A 1 501 1 HOH HOH . D 4 HOH A 2 502 3 HOH HOH . D 4 HOH A 3 503 4 HOH HOH . D 4 HOH A 4 504 5 HOH HOH . D 4 HOH A 5 505 6 HOH HOH . D 4 HOH A 6 506 7 HOH HOH . D 4 HOH A 7 507 8 HOH HOH . D 4 HOH A 8 508 9 HOH HOH . D 4 HOH A 9 509 10 HOH HOH . D 4 HOH A 10 510 11 HOH HOH . D 4 HOH A 11 511 12 HOH HOH . D 4 HOH A 12 512 13 HOH HOH . D 4 HOH A 13 513 14 HOH HOH . D 4 HOH A 14 514 15 HOH HOH . D 4 HOH A 15 515 16 HOH HOH . D 4 HOH A 16 516 17 HOH HOH . D 4 HOH A 17 517 18 HOH HOH . D 4 HOH A 18 518 19 HOH HOH . D 4 HOH A 19 519 20 HOH HOH . D 4 HOH A 20 520 22 HOH HOH . D 4 HOH A 21 521 23 HOH HOH . D 4 HOH A 22 522 24 HOH HOH . D 4 HOH A 23 523 25 HOH HOH . D 4 HOH A 24 524 26 HOH HOH . D 4 HOH A 25 525 27 HOH HOH . D 4 HOH A 26 526 28 HOH HOH . D 4 HOH A 27 527 29 HOH HOH . D 4 HOH A 28 528 30 HOH HOH . D 4 HOH A 29 529 32 HOH HOH . D 4 HOH A 30 530 33 HOH HOH . D 4 HOH A 31 531 34 HOH HOH . D 4 HOH A 32 532 35 HOH HOH . D 4 HOH A 33 533 36 HOH HOH . D 4 HOH A 34 534 37 HOH HOH . D 4 HOH A 35 535 38 HOH HOH . D 4 HOH A 36 536 39 HOH HOH . D 4 HOH A 37 537 40 HOH HOH . D 4 HOH A 38 538 41 HOH HOH . D 4 HOH A 39 539 43 HOH HOH . D 4 HOH A 40 540 45 HOH HOH . D 4 HOH A 41 541 46 HOH HOH . D 4 HOH A 42 542 47 HOH HOH . D 4 HOH A 43 543 48 HOH HOH . D 4 HOH A 44 544 49 HOH HOH . D 4 HOH A 45 545 50 HOH HOH . D 4 HOH A 46 546 51 HOH HOH . D 4 HOH A 47 547 52 HOH HOH . D 4 HOH A 48 548 53 HOH HOH . D 4 HOH A 49 549 56 HOH HOH . D 4 HOH A 50 550 57 HOH HOH . D 4 HOH A 51 551 59 HOH HOH . D 4 HOH A 52 552 60 HOH HOH . D 4 HOH A 53 553 62 HOH HOH . D 4 HOH A 54 554 63 HOH HOH . D 4 HOH A 55 555 64 HOH HOH . D 4 HOH A 56 556 65 HOH HOH . D 4 HOH A 57 557 66 HOH HOH . D 4 HOH A 58 558 67 HOH HOH . D 4 HOH A 59 559 68 HOH HOH . D 4 HOH A 60 560 69 HOH HOH . D 4 HOH A 61 561 70 HOH HOH . D 4 HOH A 62 562 72 HOH HOH . D 4 HOH A 63 563 73 HOH HOH . D 4 HOH A 64 564 74 HOH HOH . D 4 HOH A 65 565 75 HOH HOH . D 4 HOH A 66 566 76 HOH HOH . D 4 HOH A 67 567 80 HOH HOH . D 4 HOH A 68 568 81 HOH HOH . D 4 HOH A 69 569 82 HOH HOH . D 4 HOH A 70 570 83 HOH HOH . D 4 HOH A 71 571 84 HOH HOH . D 4 HOH A 72 572 85 HOH HOH . D 4 HOH A 73 573 87 HOH HOH . D 4 HOH A 74 574 88 HOH HOH . D 4 HOH A 75 575 90 HOH HOH . D 4 HOH A 76 576 91 HOH HOH . D 4 HOH A 77 577 92 HOH HOH . D 4 HOH A 78 578 93 HOH HOH . D 4 HOH A 79 579 94 HOH HOH . D 4 HOH A 80 580 95 HOH HOH . D 4 HOH A 81 581 96 HOH HOH . D 4 HOH A 82 582 97 HOH HOH . D 4 HOH A 83 583 98 HOH HOH . D 4 HOH A 84 584 102 HOH HOH . D 4 HOH A 85 585 103 HOH HOH . D 4 HOH A 86 586 104 HOH HOH . D 4 HOH A 87 587 367 HOH HOH . D 4 HOH A 88 588 368 HOH HOH . D 4 HOH A 89 589 369 HOH HOH . D 4 HOH A 90 590 372 HOH HOH . D 4 HOH A 91 591 373 HOH HOH . D 4 HOH A 92 592 374 HOH HOH . D 4 HOH A 93 593 377 HOH HOH . D 4 HOH A 94 594 379 HOH HOH . D 4 HOH A 95 595 381 HOH HOH . D 4 HOH A 96 596 382 HOH HOH . D 4 HOH A 97 597 384 HOH HOH . D 4 HOH A 98 598 386 HOH HOH . D 4 HOH A 99 599 388 HOH HOH . D 4 HOH A 100 600 390 HOH HOH . D 4 HOH A 101 601 391 HOH HOH . D 4 HOH A 102 602 392 HOH HOH . D 4 HOH A 103 603 393 HOH HOH . D 4 HOH A 104 604 394 HOH HOH . D 4 HOH A 105 605 395 HOH HOH . D 4 HOH A 106 606 396 HOH HOH . D 4 HOH A 107 607 398 HOH HOH . D 4 HOH A 108 608 399 HOH HOH . D 4 HOH A 109 609 400 HOH HOH . D 4 HOH A 110 610 408 HOH HOH . D 4 HOH A 111 611 409 HOH HOH . D 4 HOH A 112 612 411 HOH HOH . D 4 HOH A 113 613 413 HOH HOH . D 4 HOH A 114 614 414 HOH HOH . D 4 HOH A 115 615 415 HOH HOH . D 4 HOH A 116 616 419 HOH HOH . D 4 HOH A 117 617 425 HOH HOH . D 4 HOH A 118 618 427 HOH HOH . D 4 HOH A 119 619 428 HOH HOH . D 4 HOH A 120 620 432 HOH HOH . D 4 HOH A 121 621 433 HOH HOH . D 4 HOH A 122 622 434 HOH HOH . D 4 HOH A 123 623 435 HOH HOH . D 4 HOH A 124 624 436 HOH HOH . D 4 HOH A 125 625 437 HOH HOH . D 4 HOH A 126 626 439 HOH HOH . D 4 HOH A 127 627 441 HOH HOH . D 4 HOH A 128 628 445 HOH HOH . D 4 HOH A 129 629 446 HOH HOH . D 4 HOH A 130 630 450 HOH HOH . D 4 HOH A 131 631 452 HOH HOH . D 4 HOH A 132 632 453 HOH HOH . D 4 HOH A 133 633 456 HOH HOH . D 4 HOH A 134 634 460 HOH HOH . D 4 HOH A 135 635 467 HOH HOH . D 4 HOH A 136 636 469 HOH HOH . D 4 HOH A 137 637 470 HOH HOH . D 4 HOH A 138 638 201 HOH HOH . D 4 HOH A 139 639 1 HOH HOH . D 4 HOH A 140 640 3 HOH HOH . D 4 HOH A 141 641 6 HOH HOH . D 4 HOH A 142 642 7 HOH HOH . D 4 HOH A 143 643 13 HOH HOH . D 4 HOH A 144 644 14 HOH HOH . D 4 HOH A 145 645 15 HOH HOH . D 4 HOH A 146 646 17 HOH HOH . D 4 HOH A 147 647 19 HOH HOH . D 4 HOH A 148 648 20 HOH HOH . D 4 HOH A 149 649 22 HOH HOH . D 4 HOH A 150 650 24 HOH HOH . D 4 HOH A 151 651 32 HOH HOH . D 4 HOH A 152 652 33 HOH HOH . D 4 HOH A 153 653 35 HOH HOH . D 4 HOH A 154 654 48 HOH HOH . D 4 HOH A 155 655 57 HOH HOH . D 4 HOH A 156 656 68 HOH HOH . D 4 HOH A 157 657 69 HOH HOH . D 4 HOH A 158 658 70 HOH HOH . D 4 HOH A 159 659 84 HOH HOH . D 4 HOH A 160 660 100 HOH HOH . D 4 HOH A 161 661 118 HOH HOH . D 4 HOH A 162 662 204 HOH HOH . D 4 HOH A 163 663 210 HOH HOH . D 4 HOH A 164 664 225 HOH HOH . D 4 HOH A 165 665 226 HOH HOH . D 4 HOH A 166 666 227 HOH HOH . E 4 HOH B 1 201 402 HOH HOH . E 4 HOH B 2 202 44 HOH HOH . E 4 HOH B 3 203 108 HOH HOH . E 4 HOH B 4 204 110 HOH HOH . E 4 HOH B 5 205 1 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 . . . C 3 44.555 -36.744 6.947 1 37.08 ? N SAH 401 A 1 HETATM 2 C CA SAH . . . C 3 43.241 -36.294 6.366 1 38.07 ? CA SAH 401 A 1 HETATM 3 C CB SAH . . . C 3 42.82 -34.992 7.057 1 37.79 ? CB SAH 401 A 1 HETATM 4 C CG SAH . . . C 3 42.169 -35.253 8.419 1 38.27 ? CG SAH 401 A 1 HETATM 5 S SD SAH . . . C 3 40.603 -36.049 8.173 1 39.88 ? SD SAH 401 A 1 HETATM 6 C C SAH . . . C 3 43.285 -36.138 4.853 1 38.22 ? C SAH 401 A 1 HETATM 7 O O SAH . . . C 3 44.264 -36.532 4.215 1 38.69 ? O SAH 401 A 1 HETATM 8 O OXT SAH . . . C 3 42.357 -35.628 4.194 1 38.54 ? OXT SAH 401 A 1 HETATM 9 C C5' SAH . . . C 3 40.551 -37.327 9.396 1 39.98 ? C5' SAH 401 A 1 HETATM 10 C C4' SAH . . . C 3 41.242 -38.55 8.816 1 40.59 ? C4' SAH 401 A 1 HETATM 11 O O4' SAH . . . C 3 42.655 -38.334 8.838 1 39.39 ? O4' SAH 401 A 1 HETATM 12 C C3' SAH . . . C 3 40.981 -39.811 9.64 1 41.77 ? C3' SAH 401 A 1 HETATM 13 O O3' SAH . . . C 3 39.986 -40.646 9.035 1 43.14 ? O3' SAH 401 A 1 HETATM 14 C C2' SAH . . . C 3 42.319 -40.515 9.703 1 41.68 ? C2' SAH 401 A 1 HETATM 15 O O2' SAH . . . C 3 42.494 -41.386 8.583 1 43.05 ? O2' SAH 401 A 1 HETATM 16 C C1' SAH . . . C 3 43.33 -39.408 9.516 1 40.7 ? C1' SAH 401 A 1 HETATM 17 N N9 SAH . . . C 3 43.948 -38.953 10.797 1 38.7 ? N9 SAH 401 A 1 HETATM 18 C C8 SAH . . . C 3 43.789 -37.744 11.371 1 38.34 ? C8 SAH 401 A 1 HETATM 19 N N7 SAH . . . C 3 44.509 -37.628 12.514 1 36.96 ? N7 SAH 401 A 1 HETATM 20 C C5 SAH . . . C 3 45.16 -38.8 12.666 1 39.1 ? C5 SAH 401 A 1 HETATM 21 C C6 SAH . . . C 3 46.085 -39.346 13.662 1 39.81 ? C6 SAH 401 A 1 HETATM 22 N N6 SAH . . . C 3 46.452 -38.581 14.717 1 37.73 ? N6 SAH 401 A 1 HETATM 23 N N1 SAH . . . C 3 46.526 -40.622 13.47 1 40.52 ? N1 SAH 401 A 1 HETATM 24 C C2 SAH . . . C 3 46.15 -41.366 12.406 1 39.3 ? C2 SAH 401 A 1 HETATM 25 N N3 SAH . . . C 3 45.304 -40.936 11.457 1 39.22 ? N3 SAH 401 A 1 HETATM 26 C C4 SAH . . . C 3 44.79 -39.674 11.541 1 38.37 ? C4 SAH 401 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 26 #