data_2EFJ # _model_server_result.job_id xKztwX5c8rnPynWugYwXXg _model_server_result.datetime_utc '2024-11-12 21:26:52' _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 2efj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 2EFJ # _exptl.entry_id 2EFJ _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 2EFJ _cell.length_a 50.16 _cell.length_b 105.63 _cell.length_c 140.95 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2EFJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _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' 3_555 -x,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 0 70.475 # _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 # _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 299 n n N HN1 SAH sing 300 n n N HN2 SAH sing 301 n n CA CB SAH sing 302 n n CA C SAH sing 303 n n CA HA SAH sing 304 n n CB CG SAH sing 305 n n CB HB1 SAH sing 306 n n CB HB2 SAH sing 307 n n CG SD SAH sing 308 n n CG HG1 SAH sing 309 n n CG HG2 SAH sing 310 n n SD C5' SAH sing 311 n n C O SAH doub 312 n n C OXT SAH sing 313 n n OXT HXT SAH sing 314 n n C5' C4' SAH sing 315 n n C5' "H5'1" SAH sing 316 n n C5' "H5'2" SAH sing 317 n n C4' O4' SAH sing 318 n n C4' C3' SAH sing 319 n n C4' H4' SAH sing 320 n n O4' C1' SAH sing 321 n n C3' O3' SAH sing 322 n n C3' C2' SAH sing 323 n n C3' H3' SAH sing 324 n n O3' HO3' SAH sing 325 n n C2' O2' SAH sing 326 n n C2' C1' SAH sing 327 n n C2' H2' SAH sing 328 n n O2' HO2' SAH sing 329 n n C1' N9 SAH sing 330 n n C1' H1' SAH sing 331 n n N9 C8 SAH sing 332 n y N9 C4 SAH sing 333 n y C8 N7 SAH doub 334 n y C8 H8 SAH sing 335 n n N7 C5 SAH sing 336 n y C5 C6 SAH sing 337 n y C5 C4 SAH doub 338 n y C6 N6 SAH sing 339 n n C6 N1 SAH doub 340 n y N6 HN61 SAH sing 341 n n N6 HN62 SAH sing 342 n n N1 C2 SAH sing 343 n y C2 N3 SAH doub 344 n y C2 H2 SAH sing 345 n n N3 C4 SAH sing 346 n y # _atom_sites.entry_id 2EFJ _atom_sites.fract_transf_matrix[1][1] 0.019936 _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] 0.009467 _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] 0.007095 _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 1 501 501 SAH SAH . C 3 37T A 1 502 502 37T 37T . D 4 HOH A 1 503 1 HOH HOH . D 4 HOH A 2 504 2 HOH HOH . D 4 HOH A 3 505 3 HOH HOH . D 4 HOH A 4 506 4 HOH HOH . D 4 HOH A 5 507 5 HOH HOH . D 4 HOH A 6 508 6 HOH HOH . D 4 HOH A 7 509 7 HOH HOH . D 4 HOH A 8 510 8 HOH HOH . D 4 HOH A 9 511 9 HOH HOH . D 4 HOH A 10 512 10 HOH HOH . D 4 HOH A 11 513 11 HOH HOH . D 4 HOH A 12 514 12 HOH HOH . D 4 HOH A 13 515 13 HOH HOH . D 4 HOH A 14 516 14 HOH HOH . D 4 HOH A 15 517 15 HOH HOH . D 4 HOH A 16 518 16 HOH HOH . D 4 HOH A 17 519 17 HOH HOH . D 4 HOH A 18 520 18 HOH HOH . D 4 HOH A 19 521 19 HOH HOH . D 4 HOH A 20 522 20 HOH HOH . D 4 HOH A 21 523 21 HOH HOH . D 4 HOH A 22 524 22 HOH HOH . D 4 HOH A 23 525 23 HOH HOH . D 4 HOH A 24 526 24 HOH HOH . D 4 HOH A 25 527 25 HOH HOH . D 4 HOH A 26 528 26 HOH HOH . D 4 HOH A 27 529 27 HOH HOH . D 4 HOH A 28 530 28 HOH HOH . D 4 HOH A 29 531 29 HOH HOH . D 4 HOH A 30 532 30 HOH HOH . D 4 HOH A 31 533 31 HOH HOH . D 4 HOH A 32 534 32 HOH HOH . D 4 HOH A 33 535 33 HOH HOH . D 4 HOH A 34 536 34 HOH HOH . D 4 HOH A 35 537 35 HOH HOH . D 4 HOH A 36 538 36 HOH HOH . D 4 HOH A 37 539 37 HOH HOH . D 4 HOH A 38 540 38 HOH HOH . D 4 HOH A 39 541 39 HOH HOH . D 4 HOH A 40 542 40 HOH HOH . D 4 HOH A 41 543 41 HOH HOH . D 4 HOH A 42 544 42 HOH HOH . D 4 HOH A 43 545 43 HOH HOH . D 4 HOH A 44 546 44 HOH HOH . D 4 HOH A 45 547 45 HOH HOH . D 4 HOH A 46 548 46 HOH HOH . D 4 HOH A 47 549 47 HOH HOH . D 4 HOH A 48 550 48 HOH HOH . D 4 HOH A 49 551 49 HOH HOH . D 4 HOH A 50 552 50 HOH HOH . D 4 HOH A 51 553 51 HOH HOH . D 4 HOH A 52 554 52 HOH HOH . D 4 HOH A 53 555 53 HOH HOH . D 4 HOH A 54 556 54 HOH HOH . D 4 HOH A 55 557 55 HOH HOH . D 4 HOH A 56 558 56 HOH HOH . D 4 HOH A 57 559 57 HOH HOH . D 4 HOH A 58 560 58 HOH HOH . D 4 HOH A 59 561 59 HOH HOH . D 4 HOH A 60 562 60 HOH HOH . D 4 HOH A 61 563 61 HOH HOH . D 4 HOH A 62 564 62 HOH HOH . D 4 HOH A 63 565 63 HOH HOH . D 4 HOH A 64 566 64 HOH HOH . D 4 HOH A 65 567 65 HOH HOH . D 4 HOH A 66 568 66 HOH HOH . D 4 HOH A 67 569 67 HOH HOH . D 4 HOH A 68 570 68 HOH HOH . D 4 HOH A 69 571 69 HOH HOH . D 4 HOH A 70 572 70 HOH HOH . D 4 HOH A 71 573 71 HOH HOH . D 4 HOH A 72 574 72 HOH HOH . D 4 HOH A 73 575 73 HOH HOH . D 4 HOH A 74 576 74 HOH HOH . D 4 HOH A 75 577 75 HOH HOH . D 4 HOH A 76 578 76 HOH HOH . D 4 HOH A 77 579 77 HOH HOH . D 4 HOH A 78 580 78 HOH HOH . D 4 HOH A 79 581 79 HOH HOH . D 4 HOH A 80 582 80 HOH HOH . D 4 HOH A 81 583 81 HOH HOH . D 4 HOH A 82 584 82 HOH HOH . D 4 HOH A 83 585 83 HOH HOH . D 4 HOH A 84 586 84 HOH HOH . D 4 HOH A 85 587 85 HOH HOH . D 4 HOH A 86 588 86 HOH HOH . D 4 HOH A 87 589 87 HOH HOH . D 4 HOH A 88 590 88 HOH HOH . D 4 HOH A 89 591 89 HOH HOH . D 4 HOH A 90 592 90 HOH HOH . D 4 HOH A 91 593 91 HOH HOH . D 4 HOH A 92 594 92 HOH HOH . D 4 HOH A 93 595 93 HOH HOH . D 4 HOH A 94 596 94 HOH HOH . D 4 HOH A 95 597 95 HOH HOH . D 4 HOH A 96 598 96 HOH HOH . D 4 HOH A 97 599 97 HOH HOH . D 4 HOH A 98 600 98 HOH HOH . D 4 HOH A 99 601 99 HOH HOH . D 4 HOH A 100 602 100 HOH HOH . D 4 HOH A 101 603 101 HOH HOH . D 4 HOH A 102 604 102 HOH HOH . D 4 HOH A 103 605 103 HOH HOH . D 4 HOH A 104 606 104 HOH HOH . D 4 HOH A 105 607 105 HOH HOH . D 4 HOH A 106 608 106 HOH HOH . D 4 HOH A 107 609 107 HOH HOH . D 4 HOH A 108 610 108 HOH HOH . D 4 HOH A 109 611 109 HOH HOH . D 4 HOH A 110 612 110 HOH HOH . D 4 HOH A 111 613 111 HOH HOH . D 4 HOH A 112 614 112 HOH HOH . D 4 HOH A 113 615 113 HOH HOH . D 4 HOH A 114 616 114 HOH HOH . D 4 HOH A 115 617 115 HOH HOH . D 4 HOH A 116 618 116 HOH HOH . D 4 HOH A 117 619 117 HOH HOH . D 4 HOH A 118 620 118 HOH HOH . D 4 HOH A 119 621 119 HOH HOH . D 4 HOH A 120 622 120 HOH HOH . D 4 HOH A 121 623 121 HOH HOH . D 4 HOH A 122 624 122 HOH HOH . D 4 HOH A 123 625 123 HOH HOH . D 4 HOH A 124 626 124 HOH HOH . D 4 HOH A 125 627 125 HOH HOH . D 4 HOH A 126 628 126 HOH HOH . D 4 HOH A 127 629 127 HOH HOH . D 4 HOH A 128 630 128 HOH HOH . D 4 HOH A 129 631 129 HOH HOH . D 4 HOH A 130 632 130 HOH HOH . D 4 HOH A 131 633 131 HOH HOH . D 4 HOH A 132 634 132 HOH HOH . D 4 HOH A 133 635 133 HOH HOH . D 4 HOH A 134 636 134 HOH HOH . D 4 HOH A 135 637 135 HOH HOH . D 4 HOH A 136 638 136 HOH HOH . D 4 HOH A 137 639 137 HOH HOH . D 4 HOH A 138 640 138 HOH HOH . D 4 HOH A 139 641 139 HOH HOH . D 4 HOH A 140 642 140 HOH HOH . D 4 HOH A 141 643 141 HOH HOH . D 4 HOH A 142 644 142 HOH HOH . D 4 HOH A 143 645 143 HOH HOH . D 4 HOH A 144 646 144 HOH HOH . D 4 HOH A 145 647 145 HOH HOH . D 4 HOH A 146 648 146 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 2.188 28.012 51.378 1 37.24 ? N SAH 501 A 1 HETATM 2 C CA SAH . . . B 2 1.648 26.623 51.249 1 37.27 ? CA SAH 501 A 1 HETATM 3 C CB SAH . . . B 2 2.766 25.622 50.946 1 37.87 ? CB SAH 501 A 1 HETATM 4 C CG SAH . . . B 2 3.891 25.509 51.965 1 37.26 ? CG SAH 501 A 1 HETATM 5 S SD SAH . . . B 2 4.821 23.957 51.734 1 41.41 ? SD SAH 501 A 1 HETATM 6 C C SAH . . . B 2 0.881 26.161 52.486 1 37.42 ? C SAH 501 A 1 HETATM 7 O O SAH . . . B 2 0.557 26.95 53.39 1 37.75 ? O SAH 501 A 1 HETATM 8 O OXT SAH . . . B 2 0.571 24.975 52.587 1 36.75 ? OXT SAH 501 A 1 HETATM 9 C C5' SAH . . . B 2 6.343 24.751 51.173 1 38.01 ? C5' SAH 501 A 1 HETATM 10 C C4' SAH . . . B 2 6.348 25.039 49.683 1 35.18 ? C4' SAH 501 A 1 HETATM 11 O O4' SAH . . . B 2 7.458 25.848 49.47 1 33.47 ? O4' SAH 501 A 1 HETATM 12 C C3' SAH . . . B 2 6.527 23.846 48.735 1 33.89 ? C3' SAH 501 A 1 HETATM 13 O O3' SAH . . . B 2 5.438 23.722 47.839 1 31.17 ? O3' SAH 501 A 1 HETATM 14 C C2' SAH . . . B 2 7.818 24.165 47.982 1 35.34 ? C2' SAH 501 A 1 HETATM 15 O O2' SAH . . . B 2 7.885 23.701 46.641 1 38.3 ? O2' SAH 501 A 1 HETATM 16 C C1' SAH . . . B 2 7.845 25.676 48.115 1 33.04 ? C1' SAH 501 A 1 HETATM 17 N N9 SAH . . . B 2 9.173 26.272 47.853 1 33.43 ? N9 SAH 501 A 1 HETATM 18 C C8 SAH . . . B 2 10.351 26.058 48.525 1 34.11 ? C8 SAH 501 A 1 HETATM 19 N N7 SAH . . . B 2 11.343 26.8 47.957 1 34.36 ? N7 SAH 501 A 1 HETATM 20 C C5 SAH . . . B 2 10.803 27.503 46.93 1 34.55 ? C5 SAH 501 A 1 HETATM 21 C C6 SAH . . . B 2 11.339 28.429 46.023 1 32.75 ? C6 SAH 501 A 1 HETATM 22 N N6 SAH . . . B 2 12.627 28.758 46.067 1 32.47 ? N6 SAH 501 A 1 HETATM 23 N N1 SAH . . . B 2 10.519 28.999 45.076 1 31.96 ? N1 SAH 501 A 1 HETATM 24 C C2 SAH . . . B 2 9.175 28.67 45.01 1 34.77 ? C2 SAH 501 A 1 HETATM 25 N N3 SAH . . . B 2 8.639 27.748 45.908 1 34 ? N3 SAH 501 A 1 HETATM 26 C C4 SAH . . . B 2 9.437 27.183 46.859 1 34.77 ? C4 SAH 501 A 1 # _model_server_stats.io_time_ms 40 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 26 #