data_4N48 # _model_server_result.job_id XMmR2LlQUqKpj2pmXyG9zA _model_server_result.datetime_utc '2024-11-13 18:51:58' _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 4n48 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":601}' # _entry.id 4N48 # _exptl.entry_id 4N48 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYLMETHIONINE _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90.23 _cell.angle_beta 97.83 _cell.angle_gamma 116.25 _cell.entry_id 4N48 _cell.length_a 52.209 _cell.length_b 60.038 _cell.length_c 87.045 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4N48 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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 ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression B,D,F,H,J,L 1 1 A,C,E,G,I,K 2 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 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 covale ? covale1 C O5' G 1 D G 1 1_555 G PG MGT . D MGT 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.598 ? covale ? covale2 D O5' G 1 G G 1 1_555 H PG MGT . G MGT 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.605 ? # _chem_comp.formula 'C15 H22 N6 O5 S' _chem_comp.formula_weight 398.437 _chem_comp.id SAM _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYLMETHIONINE _chem_comp.type non-polymer _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 SAM sing 447 n n N HN1 SAM sing 448 n n N HN2 SAM sing 449 n n CA C SAM sing 450 n n CA CB SAM sing 451 n n CA HA SAM sing 452 n n C O SAM doub 453 n n C OXT SAM sing 454 n n CB CG SAM sing 455 n n CB HB1 SAM sing 456 n n CB HB2 SAM sing 457 n n CG SD SAM sing 458 n n CG HG1 SAM sing 459 n n CG HG2 SAM sing 460 n n SD CE SAM sing 461 n n SD C5' SAM sing 462 n n CE HE1 SAM sing 463 n n CE HE2 SAM sing 464 n n CE HE3 SAM sing 465 n n C5' C4' SAM sing 466 n n C5' "H5'1" SAM sing 467 n n C5' "H5'2" SAM sing 468 n n C4' O4' SAM sing 469 n n C4' C3' SAM sing 470 n n C4' H4' SAM sing 471 n n O4' C1' SAM sing 472 n n C3' O3' SAM sing 473 n n C3' C2' SAM sing 474 n n C3' H3' SAM sing 475 n n O3' HO3' SAM sing 476 n n C2' O2' SAM sing 477 n n C2' C1' SAM sing 478 n n C2' H2' SAM sing 479 n n O2' HO2' SAM sing 480 n n C1' N9 SAM sing 481 n n C1' H1' SAM sing 482 n n N9 C8 SAM sing 483 n y N9 C4 SAM sing 484 n y C8 N7 SAM doub 485 n y C8 H8 SAM sing 486 n n N7 C5 SAM sing 487 n y C5 C6 SAM sing 488 n y C5 C4 SAM doub 489 n y C6 N6 SAM sing 490 n n C6 N1 SAM doub 491 n y N6 HN61 SAM sing 492 n n N6 HN62 SAM sing 493 n n N1 C2 SAM sing 494 n y C2 N3 SAM doub 495 n y C2 H2 SAM sing 496 n n N3 C4 SAM sing 497 n y # _atom_sites.entry_id 4N48 _atom_sites.fract_transf_matrix[1][1] 0.019154 _atom_sites.fract_transf_matrix[1][2] 0.009446 _atom_sites.fract_transf_matrix[1][3] 0.003326 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018571 _atom_sites.fract_transf_matrix[2][3] 0.001347 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.011627 _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 E 3 SAM A 1 601 1 SAM SAM . F 3 SAM B 1 601 1 SAM SAM . G 4 MGT D 1 101 -1 MGT MGT . H 4 MGT G 1 101 -1 MGT MGT . I 5 HOH A 1 701 1 HOH HOH . I 5 HOH A 2 702 2 HOH HOH . I 5 HOH A 3 703 3 HOH HOH . I 5 HOH A 4 704 14 HOH HOH . I 5 HOH A 5 705 23 HOH HOH . I 5 HOH A 6 706 34 HOH HOH . I 5 HOH A 7 707 39 HOH HOH . I 5 HOH A 8 708 73 HOH HOH . I 5 HOH A 9 709 143 HOH HOH . I 5 HOH A 10 710 177 HOH HOH . I 5 HOH A 11 711 304 HOH HOH . I 5 HOH A 12 712 386 HOH HOH . I 5 HOH A 13 713 387 HOH HOH . I 5 HOH A 14 714 388 HOH HOH . I 5 HOH A 15 715 389 HOH HOH . I 5 HOH A 16 716 391 HOH HOH . I 5 HOH A 17 717 392 HOH HOH . I 5 HOH A 18 718 396 HOH HOH . I 5 HOH A 19 719 397 HOH HOH . I 5 HOH A 20 720 398 HOH HOH . I 5 HOH A 21 721 399 HOH HOH . I 5 HOH A 22 722 400 HOH HOH . I 5 HOH A 23 723 401 HOH HOH . I 5 HOH A 24 724 402 HOH HOH . I 5 HOH A 25 725 403 HOH HOH . I 5 HOH A 26 726 404 HOH HOH . I 5 HOH A 27 727 408 HOH HOH . I 5 HOH A 28 728 409 HOH HOH . I 5 HOH A 29 729 410 HOH HOH . I 5 HOH A 30 730 411 HOH HOH . I 5 HOH A 31 731 412 HOH HOH . I 5 HOH A 32 732 413 HOH HOH . I 5 HOH A 33 733 414 HOH HOH . I 5 HOH A 34 734 415 HOH HOH . I 5 HOH A 35 735 416 HOH HOH . I 5 HOH A 36 736 444 HOH HOH . I 5 HOH A 37 737 445 HOH HOH . I 5 HOH A 38 738 446 HOH HOH . I 5 HOH A 39 739 448 HOH HOH . I 5 HOH A 40 740 449 HOH HOH . I 5 HOH A 41 741 451 HOH HOH . I 5 HOH A 42 742 457 HOH HOH . I 5 HOH A 43 743 458 HOH HOH . I 5 HOH A 44 744 460 HOH HOH . I 5 HOH A 45 745 461 HOH HOH . I 5 HOH A 46 746 462 HOH HOH . I 5 HOH A 47 747 474 HOH HOH . I 5 HOH A 48 748 479 HOH HOH . I 5 HOH A 49 749 480 HOH HOH . I 5 HOH A 50 750 481 HOH HOH . I 5 HOH A 51 751 482 HOH HOH . I 5 HOH A 52 752 483 HOH HOH . I 5 HOH A 53 753 484 HOH HOH . I 5 HOH A 54 754 485 HOH HOH . I 5 HOH A 55 755 494 HOH HOH . I 5 HOH A 56 756 495 HOH HOH . I 5 HOH A 57 757 496 HOH HOH . J 5 HOH B 1 701 4 HOH HOH . J 5 HOH B 2 702 6 HOH HOH . J 5 HOH B 3 703 8 HOH HOH . J 5 HOH B 4 704 9 HOH HOH . J 5 HOH B 5 705 12 HOH HOH . J 5 HOH B 6 706 18 HOH HOH . J 5 HOH B 7 707 25 HOH HOH . J 5 HOH B 8 708 26 HOH HOH . J 5 HOH B 9 709 30 HOH HOH . J 5 HOH B 10 710 61 HOH HOH . J 5 HOH B 11 711 88 HOH HOH . J 5 HOH B 12 712 109 HOH HOH . J 5 HOH B 13 713 220 HOH HOH . J 5 HOH B 14 714 417 HOH HOH . J 5 HOH B 15 715 418 HOH HOH . J 5 HOH B 16 716 419 HOH HOH . J 5 HOH B 17 717 420 HOH HOH . J 5 HOH B 18 718 421 HOH HOH . J 5 HOH B 19 719 423 HOH HOH . J 5 HOH B 20 720 424 HOH HOH . J 5 HOH B 21 721 425 HOH HOH . J 5 HOH B 22 722 426 HOH HOH . J 5 HOH B 23 723 427 HOH HOH . J 5 HOH B 24 724 428 HOH HOH . J 5 HOH B 25 725 429 HOH HOH . J 5 HOH B 26 726 430 HOH HOH . J 5 HOH B 27 727 432 HOH HOH . J 5 HOH B 28 728 433 HOH HOH . J 5 HOH B 29 729 435 HOH HOH . J 5 HOH B 30 730 436 HOH HOH . J 5 HOH B 31 731 437 HOH HOH . J 5 HOH B 32 732 439 HOH HOH . J 5 HOH B 33 733 443 HOH HOH . J 5 HOH B 34 734 463 HOH HOH . J 5 HOH B 35 735 464 HOH HOH . J 5 HOH B 36 736 465 HOH HOH . J 5 HOH B 37 737 466 HOH HOH . J 5 HOH B 38 738 470 HOH HOH . J 5 HOH B 39 739 471 HOH HOH . J 5 HOH B 40 740 472 HOH HOH . J 5 HOH B 41 741 473 HOH HOH . J 5 HOH B 42 742 477 HOH HOH . J 5 HOH B 43 743 486 HOH HOH . J 5 HOH B 44 744 487 HOH HOH . J 5 HOH B 45 745 489 HOH HOH . J 5 HOH B 46 746 490 HOH HOH . J 5 HOH B 47 747 491 HOH HOH . J 5 HOH B 48 748 497 HOH HOH . J 5 HOH B 49 749 498 HOH HOH . J 5 HOH B 50 750 499 HOH HOH . K 5 HOH D 1 201 390 HOH HOH . K 5 HOH D 2 202 393 HOH HOH . K 5 HOH D 3 203 394 HOH HOH . K 5 HOH D 4 204 405 HOH HOH . K 5 HOH D 5 205 406 HOH HOH . K 5 HOH D 6 206 407 HOH HOH . K 5 HOH D 7 207 450 HOH HOH . K 5 HOH D 8 208 467 HOH HOH . K 5 HOH D 9 209 475 HOH HOH . K 5 HOH D 10 210 492 HOH HOH . L 5 HOH G 1 201 422 HOH HOH . L 5 HOH G 2 202 434 HOH HOH . L 5 HOH G 3 203 438 HOH HOH . L 5 HOH G 4 204 440 HOH HOH . L 5 HOH G 5 205 453 HOH HOH . L 5 HOH G 6 206 454 HOH HOH . L 5 HOH G 7 207 455 HOH HOH . L 5 HOH G 8 208 468 HOH HOH . L 5 HOH G 9 209 469 HOH HOH . L 5 HOH G 10 210 476 HOH HOH . L 5 HOH G 11 211 478 HOH HOH . L 5 HOH G 12 212 488 HOH HOH . L 5 HOH G 13 213 493 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 SAM . . . E 3 48.843 -4.955 -19.862 1 17.47 ? N SAM 601 A 1 HETATM 2 C CA SAM . . . E 3 50.049 -5.572 -19.323 1 22.4 ? CA SAM 601 A 1 HETATM 3 C C SAM . . . E 3 50.733 -6.301 -20.405 1 20.34 ? C SAM 601 A 1 HETATM 4 O O SAM . . . E 3 51.887 -6.837 -20.211 1 18.78 ? O SAM 601 A 1 HETATM 5 O OXT SAM . . . E 3 50.187 -6.378 -21.495 1 18.24 ? OXT SAM 601 A 1 HETATM 6 C CB SAM . . . E 3 49.719 -6.51 -18.213 1 18.66 ? CB SAM 601 A 1 HETATM 7 C CG SAM . . . E 3 48.947 -5.966 -17.055 1 17.75 ? CG SAM 601 A 1 HETATM 8 S SD SAM . . . E 3 49.641 -6.302 -15.407 1 26.9 ? SD SAM 601 A 1 HETATM 9 C CE SAM . . . E 3 49.372 -7.945 -15.006 1 21.35 ? CE SAM 601 A 1 HETATM 10 C C5' SAM . . . E 3 48.917 -5.273 -14.178 1 18.6 ? C5' SAM 601 A 1 HETATM 11 C C4' SAM . . . E 3 49.874 -4.181 -13.82 1 18.19 ? C4' SAM 601 A 1 HETATM 12 O O4' SAM . . . E 3 49.248 -3.187 -13.023 1 17.66 ? O4' SAM 601 A 1 HETATM 13 C C3' SAM . . . E 3 50.96 -4.725 -13.052 1 19.17 ? C3' SAM 601 A 1 HETATM 14 O O3' SAM . . . E 3 52.144 -4.652 -13.786 1 15.85 ? O3' SAM 601 A 1 HETATM 15 C C2' SAM . . . E 3 51.021 -3.876 -11.851 1 17.78 ? C2' SAM 601 A 1 HETATM 16 O O2' SAM . . . E 3 52.337 -3.665 -11.512 1 19.01 ? O2' SAM 601 A 1 HETATM 17 C C1' SAM . . . E 3 50.332 -2.684 -12.281 1 18.03 ? C1' SAM 601 A 1 HETATM 18 N N9 SAM . . . E 3 49.87 -1.908 -11.231 1 20.44 ? N9 SAM 601 A 1 HETATM 19 C C8 SAM . . . E 3 49.142 -2.314 -10.155 1 16.86 ? C8 SAM 601 A 1 HETATM 20 N N7 SAM . . . E 3 48.907 -1.25 -9.374 1 19.57 ? N7 SAM 601 A 1 HETATM 21 C C5 SAM . . . E 3 49.47 -0.158 -9.934 1 18.34 ? C5 SAM 601 A 1 HETATM 22 C C6 SAM . . . E 3 49.561 1.215 -9.58 1 17.79 ? C6 SAM 601 A 1 HETATM 23 N N6 SAM . . . E 3 48.948 1.715 -8.347 1 19.62 ? N6 SAM 601 A 1 HETATM 24 N N1 SAM . . . E 3 50.221 2.047 -10.393 1 18.24 ? N1 SAM 601 A 1 HETATM 25 C C2 SAM . . . E 3 50.802 1.599 -11.541 1 19.9 ? C2 SAM 601 A 1 HETATM 26 N N3 SAM . . . E 3 50.739 0.299 -11.909 1 18.06 ? N3 SAM 601 A 1 HETATM 27 C C4 SAM . . . E 3 50.086 -0.589 -11.13 1 20.45 ? C4 SAM 601 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #