data_5IS8 # _model_server_result.job_id 3cYNGw0qRr7dl-98xrmAlA _model_server_result.datetime_utc '2024-12-04 19:04:40' _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 5is8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":601}' # _entry.id 5IS8 # _exptl.entry_id 5IS8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 4 _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 5IS8 _cell.length_a 74.544 _cell.length_b 98.623 _cell.length_c 207.467 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5IS8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,N,O _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id I _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 341 n n N HN1 SAH sing 342 n n N HN2 SAH sing 343 n n CA CB SAH sing 344 n n CA C SAH sing 345 n n CA HA SAH sing 346 n n CB CG SAH sing 347 n n CB HB1 SAH sing 348 n n CB HB2 SAH sing 349 n n CG SD SAH sing 350 n n CG HG1 SAH sing 351 n n CG HG2 SAH sing 352 n n SD C5' SAH sing 353 n n C O SAH doub 354 n n C OXT SAH sing 355 n n OXT HXT SAH sing 356 n n C5' C4' SAH sing 357 n n C5' "H5'1" SAH sing 358 n n C5' "H5'2" SAH sing 359 n n C4' O4' SAH sing 360 n n C4' C3' SAH sing 361 n n C4' H4' SAH sing 362 n n O4' C1' SAH sing 363 n n C3' O3' SAH sing 364 n n C3' C2' SAH sing 365 n n C3' H3' SAH sing 366 n n O3' HO3' SAH sing 367 n n C2' O2' SAH sing 368 n n C2' C1' SAH sing 369 n n C2' H2' SAH sing 370 n n O2' HO2' SAH sing 371 n n C1' N9 SAH sing 372 n n C1' H1' SAH sing 373 n n N9 C8 SAH sing 374 n y N9 C4 SAH sing 375 n y C8 N7 SAH doub 376 n y C8 H8 SAH sing 377 n n N7 C5 SAH sing 378 n y C5 C6 SAH sing 379 n y C5 C4 SAH doub 380 n y C6 N6 SAH sing 381 n n C6 N1 SAH doub 382 n y N6 HN61 SAH sing 383 n n N6 HN62 SAH sing 384 n n N1 C2 SAH sing 385 n y C2 N3 SAH doub 386 n y C2 H2 SAH sing 387 n n N3 C4 SAH sing 388 n y # _atom_sites.entry_id 5IS8 _atom_sites.fract_transf_matrix[1][1] 0.013415 _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] 0.01014 _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] 0.00482 _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 2 6D1 A 1 601 1 6D1 271 . F 3 EDO A 1 602 1 EDO EDO . G 3 EDO A 1 603 2 EDO EDO . H 2 6D1 B 1 601 2 6D1 271 . I 4 SAH D 1 601 4 SAH SAH . J 3 EDO D 1 602 3 EDO EDO . K 2 6D1 C 1 601 3 6D1 271 . L 5 HOH A 1 701 54 HOH HOH . L 5 HOH A 2 702 1 HOH HOH . L 5 HOH A 3 703 25 HOH HOH . L 5 HOH A 4 704 7 HOH HOH . L 5 HOH A 5 705 96 HOH HOH . L 5 HOH A 6 706 110 HOH HOH . L 5 HOH A 7 707 81 HOH HOH . L 5 HOH A 8 708 44 HOH HOH . L 5 HOH A 9 709 63 HOH HOH . L 5 HOH A 10 710 68 HOH HOH . L 5 HOH A 11 711 111 HOH HOH . L 5 HOH A 12 712 45 HOH HOH . L 5 HOH A 13 713 48 HOH HOH . L 5 HOH A 14 714 87 HOH HOH . L 5 HOH A 15 715 112 HOH HOH . L 5 HOH A 16 716 98 HOH HOH . L 5 HOH A 17 717 16 HOH HOH . L 5 HOH A 18 718 6 HOH HOH . L 5 HOH A 19 719 78 HOH HOH . L 5 HOH A 20 720 115 HOH HOH . L 5 HOH A 21 721 14 HOH HOH . L 5 HOH A 22 722 28 HOH HOH . L 5 HOH A 23 723 18 HOH HOH . L 5 HOH A 24 724 99 HOH HOH . L 5 HOH A 25 725 2 HOH HOH . L 5 HOH A 26 726 102 HOH HOH . L 5 HOH A 27 727 77 HOH HOH . L 5 HOH A 28 728 20 HOH HOH . L 5 HOH A 29 729 13 HOH HOH . L 5 HOH A 30 730 105 HOH HOH . L 5 HOH A 31 731 39 HOH HOH . L 5 HOH A 32 732 5 HOH HOH . L 5 HOH A 33 733 107 HOH HOH . L 5 HOH A 34 734 19 HOH HOH . L 5 HOH A 35 735 31 HOH HOH . L 5 HOH A 36 736 95 HOH HOH . L 5 HOH A 37 737 35 HOH HOH . L 5 HOH A 38 738 104 HOH HOH . M 5 HOH B 1 701 38 HOH HOH . M 5 HOH B 2 702 113 HOH HOH . M 5 HOH B 3 703 50 HOH HOH . M 5 HOH B 4 704 109 HOH HOH . M 5 HOH B 5 705 66 HOH HOH . M 5 HOH B 6 706 57 HOH HOH . M 5 HOH B 7 707 116 HOH HOH . M 5 HOH B 8 708 106 HOH HOH . M 5 HOH B 9 709 70 HOH HOH . M 5 HOH B 10 710 10 HOH HOH . M 5 HOH B 11 711 46 HOH HOH . M 5 HOH B 12 712 29 HOH HOH . M 5 HOH B 13 713 117 HOH HOH . M 5 HOH B 14 714 27 HOH HOH . M 5 HOH B 15 715 114 HOH HOH . N 5 HOH D 1 701 11 HOH HOH . N 5 HOH D 2 702 47 HOH HOH . N 5 HOH D 3 703 36 HOH HOH . N 5 HOH D 4 704 61 HOH HOH . N 5 HOH D 5 705 100 HOH HOH . N 5 HOH D 6 706 12 HOH HOH . N 5 HOH D 7 707 51 HOH HOH . N 5 HOH D 8 708 108 HOH HOH . O 5 HOH C 1 701 17 HOH HOH . O 5 HOH C 2 702 40 HOH HOH . O 5 HOH C 3 703 56 HOH HOH . O 5 HOH C 4 704 37 HOH HOH . O 5 HOH C 5 705 67 HOH HOH . O 5 HOH C 6 706 15 HOH HOH . O 5 HOH C 7 707 94 HOH HOH . O 5 HOH C 8 708 79 HOH HOH . O 5 HOH C 9 709 23 HOH HOH . O 5 HOH C 10 710 30 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 . . . I 4 53.854 15.875 193.698 1 59.49 ? N SAH 601 D 1 HETATM 2 C CA SAH . . . I 4 52.478 15.31 193.591 1 60.65 ? CA SAH 601 D 1 HETATM 3 C CB SAH . . . I 4 51.614 16.101 192.611 1 62.48 ? CB SAH 601 D 1 HETATM 4 C CG SAH . . . I 4 51.44 17.547 193.015 1 63.87 ? CG SAH 601 D 1 HETATM 5 S SD SAH . . . I 4 51.134 18.529 191.529 1 66.08 ? SD SAH 601 D 1 HETATM 6 C C SAH . . . I 4 52.554 13.872 193.079 1 61.65 ? C SAH 601 D 1 HETATM 7 O O SAH . . . I 4 53.587 13.551 192.445 1 62.09 ? O SAH 601 D 1 HETATM 8 O OXT SAH . . . I 4 51.563 13.142 193.302 1 62.41 ? OXT SAH 601 D 1 HETATM 9 C C5' SAH . . . I 4 51.483 20.207 192.116 1 62.99 ? C5' SAH 601 D 1 HETATM 10 C C4' SAH . . . I 4 51.118 20.419 193.577 1 58.57 ? C4' SAH 601 D 1 HETATM 11 O O4' SAH . . . I 4 51.926 21.47 194.15 1 56.37 ? O4' SAH 601 D 1 HETATM 12 C C3' SAH . . . I 4 49.659 20.864 193.733 1 55.33 ? C3' SAH 601 D 1 HETATM 13 O O3' SAH . . . I 4 49.109 20.206 194.869 1 53.37 ? O3' SAH 601 D 1 HETATM 14 C C2' SAH . . . I 4 49.78 22.381 193.906 1 54.64 ? C2' SAH 601 D 1 HETATM 15 O O2' SAH . . . I 4 48.692 22.915 194.649 1 53.43 ? O2' SAH 601 D 1 HETATM 16 C C1' SAH . . . I 4 51.096 22.479 194.678 1 55.24 ? C1' SAH 601 D 1 HETATM 17 N N9 SAH . . . I 4 51.803 23.738 194.526 1 56.11 ? N9 SAH 601 D 1 HETATM 18 C C8 SAH . . . I 4 51.868 24.53 193.411 1 57.57 ? C8 SAH 601 D 1 HETATM 19 N N7 SAH . . . I 4 52.614 25.6 193.547 1 58.48 ? N7 SAH 601 D 1 HETATM 20 C C5 SAH . . . I 4 53.068 25.508 194.856 1 57.52 ? C5 SAH 601 D 1 HETATM 21 C C6 SAH . . . I 4 53.895 26.348 195.63 1 56.58 ? C6 SAH 601 D 1 HETATM 22 N N6 SAH . . . I 4 54.399 27.507 195.193 1 56.07 ? N6 SAH 601 D 1 HETATM 23 N N1 SAH . . . I 4 54.162 25.963 196.898 1 55.93 ? N1 SAH 601 D 1 HETATM 24 C C2 SAH . . . I 4 53.632 24.822 197.35 1 54.91 ? C2 SAH 601 D 1 HETATM 25 N N3 SAH . . . I 4 52.834 23.959 196.719 1 54.8 ? N3 SAH 601 D 1 HETATM 26 C C4 SAH . . . I 4 52.587 24.369 195.467 1 56.75 ? C4 SAH 601 D 1 HETATM 27 H H2 SAH . . . I 4 53.894 24.571 198.377 1 65.89 ? H2 SAH 601 D 1 HETATM 28 H HN1 SAH . . . I 4 53.872 16.888 193.764 1 71.39 ? HN1 SAH 601 D 1 HETATM 29 H H3 SAH . . . I 4 54.453 15.592 192.928 1 71.39 ? H3 SAH 601 D 1 HETATM 30 H HN2 SAH . . . I 4 54.209 15.481 194.563 1 71.39 ? HN2 SAH 601 D 1 HETATM 31 H HA SAH . . . I 4 52.011 15.291 194.575 1 72.78 ? HA SAH 601 D 1 HETATM 32 H HB1 SAH . . . I 4 50.64 15.617 192.563 1 74.97 ? HB1 SAH 601 D 1 HETATM 33 H HB2 SAH . . . I 4 51.999 16.021 191.596 1 74.97 ? HB2 SAH 601 D 1 HETATM 34 H HG1 SAH . . . I 4 52.309 17.951 193.532 1 76.64 ? HG1 SAH 601 D 1 HETATM 35 H HG2 SAH . . . I 4 50.605 17.666 193.704 1 76.64 ? HG2 SAH 601 D 1 HETATM 36 H "H5'1" SAH . . . I 4 52.54 20.404 191.94 1 75.58 ? "H5'1" SAH 601 D 1 HETATM 37 H "H5'2" SAH . . . I 4 50.96 20.919 191.48 1 75.58 ? "H5'2" SAH 601 D 1 HETATM 38 H H4' SAH . . . I 4 51.366 19.533 194.159 1 70.28 ? H4' SAH 601 D 1 HETATM 39 H H3' SAH . . . I 4 48.981 20.562 192.936 1 66.4 ? H3' SAH 601 D 1 HETATM 40 H HO3' SAH . . . I 4 49.513 20.591 195.69 1 64.04 ? HO3' SAH 601 D 1 HETATM 41 H H2' SAH . . . I 4 49.752 22.933 192.967 1 65.57 ? H2' SAH 601 D 1 HETATM 42 H HO2' SAH . . . I 4 48.767 22.648 195.602 1 64.12 ? HO2' SAH 601 D 1 HETATM 43 H H1' SAH . . . I 4 50.99 22.296 195.746 1 66.29 ? H1' SAH 601 D 1 HETATM 44 H H8 SAH . . . I 4 51.343 24.289 192.489 1 69.08 ? H8 SAH 601 D 1 HETATM 45 H HN61 SAH . . . I 4 54.195 27.831 194.252 1 67.29 ? HN61 SAH 601 D 1 HETATM 46 H HN62 SAH . . . I 4 54.991 28.084 195.782 1 67.29 ? HN62 SAH 601 D 1 # _model_server_stats.io_time_ms 30 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 34 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 46 #