data_5E8R # _model_server_result.job_id 1JAFeUVuhPWcFoLYHTmn2A _model_server_result.datetime_utc '2024-11-29 14:16:11' _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 5e8r # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1001}' # _entry.id 5E8R # _exptl.entry_id 5E8R _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 2 _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 5E8R _cell.length_a 100.244 _cell.length_b 100.244 _cell.length_c 89.868 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5E8R _symmetry.cell_setting ? _symmetry.Int_Tables_number 78 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details 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,P,Q,R,S,T,U,V _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 G N 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 324 n n N HN1 SAH sing 325 n n N HN2 SAH sing 326 n n CA CB SAH sing 327 n n CA C SAH sing 328 n n CA HA SAH sing 329 n n CB CG SAH sing 330 n n CB HB1 SAH sing 331 n n CB HB2 SAH sing 332 n n CG SD SAH sing 333 n n CG HG1 SAH sing 334 n n CG HG2 SAH sing 335 n n SD C5' SAH sing 336 n n C O SAH doub 337 n n C OXT SAH sing 338 n n OXT HXT SAH sing 339 n n C5' C4' SAH sing 340 n n C5' "H5'1" SAH sing 341 n n C5' "H5'2" SAH sing 342 n n C4' O4' SAH sing 343 n n C4' C3' SAH sing 344 n n C4' H4' SAH sing 345 n n O4' C1' SAH sing 346 n n C3' O3' SAH sing 347 n n C3' C2' SAH sing 348 n n C3' H3' SAH sing 349 n n O3' HO3' SAH sing 350 n n C2' O2' SAH sing 351 n n C2' C1' SAH sing 352 n n C2' H2' SAH sing 353 n n O2' HO2' SAH sing 354 n n C1' N9 SAH sing 355 n n C1' H1' SAH sing 356 n n N9 C8 SAH sing 357 n y N9 C4 SAH sing 358 n y C8 N7 SAH doub 359 n y C8 H8 SAH sing 360 n n N7 C5 SAH sing 361 n y C5 C6 SAH sing 362 n y C5 C4 SAH doub 363 n y C6 N6 SAH sing 364 n n C6 N1 SAH doub 365 n y N6 HN61 SAH sing 366 n n N6 HN62 SAH sing 367 n n N1 C2 SAH sing 368 n y C2 N3 SAH doub 369 n y C2 H2 SAH sing 370 n n N3 C4 SAH sing 371 n y # _atom_sites.entry_id 5E8R _atom_sites.fract_transf_matrix[1][1] 0.009976 _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] 0.009976 _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] 0.011127 _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 2 SAH A 1 1001 1001 SAH SAH . D 3 5L6 A 1 1002 1002 5L6 XXX . E 4 CL A 1 1003 3 CL CL . F 5 UNX A 1 1004 1001 UNX UNX . G 2 SAH B 1 1001 1001 SAH SAH . H 3 5L6 B 1 1002 1002 5L6 XXX . I 4 CL B 1 1003 1 CL CL . J 4 CL B 1 1004 2 CL CL . K 4 CL B 1 1005 4 CL CL . L 4 CL B 1 1006 5 CL CL . M 5 UNX B 1 1007 1000 UNX UNX . N 5 UNX B 1 1008 1002 UNX UNX . O 5 UNX B 1 1009 1003 UNX UNX . P 5 UNX B 1 1010 1004 UNX UNX . Q 5 UNX B 1 1011 1005 UNX UNX . R 5 UNX B 1 1012 1006 UNX UNX . S 5 UNX B 1 1013 1007 UNX UNX . T 5 UNX B 1 1014 1008 UNX UNX . U 6 HOH A 1 1101 46 HOH HOH . U 6 HOH A 2 1102 64 HOH HOH . U 6 HOH A 3 1103 47 HOH HOH . U 6 HOH A 4 1104 66 HOH HOH . U 6 HOH A 5 1105 19 HOH HOH . U 6 HOH A 6 1106 65 HOH HOH . U 6 HOH A 7 1107 2 HOH HOH . U 6 HOH A 8 1108 43 HOH HOH . U 6 HOH A 9 1109 53 HOH HOH . U 6 HOH A 10 1110 55 HOH HOH . U 6 HOH A 11 1111 18 HOH HOH . U 6 HOH A 12 1112 63 HOH HOH . U 6 HOH A 13 1113 39 HOH HOH . U 6 HOH A 14 1114 3 HOH HOH . U 6 HOH A 15 1115 4 HOH HOH . U 6 HOH A 16 1116 17 HOH HOH . U 6 HOH A 17 1117 16 HOH HOH . U 6 HOH A 18 1118 45 HOH HOH . U 6 HOH A 19 1119 5 HOH HOH . U 6 HOH A 20 1120 15 HOH HOH . U 6 HOH A 21 1121 13 HOH HOH . U 6 HOH A 22 1122 56 HOH HOH . U 6 HOH A 23 1123 44 HOH HOH . U 6 HOH A 24 1124 11 HOH HOH . U 6 HOH A 25 1125 40 HOH HOH . U 6 HOH A 26 1126 14 HOH HOH . U 6 HOH A 27 1127 54 HOH HOH . V 6 HOH B 1 1101 30 HOH HOH . V 6 HOH B 2 1102 7 HOH HOH . V 6 HOH B 3 1103 33 HOH HOH . V 6 HOH B 4 1104 50 HOH HOH . V 6 HOH B 5 1105 26 HOH HOH . V 6 HOH B 6 1106 1 HOH HOH . V 6 HOH B 7 1107 24 HOH HOH . V 6 HOH B 8 1108 58 HOH HOH . V 6 HOH B 9 1109 36 HOH HOH . V 6 HOH B 10 1110 60 HOH HOH . V 6 HOH B 11 1111 41 HOH HOH . V 6 HOH B 12 1112 12 HOH HOH . V 6 HOH B 13 1113 20 HOH HOH . V 6 HOH B 14 1114 25 HOH HOH . V 6 HOH B 15 1115 6 HOH HOH . V 6 HOH B 16 1116 21 HOH HOH . V 6 HOH B 17 1117 31 HOH HOH . V 6 HOH B 18 1118 37 HOH HOH . V 6 HOH B 19 1119 67 HOH HOH . V 6 HOH B 20 1120 10 HOH HOH . V 6 HOH B 21 1121 42 HOH HOH . V 6 HOH B 22 1122 38 HOH HOH . V 6 HOH B 23 1123 29 HOH HOH . V 6 HOH B 24 1124 23 HOH HOH . V 6 HOH B 25 1125 48 HOH HOH . V 6 HOH B 26 1126 27 HOH HOH . V 6 HOH B 27 1127 32 HOH HOH . V 6 HOH B 28 1128 22 HOH HOH . V 6 HOH B 29 1129 61 HOH HOH . V 6 HOH B 30 1130 59 HOH HOH . V 6 HOH B 31 1131 57 HOH HOH . V 6 HOH B 32 1132 49 HOH HOH . V 6 HOH B 33 1133 28 HOH HOH . V 6 HOH B 34 1134 62 HOH HOH . V 6 HOH B 35 1135 35 HOH HOH . V 6 HOH B 36 1136 52 HOH HOH . V 6 HOH B 37 1137 51 HOH HOH . V 6 HOH B 38 1138 68 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 2 -23.769 21.045 2.191 1 29.82 ? N SAH 1001 A 1 HETATM 2 C CA SAH . . . C 2 -24.292 21.967 1.129 1 29.86 ? CA SAH 1001 A 1 HETATM 3 C CB SAH . . . C 2 -24.567 21.248 -0.198 1 28.89 ? CB SAH 1001 A 1 HETATM 4 C CG SAH . . . C 2 -25.333 19.932 -0.077 1 28.15 ? CG SAH 1001 A 1 HETATM 5 S SD SAH . . . C 2 -25.635 19.3 -1.697 1 27.16 ? SD SAH 1001 A 1 HETATM 6 C C SAH . . . C 2 -25.537 22.676 1.594 1 31.01 ? C SAH 1001 A 1 HETATM 7 O O SAH . . . C 2 -25.973 23.659 0.982 1 32.66 ? O SAH 1001 A 1 HETATM 8 O OXT SAH . . . C 2 -26.143 22.299 2.598 1 31.15 ? OXT SAH 1001 A 1 HETATM 9 C C5' SAH . . . C 2 -24.357 18.098 -1.93 1 26.84 ? C5' SAH 1001 A 1 HETATM 10 C C4' SAH . . . C 2 -23.047 18.671 -2.483 1 26.79 ? C4' SAH 1001 A 1 HETATM 11 O O4' SAH . . . C 2 -22.05 17.655 -2.498 1 26.18 ? O4' SAH 1001 A 1 HETATM 12 C C3' SAH . . . C 2 -23.11 19.181 -3.917 1 26.98 ? C3' SAH 1001 A 1 HETATM 13 O O3' SAH . . . C 2 -22.805 20.586 -3.941 1 28.07 ? O3' SAH 1001 A 1 HETATM 14 C C2' SAH . . . C 2 -22.092 18.383 -4.726 1 26.88 ? C2' SAH 1001 A 1 HETATM 15 O O2' SAH . . . C 2 -21.307 19.187 -5.618 1 26.63 ? O2' SAH 1001 A 1 HETATM 16 C C1' SAH . . . C 2 -21.218 17.763 -3.652 1 26.51 ? C1' SAH 1001 A 1 HETATM 17 N N9 SAH . . . C 2 -20.683 16.408 -3.936 1 26.34 ? N9 SAH 1001 A 1 HETATM 18 C C8 SAH . . . C 2 -21.363 15.335 -4.392 1 26.28 ? C8 SAH 1001 A 1 HETATM 19 N N7 SAH . . . C 2 -20.556 14.255 -4.495 1 25.86 ? N7 SAH 1001 A 1 HETATM 20 C C5 SAH . . . C 2 -19.338 14.641 -4.086 1 26.21 ? C5 SAH 1001 A 1 HETATM 21 C C6 SAH . . . C 2 -18.011 14.004 -3.936 1 25.93 ? C6 SAH 1001 A 1 HETATM 22 N N6 SAH . . . C 2 -17.852 12.706 -4.266 1 26.09 ? N6 SAH 1001 A 1 HETATM 23 N N1 SAH . . . C 2 -16.986 14.761 -3.466 1 25.59 ? N1 SAH 1001 A 1 HETATM 24 C C2 SAH . . . C 2 -17.143 16.065 -3.138 1 25.68 ? C2 SAH 1001 A 1 HETATM 25 N N3 SAH . . . C 2 -18.322 16.707 -3.25 1 25.96 ? N3 SAH 1001 A 1 HETATM 26 C C4 SAH . . . C 2 -19.426 16.059 -3.71 1 25.91 ? C4 SAH 1001 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 249 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 26 #