data_3IWC # _model_server_result.job_id uPbnxA-05BSBMHvraIt2OA _model_server_result.datetime_utc '2024-11-24 18:49:29' _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 3iwc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":368}' # _entry.id 3IWC # _exptl.entry_id 3IWC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 414.48 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'S-ADENOSYLMETHIONINE METHYL ESTER' _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 120 _cell.entry_id 3IWC _cell.length_a 105.204 _cell.length_b 105.204 _cell.length_c 70.062 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3IWC _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3' # 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 tetrameric 4 software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 # 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,F,G,H,I,J 1 1 A,B,E,G,H 2 1 C,D,F,I,J 3 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 B C PYR 1 A PYR 63 1_555 B N HIS 2 A HIS 64 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.393 ? covale ? covale2 B CA PYR 1 A PYR 63 1_555 E N SMM . A SMM 368 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale3 D C PYR 1 C PYR 63 1_555 D N HIS 2 C HIS 64 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.402 ? covale ? covale4 D CA PYR 1 C PYR 63 1_555 F N SMM . C SMM 368 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.318 ? # _chem_comp.formula 'C16 H26 N6 O5 S' _chem_comp.formula_weight 414.48 _chem_comp.id SMM _chem_comp.mon_nstd_flag . _chem_comp.name 'S-ADENOSYLMETHIONINE METHYL ESTER' _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 SMM sing 299 n n N HN1 SMM sing 300 n n N HN2 SMM sing 301 n n CA CB SMM sing 302 n n CA C SMM sing 303 n n CA HA1 SMM sing 304 n n CB CG SMM sing 305 n n CB HB1 SMM sing 306 n n CB HB2 SMM sing 307 n n CG SD SMM sing 308 n n CG HG1 SMM sing 309 n n CG HG2 SMM sing 310 n n SD CE SMM sing 311 n n SD C5' SMM sing 312 n n SD HD1 SMM sing 313 n n CE HE1 SMM sing 314 n n CE HE2 SMM sing 315 n n CE HE3 SMM sing 316 n n C5' C4' SMM sing 317 n n C5' "H5'1" SMM sing 318 n n C5' "H5'2" SMM sing 319 n n C4' O4' SMM sing 320 n n C4' C3' SMM sing 321 n n C4' H4' SMM sing 322 n n O4' C1' SMM sing 323 n n C1' N9 SMM sing 324 n n C1' C2' SMM sing 325 n n C1' H1' SMM sing 326 n n N9 C4 SMM sing 327 n y N9 C8 SMM sing 328 n y C4 N3 SMM doub 329 n y C4 C5 SMM sing 330 n y N3 C2 SMM sing 331 n y C2 N1 SMM doub 332 n y C2 H2 SMM sing 333 n n N1 C6 SMM sing 334 n y C6 N6 SMM sing 335 n n C6 C5 SMM doub 336 n y N6 HN61 SMM sing 337 n n N6 HN62 SMM sing 338 n n C5 N7 SMM sing 339 n y N7 C8 SMM doub 340 n y C8 H8 SMM sing 341 n n C2' O2' SMM sing 342 n n C2' C3' SMM sing 343 n n C2' H2' SMM sing 344 n n O2' HO2' SMM sing 345 n n C3' O3' SMM sing 346 n n C3' H3' SMM sing 347 n n O3' HO3' SMM sing 348 n n C O SMM doub 349 n n C OXT SMM sing 350 n n OXT CXT SMM sing 351 n n CXT HXT1 SMM sing 352 n n CXT HXT2 SMM sing 353 n n CXT HXT3 SMM sing 354 n n # _atom_sites.entry_id 3IWC _atom_sites.fract_transf_matrix[1][1] 0.009505 _atom_sites.fract_transf_matrix[1][2] 0.005488 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010976 _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] 0.014273 _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 SMM A 1 368 368 SMM SMM . F 3 SMM C 1 368 368 SMM SMM . G 4 HOH B 1 63 63 HOH HOH . G 4 HOH B 2 64 64 HOH HOH . G 4 HOH B 3 65 65 HOH HOH . G 4 HOH B 4 66 1 HOH HOH . G 4 HOH B 5 67 67 HOH HOH . G 4 HOH B 6 68 7 HOH HOH . G 4 HOH B 7 69 10 HOH HOH . G 4 HOH B 8 70 13 HOH HOH . G 4 HOH B 9 71 71 HOH HOH . G 4 HOH B 10 72 16 HOH HOH . G 4 HOH B 11 73 73 HOH HOH . G 4 HOH B 12 74 19 HOH HOH . G 4 HOH B 13 75 75 HOH HOH . G 4 HOH B 14 76 25 HOH HOH . G 4 HOH B 15 77 27 HOH HOH . G 4 HOH B 16 78 29 HOH HOH . G 4 HOH B 17 79 79 HOH HOH . G 4 HOH B 18 80 36 HOH HOH . G 4 HOH B 19 81 81 HOH HOH . G 4 HOH B 20 82 37 HOH HOH . G 4 HOH B 21 83 40 HOH HOH . G 4 HOH B 22 84 44 HOH HOH . G 4 HOH B 23 85 46 HOH HOH . G 4 HOH B 24 86 49 HOH HOH . G 4 HOH B 25 87 50 HOH HOH . G 4 HOH B 26 88 88 HOH HOH . G 4 HOH B 27 89 89 HOH HOH . G 4 HOH B 28 90 90 HOH HOH . G 4 HOH B 29 91 54 HOH HOH . G 4 HOH B 30 92 92 HOH HOH . G 4 HOH B 31 93 59 HOH HOH . G 4 HOH B 32 96 96 HOH HOH . G 4 HOH B 33 97 97 HOH HOH . G 4 HOH B 34 98 98 HOH HOH . G 4 HOH B 35 99 99 HOH HOH . G 4 HOH B 36 100 100 HOH HOH . G 4 HOH B 37 102 102 HOH HOH . G 4 HOH B 38 103 103 HOH HOH . G 4 HOH B 39 104 104 HOH HOH . G 4 HOH B 40 109 109 HOH HOH . G 4 HOH B 41 110 110 HOH HOH . H 4 HOH A 1 2 2 HOH HOH . H 4 HOH A 2 3 3 HOH HOH . H 4 HOH A 3 9 9 HOH HOH . H 4 HOH A 4 14 14 HOH HOH . H 4 HOH A 5 30 30 HOH HOH . H 4 HOH A 6 39 39 HOH HOH . H 4 HOH A 7 43 43 HOH HOH . H 4 HOH A 8 47 47 HOH HOH . H 4 HOH A 9 48 48 HOH HOH . H 4 HOH A 10 56 56 HOH HOH . H 4 HOH A 11 60 60 HOH HOH . H 4 HOH A 12 131 70 HOH HOH . H 4 HOH A 13 132 77 HOH HOH . H 4 HOH A 14 133 82 HOH HOH . H 4 HOH A 15 134 83 HOH HOH . H 4 HOH A 16 135 85 HOH HOH . H 4 HOH A 17 136 86 HOH HOH . H 4 HOH A 18 137 93 HOH HOH . H 4 HOH A 19 138 94 HOH HOH . H 4 HOH A 20 139 95 HOH HOH . H 4 HOH A 21 140 101 HOH HOH . H 4 HOH A 22 141 108 HOH HOH . H 4 HOH A 23 142 111 HOH HOH . H 4 HOH A 24 143 113 HOH HOH . I 4 HOH D 1 63 11 HOH HOH . I 4 HOH D 2 64 20 HOH HOH . I 4 HOH D 3 65 21 HOH HOH . I 4 HOH D 4 66 66 HOH HOH . I 4 HOH D 5 67 26 HOH HOH . I 4 HOH D 6 68 34 HOH HOH . I 4 HOH D 7 69 69 HOH HOH . I 4 HOH D 8 70 35 HOH HOH . I 4 HOH D 9 71 38 HOH HOH . I 4 HOH D 10 72 51 HOH HOH . I 4 HOH D 11 73 52 HOH HOH . I 4 HOH D 12 74 74 HOH HOH . I 4 HOH D 13 77 57 HOH HOH . I 4 HOH D 14 78 78 HOH HOH . I 4 HOH D 15 79 58 HOH HOH . I 4 HOH D 16 80 80 HOH HOH . I 4 HOH D 17 81 61 HOH HOH . I 4 HOH D 18 84 84 HOH HOH . I 4 HOH D 19 87 87 HOH HOH . I 4 HOH D 20 91 91 HOH HOH . I 4 HOH D 21 105 105 HOH HOH . I 4 HOH D 22 106 106 HOH HOH . J 4 HOH C 1 4 4 HOH HOH . J 4 HOH C 2 6 6 HOH HOH . J 4 HOH C 3 8 8 HOH HOH . J 4 HOH C 4 12 12 HOH HOH . J 4 HOH C 5 17 17 HOH HOH . J 4 HOH C 6 22 22 HOH HOH . J 4 HOH C 7 23 23 HOH HOH . J 4 HOH C 8 24 24 HOH HOH . J 4 HOH C 9 31 31 HOH HOH . J 4 HOH C 10 32 32 HOH HOH . J 4 HOH C 11 33 33 HOH HOH . J 4 HOH C 12 41 41 HOH HOH . J 4 HOH C 13 42 42 HOH HOH . J 4 HOH C 14 45 45 HOH HOH . J 4 HOH C 15 62 62 HOH HOH . J 4 HOH C 16 131 68 HOH HOH . J 4 HOH C 17 132 72 HOH HOH . J 4 HOH C 18 133 76 HOH HOH . J 4 HOH C 19 134 107 HOH HOH . J 4 HOH C 20 135 53 HOH HOH . J 4 HOH C 21 136 55 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 SMM . . . F 3 87.981 9.817 -39.926 1 35.8 ? N SMM 368 C 1 HETATM 2 C CA SMM . . . F 3 87.102 9.956 -41.057 1 41.21 ? CA SMM 368 C 1 HETATM 3 C CB SMM . . . F 3 87.658 9.153 -42.214 1 41.82 ? CB SMM 368 C 1 HETATM 4 C CG SMM . . . F 3 87.424 9.921 -43.536 1 46.34 ? CG SMM 368 C 1 HETATM 5 S SD SMM . . . F 3 87.741 8.974 -44.876 1 47.08 ? SD SMM 368 C 1 HETATM 6 C CE SMM . . . F 3 89.239 8.955 -45.061 1 47.04 ? CE SMM 368 C 1 HETATM 7 C C5' SMM . . . F 3 86.993 9.665 -46.235 1 44.59 ? C5' SMM 368 C 1 HETATM 8 C C4' SMM . . . F 3 87.192 8.878 -47.534 1 43.14 ? C4' SMM 368 C 1 HETATM 9 O O4' SMM . . . F 3 86.97 7.467 -47.239 1 44.35 ? O4' SMM 368 C 1 HETATM 10 C C1' SMM . . . F 3 85.916 6.965 -48.052 1 43.96 ? C1' SMM 368 C 1 HETATM 11 N N9 SMM . . . F 3 85.177 5.97 -47.264 1 45.64 ? N9 SMM 368 C 1 HETATM 12 C C4 SMM . . . F 3 84.659 6.155 -46.003 1 45.98 ? C4 SMM 368 C 1 HETATM 13 N N3 SMM . . . F 3 84.723 7.295 -45.242 1 47.65 ? N3 SMM 368 C 1 HETATM 14 C C2 SMM . . . F 3 84.114 7.137 -44.053 1 47.89 ? C2 SMM 368 C 1 HETATM 15 N N1 SMM . . . F 3 83.488 6.033 -43.58 1 46.67 ? N1 SMM 368 C 1 HETATM 16 C C6 SMM . . . F 3 83.442 4.904 -44.368 1 45.67 ? C6 SMM 368 C 1 HETATM 17 N N6 SMM . . . F 3 82.821 3.829 -43.882 1 44.48 ? N6 SMM 368 C 1 HETATM 18 C C5 SMM . . . F 3 84.052 4.947 -45.663 1 45.95 ? C5 SMM 368 C 1 HETATM 19 N N7 SMM . . . F 3 84.189 4.02 -46.684 1 46.09 ? N7 SMM 368 C 1 HETATM 20 C C8 SMM . . . F 3 84.86 4.676 -47.609 1 46.19 ? C8 SMM 368 C 1 HETATM 21 C C2' SMM . . . F 3 85.096 8.199 -48.461 1 43.9 ? C2' SMM 368 C 1 HETATM 22 O O2' SMM . . . F 3 84.287 7.954 -49.605 1 44.4 ? O2' SMM 368 C 1 HETATM 23 C C3' SMM . . . F 3 86.188 9.235 -48.638 1 42.49 ? C3' SMM 368 C 1 HETATM 24 O O3' SMM . . . F 3 86.801 9.073 -49.924 1 39.41 ? O3' SMM 368 C 1 HETATM 25 C C SMM . . . F 3 85.648 9.469 -40.673 1 42.66 ? C SMM 368 C 1 HETATM 26 O O SMM . . . F 3 84.95 8.828 -41.524 1 46.08 ? O SMM 368 C 1 HETATM 27 O OXT SMM . . . F 3 85.234 9.805 -39.5 1 44.95 ? OXT SMM 368 C 1 HETATM 28 C CXT SMM . . . F 3 84.309 9.077 -38.899 1 40.84 ? CXT SMM 368 C 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 28 #