data_7JIB # _model_server_result.job_id LVqBBeISPlLZipamFHq5zw _model_server_result.datetime_utc '2024-11-01 05:30:50' _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 7jib # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":7103}' # _entry.id 7JIB # _exptl.entry_id 7JIB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYLMETHIONINE _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 120 _cell.entry_id 7JIB _cell.length_a 170.83 _cell.length_b 170.83 _cell.length_c 52.738 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7JIB _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 metalc ? metalc1 B SG CYS 77 B CYS 74 1_555 J ZN ZN . B ZN 4401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc2 B SG CYS 80 B CYS 77 1_555 J ZN ZN . B ZN 4401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc3 B NE2 HIS 86 B HIS 83 1_555 J ZN ZN . B ZN 4401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.139 ? metalc ? metalc4 B SG CYS 93 B CYS 90 1_555 J ZN ZN . B ZN 4401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc5 B SG CYS 120 B CYS 117 1_555 K ZN ZN . B ZN 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? metalc ? metalc6 B SG CYS 123 B CYS 120 1_555 K ZN ZN . B ZN 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc7 B SG CYS 131 B CYS 128 1_555 K ZN ZN . B ZN 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc8 B SG CYS 133 B CYS 130 1_555 K ZN ZN . B ZN 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? # _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 465 n n N HN1 SAM sing 466 n n N HN2 SAM sing 467 n n CA C SAM sing 468 n n CA CB SAM sing 469 n n CA HA SAM sing 470 n n C O SAM doub 471 n n C OXT SAM sing 472 n n CB CG SAM sing 473 n n CB HB1 SAM sing 474 n n CB HB2 SAM sing 475 n n CG SD SAM sing 476 n n CG HG1 SAM sing 477 n n CG HG2 SAM sing 478 n n SD CE SAM sing 479 n n SD C5' SAM sing 480 n n CE HE1 SAM sing 481 n n CE HE2 SAM sing 482 n n CE HE3 SAM sing 483 n n C5' C4' SAM sing 484 n n C5' "H5'1" SAM sing 485 n n C5' "H5'2" SAM sing 486 n n C4' O4' SAM sing 487 n n C4' C3' SAM sing 488 n n C4' H4' SAM sing 489 n n O4' C1' SAM sing 490 n n C3' O3' SAM sing 491 n n C3' C2' SAM sing 492 n n C3' H3' SAM sing 493 n n O3' HO3' SAM sing 494 n n C2' O2' SAM sing 495 n n C2' C1' SAM sing 496 n n C2' H2' SAM sing 497 n n O2' HO2' SAM sing 498 n n C1' N9 SAM sing 499 n n C1' H1' SAM sing 500 n n N9 C8 SAM sing 501 n y N9 C4 SAM sing 502 n y C8 N7 SAM doub 503 n y C8 H8 SAM sing 504 n n N7 C5 SAM sing 505 n y C5 C6 SAM sing 506 n y C5 C4 SAM doub 507 n y C6 N6 SAM sing 508 n n C6 N1 SAM doub 509 n y N6 HN61 SAM sing 510 n n N6 HN62 SAM sing 511 n n N1 C2 SAM sing 512 n y C2 N3 SAM doub 513 n y C2 H2 SAM sing 514 n n N3 C4 SAM sing 515 n y # _atom_sites.entry_id 7JIB _atom_sites.fract_transf_matrix[1][1] 0.005854 _atom_sites.fract_transf_matrix[1][2] 0.00338 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006759 _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] 0.018962 _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 3 CL A 1 7101 3 CL CL . D 3 CL A 1 7102 4 CL CL . E 4 SAM A 1 7103 5 SAM SAM . F 5 SAH A 1 7104 6 SAH SAH . G 6 GTA A 1 7105 7 GTA GTA . H 7 V9G A 1 7106 8 V9G V9G . I 8 MGP A 1 7107 9 MGP MGP . J 9 ZN B 1 4401 1 ZN ZN . K 9 ZN B 1 4402 2 ZN ZN . L 10 HOH A 1 7201 87 HOH HOH . L 10 HOH A 2 7202 71 HOH HOH . L 10 HOH A 3 7203 90 HOH HOH . L 10 HOH A 4 7204 104 HOH HOH . L 10 HOH A 5 7205 114 HOH HOH . L 10 HOH A 6 7206 66 HOH HOH . L 10 HOH A 7 7207 92 HOH HOH . L 10 HOH A 8 7208 48 HOH HOH . L 10 HOH A 9 7209 63 HOH HOH . L 10 HOH A 10 7210 100 HOH HOH . L 10 HOH A 11 7211 61 HOH HOH . L 10 HOH A 12 7212 112 HOH HOH . L 10 HOH A 13 7213 60 HOH HOH . L 10 HOH A 14 7214 46 HOH HOH . L 10 HOH A 15 7215 146 HOH HOH . L 10 HOH A 16 7216 29 HOH HOH . L 10 HOH A 17 7217 78 HOH HOH . L 10 HOH A 18 7218 32 HOH HOH . L 10 HOH A 19 7219 110 HOH HOH . L 10 HOH A 20 7220 83 HOH HOH . L 10 HOH A 21 7221 89 HOH HOH . L 10 HOH A 22 7222 69 HOH HOH . L 10 HOH A 23 7223 93 HOH HOH . L 10 HOH A 24 7224 82 HOH HOH . L 10 HOH A 25 7225 22 HOH HOH . L 10 HOH A 26 7226 127 HOH HOH . L 10 HOH A 27 7227 38 HOH HOH . L 10 HOH A 28 7228 11 HOH HOH . L 10 HOH A 29 7229 126 HOH HOH . L 10 HOH A 30 7230 27 HOH HOH . L 10 HOH A 31 7231 43 HOH HOH . L 10 HOH A 32 7232 141 HOH HOH . L 10 HOH A 33 7233 58 HOH HOH . L 10 HOH A 34 7234 24 HOH HOH . L 10 HOH A 35 7235 39 HOH HOH . L 10 HOH A 36 7236 85 HOH HOH . L 10 HOH A 37 7237 10 HOH HOH . L 10 HOH A 38 7238 23 HOH HOH . L 10 HOH A 39 7239 103 HOH HOH . L 10 HOH A 40 7240 145 HOH HOH . L 10 HOH A 41 7241 18 HOH HOH . L 10 HOH A 42 7242 62 HOH HOH . L 10 HOH A 43 7243 99 HOH HOH . L 10 HOH A 44 7244 119 HOH HOH . L 10 HOH A 45 7245 19 HOH HOH . L 10 HOH A 46 7246 31 HOH HOH . L 10 HOH A 47 7247 36 HOH HOH . L 10 HOH A 48 7248 55 HOH HOH . L 10 HOH A 49 7249 151 HOH HOH . L 10 HOH A 50 7250 13 HOH HOH . L 10 HOH A 51 7251 121 HOH HOH . L 10 HOH A 52 7252 117 HOH HOH . L 10 HOH A 53 7253 130 HOH HOH . L 10 HOH A 54 7254 139 HOH HOH . L 10 HOH A 55 7255 35 HOH HOH . L 10 HOH A 56 7256 21 HOH HOH . L 10 HOH A 57 7257 96 HOH HOH . L 10 HOH A 58 7258 25 HOH HOH . L 10 HOH A 59 7259 107 HOH HOH . L 10 HOH A 60 7260 45 HOH HOH . L 10 HOH A 61 7261 14 HOH HOH . L 10 HOH A 62 7262 95 HOH HOH . L 10 HOH A 63 7263 150 HOH HOH . L 10 HOH A 64 7264 101 HOH HOH . L 10 HOH A 65 7265 50 HOH HOH . L 10 HOH A 66 7266 79 HOH HOH . L 10 HOH A 67 7267 77 HOH HOH . L 10 HOH A 68 7268 49 HOH HOH . L 10 HOH A 69 7269 42 HOH HOH . L 10 HOH A 70 7270 132 HOH HOH . L 10 HOH A 71 7271 111 HOH HOH . L 10 HOH A 72 7272 15 HOH HOH . L 10 HOH A 73 7273 74 HOH HOH . L 10 HOH A 74 7274 72 HOH HOH . L 10 HOH A 75 7275 17 HOH HOH . L 10 HOH A 76 7276 138 HOH HOH . L 10 HOH A 77 7277 41 HOH HOH . L 10 HOH A 78 7278 149 HOH HOH . L 10 HOH A 79 7279 97 HOH HOH . L 10 HOH A 80 7280 54 HOH HOH . L 10 HOH A 81 7281 109 HOH HOH . L 10 HOH A 82 7282 12 HOH HOH . L 10 HOH A 83 7283 140 HOH HOH . L 10 HOH A 84 7284 84 HOH HOH . L 10 HOH A 85 7285 34 HOH HOH . L 10 HOH A 86 7286 133 HOH HOH . L 10 HOH A 87 7287 52 HOH HOH . L 10 HOH A 88 7288 88 HOH HOH . L 10 HOH A 89 7289 116 HOH HOH . L 10 HOH A 90 7290 86 HOH HOH . L 10 HOH A 91 7291 75 HOH HOH . L 10 HOH A 92 7292 57 HOH HOH . L 10 HOH A 93 7293 125 HOH HOH . L 10 HOH A 94 7294 128 HOH HOH . L 10 HOH A 95 7295 68 HOH HOH . L 10 HOH A 96 7296 53 HOH HOH . L 10 HOH A 97 7297 28 HOH HOH . L 10 HOH A 98 7298 102 HOH HOH . L 10 HOH A 99 7299 120 HOH HOH . L 10 HOH A 100 7300 137 HOH HOH . L 10 HOH A 101 7301 143 HOH HOH . L 10 HOH A 102 7302 98 HOH HOH . L 10 HOH A 103 7303 16 HOH HOH . L 10 HOH A 104 7304 142 HOH HOH . L 10 HOH A 105 7305 64 HOH HOH . L 10 HOH A 106 7306 70 HOH HOH . L 10 HOH A 107 7307 80 HOH HOH . L 10 HOH A 108 7308 20 HOH HOH . L 10 HOH A 109 7309 108 HOH HOH . L 10 HOH A 110 7310 105 HOH HOH . L 10 HOH A 111 7311 94 HOH HOH . L 10 HOH A 112 7312 122 HOH HOH . L 10 HOH A 113 7313 136 HOH HOH . L 10 HOH A 114 7314 106 HOH HOH . L 10 HOH A 115 7315 135 HOH HOH . L 10 HOH A 116 7316 118 HOH HOH . L 10 HOH A 117 7317 123 HOH HOH . L 10 HOH A 118 7318 56 HOH HOH . L 10 HOH A 119 7319 129 HOH HOH . L 10 HOH A 120 7320 51 HOH HOH . L 10 HOH A 121 7321 134 HOH HOH . L 10 HOH A 122 7322 131 HOH HOH . L 10 HOH A 123 7323 81 HOH HOH . L 10 HOH A 124 7324 124 HOH HOH . M 10 HOH B 1 4501 33 HOH HOH . M 10 HOH B 2 4502 91 HOH HOH . M 10 HOH B 3 4503 47 HOH HOH . M 10 HOH B 4 4504 30 HOH HOH . M 10 HOH B 5 4505 73 HOH HOH . M 10 HOH B 6 4506 40 HOH HOH . M 10 HOH B 7 4507 147 HOH HOH . M 10 HOH B 8 4508 37 HOH HOH . M 10 HOH B 9 4509 59 HOH HOH . M 10 HOH B 10 4510 67 HOH HOH . M 10 HOH B 11 4511 65 HOH HOH . M 10 HOH B 12 4512 148 HOH HOH . M 10 HOH B 13 4513 115 HOH HOH . M 10 HOH B 14 4514 44 HOH HOH . M 10 HOH B 15 4515 26 HOH HOH . M 10 HOH B 16 4516 144 HOH HOH . M 10 HOH B 17 4517 76 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 . A . E 4 -87.517 19.93 -2.324 0.7 39.31 ? N SAM 7103 A 1 HETATM 2 C CA SAM . A . E 4 -88.79 19.297 -1.854 0.7 39.52 ? CA SAM 7103 A 1 HETATM 3 C C SAM . A . E 4 -89.983 20.047 -2.459 0.7 39.08 ? C SAM 7103 A 1 HETATM 4 O O SAM . A . E 4 -91.073 20.096 -1.885 0.7 41.83 ? O SAM 7103 A 1 HETATM 5 O OXT SAM . A . E 4 -89.873 20.619 -3.545 0.7 37.68 ? OXT SAM 7103 A 1 HETATM 6 C CB SAM . A . E 4 -88.882 19.316 -0.323 0.7 38.49 ? CB SAM 7103 A 1 HETATM 7 C CG SAM . A . E 4 -87.793 18.503 0.355 0.7 38.8 ? CG SAM 7103 A 1 HETATM 8 S SD SAM . A . E 4 -88.012 18.452 2.145 0.7 38.62 ? SD SAM 7103 A 1 HETATM 9 C CE SAM . A . E 4 -87.592 20.131 2.595 0.7 37.81 ? CE SAM 7103 A 1 HETATM 10 C C5' SAM . A . E 4 -86.502 17.558 2.588 0.7 37.91 ? C5' SAM 7103 A 1 HETATM 11 C C4' SAM . A . E 4 -86.453 16.161 2.001 0.7 38.08 ? C4' SAM 7103 A 1 HETATM 12 O O4' SAM . A . E 4 -85.158 15.573 2.252 0.7 38.88 ? O4' SAM 7103 A 1 HETATM 13 C C3' SAM . A . E 4 -87.476 15.176 2.577 0.7 38.03 ? C3' SAM 7103 A 1 HETATM 14 O O3' SAM . A . E 4 -88.438 14.831 1.589 0.7 36.68 ? O3' SAM 7103 A 1 HETATM 15 C C2' SAM . A . E 4 -86.641 13.96 3.01 0.7 37.95 ? C2' SAM 7103 A 1 HETATM 16 O O2' SAM . A . E 4 -87.219 12.731 2.634 0.7 38.97 ? O2' SAM 7103 A 1 HETATM 17 C C1' SAM . A . E 4 -85.331 14.179 2.265 0.7 38.87 ? C1' SAM 7103 A 1 HETATM 18 N N9 SAM . A . E 4 -84.177 13.548 2.894 0.7 40.77 ? N9 SAM 7103 A 1 HETATM 19 C C8 SAM . A . E 4 -83.719 13.746 4.173 0.7 42.05 ? C8 SAM 7103 A 1 HETATM 20 N N7 SAM . A . E 4 -82.657 13.036 4.463 0.7 41.41 ? N7 SAM 7103 A 1 HETATM 21 C C5 SAM . A . E 4 -82.396 12.318 3.305 0.7 41.24 ? C5 SAM 7103 A 1 HETATM 22 C C6 SAM . A . E 4 -81.396 11.381 2.974 0.7 41.5 ? C6 SAM 7103 A 1 HETATM 23 N N6 SAM . A . E 4 -80.439 10.992 3.812 0.7 40.16 ? N6 SAM 7103 A 1 HETATM 24 N N1 SAM . A . E 4 -81.422 10.855 1.726 0.7 41.22 ? N1 SAM 7103 A 1 HETATM 25 C C2 SAM . A . E 4 -82.388 11.25 0.886 0.7 41.14 ? C2 SAM 7103 A 1 HETATM 26 N N3 SAM . A . E 4 -83.375 12.118 1.086 0.7 40.95 ? N3 SAM 7103 A 1 HETATM 27 C C4 SAM . A . E 4 -83.327 12.626 2.329 0.7 40.95 ? C4 SAM 7103 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #