data_1VQ1 # _model_server_result.job_id P5wBhJi3gVuTFPcdYqsw_g _model_server_result.datetime_utc '2024-12-02 04:05:32' _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 1vq1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 1VQ1 # _exptl.entry_id 1VQ1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 2 _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 _cell.angle_beta 109.46 _cell.angle_gamma 90 _cell.entry_id 1VQ1 _cell.length_a 140.973 _cell.length_b 58.611 _cell.length_c 85.667 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VQ1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 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 ? 2 C N N ? 2 D 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 A C PHE 100 A PHE 88 1_555 A N MSE 101 A MSE 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale2 A C MSE 101 A MSE 89 1_555 A N GLY 102 A GLY 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale3 A C GLU 204 A GLU 192 1_555 A N MSE 205 A MSE 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale4 A C MSE 205 A MSE 193 1_555 A N ILE 206 A ILE 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale5 A C LEU 256 A LEU 244 1_555 A N MSE 257 A MSE 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale6 A C MSE 257 A MSE 245 1_555 A N GLU 258 A GLU 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale7 B C PHE 100 B PHE 88 1_555 B N MSE 101 B MSE 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? covale ? covale8 B C MSE 101 B MSE 89 1_555 B N GLY 102 B GLY 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale9 B C GLU 204 B GLU 192 1_555 B N MSE 205 B MSE 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.314 ? covale ? covale10 B C MSE 205 B MSE 193 1_555 B N ILE 206 B ILE 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale11 B C LEU 256 B LEU 244 1_555 B N MSE 257 B MSE 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.312 ? covale ? covale12 B C MSE 257 B MSE 245 1_555 B N GLU 258 B GLU 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? # _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 296 n n N HN1 SAM sing 297 n n N HN2 SAM sing 298 n n CA C SAM sing 299 n n CA CB SAM sing 300 n n CA HA SAM sing 301 n n C O SAM doub 302 n n C OXT SAM sing 303 n n CB CG SAM sing 304 n n CB HB1 SAM sing 305 n n CB HB2 SAM sing 306 n n CG SD SAM sing 307 n n CG HG1 SAM sing 308 n n CG HG2 SAM sing 309 n n SD CE SAM sing 310 n n SD C5' SAM sing 311 n n CE HE1 SAM sing 312 n n CE HE2 SAM sing 313 n n CE HE3 SAM sing 314 n n C5' C4' SAM sing 315 n n C5' "H5'1" SAM sing 316 n n C5' "H5'2" SAM sing 317 n n C4' O4' SAM sing 318 n n C4' C3' SAM sing 319 n n C4' H4' SAM sing 320 n n O4' C1' SAM sing 321 n n C3' O3' SAM sing 322 n n C3' C2' SAM sing 323 n n C3' H3' SAM sing 324 n n O3' HO3' SAM sing 325 n n C2' O2' SAM sing 326 n n C2' C1' SAM sing 327 n n C2' H2' SAM sing 328 n n O2' HO2' SAM sing 329 n n C1' N9 SAM sing 330 n n C1' H1' SAM sing 331 n n N9 C8 SAM sing 332 n y N9 C4 SAM sing 333 n y C8 N7 SAM doub 334 n y C8 H8 SAM sing 335 n n N7 C5 SAM sing 336 n y C5 C6 SAM sing 337 n y C5 C4 SAM doub 338 n y C6 N6 SAM sing 339 n n C6 N1 SAM doub 340 n y N6 HN61 SAM sing 341 n n N6 HN62 SAM sing 342 n n N1 C2 SAM sing 343 n y C2 N3 SAM doub 344 n y C2 H2 SAM sing 345 n n N3 C4 SAM sing 346 n y # _atom_sites.entry_id 1VQ1 _atom_sites.fract_transf_matrix[1][1] 0.007094 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002506 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017062 _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] 0.01238 _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 SAM A 1 301 301 SAM SAM . D 2 SAM B 1 301 301 SAM SAM . E 3 HOH A 1 302 1 HOH HOH . E 3 HOH A 2 303 4 HOH HOH . F 3 HOH B 1 302 2 HOH HOH . F 3 HOH B 2 303 3 HOH HOH . F 3 HOH B 3 304 5 HOH HOH . F 3 HOH B 4 305 6 HOH HOH . F 3 HOH B 5 306 7 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 . . . C 2 9.246 -2.617 33.873 1 83.21 ? N SAM 301 A 1 HETATM 2 C CA SAM . . . C 2 9.193 -2.177 32.488 1 86.13 ? CA SAM 301 A 1 HETATM 3 C C SAM . . . C 2 8.822 -0.704 32.444 1 87.97 ? C SAM 301 A 1 HETATM 4 O O SAM . . . C 2 9.176 0.018 31.499 1 91.28 ? O SAM 301 A 1 HETATM 5 O OXT SAM . . . C 2 8.148 -0.204 33.353 1 88.22 ? OXT SAM 301 A 1 HETATM 6 C CB SAM . . . C 2 8.184 -3.012 31.695 1 86.07 ? CB SAM 301 A 1 HETATM 7 C CG SAM . . . C 2 6.819 -2.962 32.37 1 88.67 ? CG SAM 301 A 1 HETATM 8 S SD SAM . . . C 2 5.49 -3.979 31.698 1 80.91 ? SD SAM 301 A 1 HETATM 9 C CE SAM . . . C 2 4.138 -3.248 32.666 0.5 82.75 ? CE SAM 301 A 1 HETATM 10 C C5' SAM . . . C 2 5.62 -5.588 32.526 1 87.63 ? C5' SAM 301 A 1 HETATM 11 C C4' SAM . . . C 2 6.764 -6.488 32.038 1 93.11 ? C4' SAM 301 A 1 HETATM 12 O O4' SAM . . . C 2 6.83 -7.568 32.932 1 95.84 ? O4' SAM 301 A 1 HETATM 13 C C3' SAM . . . C 2 6.626 -7.124 30.656 1 94.88 ? C3' SAM 301 A 1 HETATM 14 O O3' SAM . . . C 2 7.715 -6.684 29.843 1 93.54 ? O3' SAM 301 A 1 HETATM 15 C C2' SAM . . . C 2 6.533 -8.649 30.891 1 90.62 ? C2' SAM 301 A 1 HETATM 16 O O2' SAM . . . C 2 7.374 -9.404 30.052 1 86.64 ? O2' SAM 301 A 1 HETATM 17 C C1' SAM . . . C 2 6.994 -8.841 32.316 1 92.19 ? C1' SAM 301 A 1 HETATM 18 N N9 SAM . . . C 2 6.329 -9.745 33.292 1 94.63 ? N9 SAM 301 A 1 HETATM 19 C C8 SAM . . . C 2 5.005 -9.842 33.636 1 92.84 ? C8 SAM 301 A 1 HETATM 20 N N7 SAM . . . C 2 4.89 -10.736 34.656 1 89.88 ? N7 SAM 301 A 1 HETATM 21 C C5 SAM . . . C 2 6.118 -11.185 35.005 1 90.31 ? C5 SAM 301 A 1 HETATM 22 C C6 SAM . . . C 2 6.584 -12.081 35.966 1 89.28 ? C6 SAM 301 A 1 HETATM 23 N N6 SAM . . . C 2 5.781 -12.733 36.803 1 88.91 ? N6 SAM 301 A 1 HETATM 24 N N1 SAM . . . C 2 7.942 -12.307 36.049 1 95.67 ? N1 SAM 301 A 1 HETATM 25 C C2 SAM . . . C 2 8.843 -11.681 35.211 1 94.26 ? C2 SAM 301 A 1 HETATM 26 N N3 SAM . . . C 2 8.371 -10.805 34.261 1 91.22 ? N3 SAM 301 A 1 HETATM 27 C C4 SAM . . . C 2 7.033 -10.556 34.161 1 93.76 ? C4 SAM 301 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 27 #