data_3AV6 # _model_server_result.job_id xinh_cJxjpTIQ3MPkAZwXw _model_server_result.datetime_utc '2024-11-14 08:16:30' _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 3av6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1}' # _entry.id 3AV6 # _exptl.entry_id 3AV6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 3 _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 90 _cell.entry_id 3AV6 _cell.length_a 134.995 _cell.length_b 97.139 _cell.length_c 130.794 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3AV6 _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 3 _struct_asym.id F _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 A SG CYS 69 A CYS 359 1_555 B ZN ZN . A ZN 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc2 A SG CYS 72 A CYS 362 1_555 B ZN ZN . A ZN 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? metalc ? metalc3 A SG CYS 130 A CYS 420 1_555 B ZN ZN . A ZN 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? metalc ? metalc4 A ND1 HIS 134 A HIS 424 1_555 B ZN ZN . A ZN 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.916 ? metalc ? metalc5 A SG CYS 366 A CYS 656 1_555 C ZN ZN . A ZN 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? metalc ? metalc6 A SG CYS 369 A CYS 659 1_555 C ZN ZN . A ZN 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? metalc ? metalc7 A SG CYS 372 A CYS 662 1_555 C ZN ZN . A ZN 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? metalc ? metalc8 A SG CYS 404 A CYS 694 1_555 C ZN ZN . A ZN 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.567 ? metalc ? metalc9 A NE2 HIS 506 A HIS 796 1_555 D ZN ZN . A ZN 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc10 A SG CYS 533 A CYS 823 1_555 D ZN ZN . A ZN 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc11 A SG CYS 607 A CYS 897 1_555 D ZN ZN . A ZN 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc12 A SG CYS 610 A CYS 900 1_555 D ZN ZN . A ZN 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc13 A SG CYS 1189 A CYS 1479 1_555 E ZN ZN . A ZN 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc14 A SG CYS 1191 A CYS 1481 1_555 E ZN ZN . A ZN 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? metalc ? metalc15 A SG CYS 1197 A CYS 1487 1_555 E ZN ZN . A ZN 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc16 A NE2 HIS 1214 A HIS 1504 1_555 E ZN ZN . A ZN 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? # _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 275 n n N HN1 SAM sing 276 n n N HN2 SAM sing 277 n n CA C SAM sing 278 n n CA CB SAM sing 279 n n CA HA SAM sing 280 n n C O SAM doub 281 n n C OXT SAM sing 282 n n CB CG SAM sing 283 n n CB HB1 SAM sing 284 n n CB HB2 SAM sing 285 n n CG SD SAM sing 286 n n CG HG1 SAM sing 287 n n CG HG2 SAM sing 288 n n SD CE SAM sing 289 n n SD C5' SAM sing 290 n n CE HE1 SAM sing 291 n n CE HE2 SAM sing 292 n n CE HE3 SAM sing 293 n n C5' C4' SAM sing 294 n n C5' "H5'1" SAM sing 295 n n C5' "H5'2" SAM sing 296 n n C4' O4' SAM sing 297 n n C4' C3' SAM sing 298 n n C4' H4' SAM sing 299 n n O4' C1' SAM sing 300 n n C3' O3' SAM sing 301 n n C3' C2' SAM sing 302 n n C3' H3' SAM sing 303 n n O3' HO3' SAM sing 304 n n C2' O2' SAM sing 305 n n C2' C1' SAM sing 306 n n C2' H2' SAM sing 307 n n O2' HO2' SAM sing 308 n n C1' N9 SAM sing 309 n n C1' H1' SAM sing 310 n n N9 C8 SAM sing 311 n y N9 C4 SAM sing 312 n y C8 N7 SAM doub 313 n y C8 H8 SAM sing 314 n n N7 C5 SAM sing 315 n y C5 C6 SAM sing 316 n y C5 C4 SAM doub 317 n y C6 N6 SAM sing 318 n n C6 N1 SAM doub 319 n y N6 HN61 SAM sing 320 n n N6 HN62 SAM sing 321 n n N1 C2 SAM sing 322 n y C2 N3 SAM doub 323 n y C2 H2 SAM sing 324 n n N3 C4 SAM sing 325 n y # _atom_sites.entry_id 3AV6 _atom_sites.fract_transf_matrix[1][1] 0.007408 _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] 0.010295 _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] 0.007646 _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 B 2 ZN A 1 2001 2001 ZN ZN . C 2 ZN A 1 2002 2002 ZN ZN . D 2 ZN A 1 2004 2004 ZN ZN . E 2 ZN A 1 2005 2005 ZN ZN . F 3 SAM A 1 1 1 SAM SAM . # 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 . . . F 3 81.672 14.708 35.895 1 48.5 ? N SAM 1 A 1 HETATM 2 C CA SAM . . . F 3 81.236 14.065 34.622 1 49.41 ? CA SAM 1 A 1 HETATM 3 C C SAM . . . F 3 82.392 13.879 33.654 1 51.37 ? C SAM 1 A 1 HETATM 4 O O SAM . . . F 3 83.439 14.557 33.756 1 50.89 ? O SAM 1 A 1 HETATM 5 O OXT SAM . . . F 3 82.27 13.039 32.753 1 50.47 ? OXT SAM 1 A 1 HETATM 6 C CB SAM . . . F 3 80.147 14.916 33.975 1 48.17 ? CB SAM 1 A 1 HETATM 7 C CG SAM . . . F 3 78.96 15.136 34.924 1 47.74 ? CG SAM 1 A 1 HETATM 8 S SD SAM . . . F 3 77.5 14.903 33.888 1 47.46 ? SD SAM 1 A 1 HETATM 9 C CE SAM . . . F 3 77.211 16.606 33.37 1 49.5 ? CE SAM 1 A 1 HETATM 10 C C5' SAM . . . F 3 75.988 14.552 34.857 1 45.79 ? C5' SAM 1 A 1 HETATM 11 C C4' SAM . . . F 3 75.721 13.033 34.961 1 44.44 ? C4' SAM 1 A 1 HETATM 12 O O4' SAM . . . F 3 74.958 12.677 36.1 1 44.26 ? O4' SAM 1 A 1 HETATM 13 C C3' SAM . . . F 3 74.992 12.444 33.803 1 44.27 ? C3' SAM 1 A 1 HETATM 14 O O3' SAM . . . F 3 75.97 11.545 33.43 1 46 ? O3' SAM 1 A 1 HETATM 15 C C2' SAM . . . F 3 73.712 11.782 34.417 1 43.29 ? C2' SAM 1 A 1 HETATM 16 O O2' SAM . . . F 3 73.138 10.578 33.845 1 42.07 ? O2' SAM 1 A 1 HETATM 17 C C1' SAM . . . F 3 74.173 11.533 35.829 1 43.39 ? C1' SAM 1 A 1 HETATM 18 N N9 SAM . . . F 3 73.061 11.561 36.791 1 43.31 ? N9 SAM 1 A 1 HETATM 19 C C8 SAM . . . F 3 71.897 12.283 36.714 1 42.94 ? C8 SAM 1 A 1 HETATM 20 N N7 SAM . . . F 3 71.136 12.012 37.742 1 43.21 ? N7 SAM 1 A 1 HETATM 21 C C5 SAM . . . F 3 71.78 11.127 38.578 1 43.5 ? C5 SAM 1 A 1 HETATM 22 C C6 SAM . . . F 3 71.49 10.51 39.848 1 43.59 ? C6 SAM 1 A 1 HETATM 23 N N6 SAM . . . F 3 70.312 10.739 40.54 1 43.46 ? N6 SAM 1 A 1 HETATM 24 N N1 SAM . . . F 3 72.404 9.662 40.361 1 43.81 ? N1 SAM 1 A 1 HETATM 25 C C2 SAM . . . F 3 73.56 9.393 39.706 1 43.78 ? C2 SAM 1 A 1 HETATM 26 N N3 SAM . . . F 3 73.871 9.966 38.53 1 43.42 ? N3 SAM 1 A 1 HETATM 27 C C4 SAM . . . F 3 73.027 10.831 37.958 1 43.73 ? C4 SAM 1 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 40 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #