data_6WAD # _model_server_result.job_id cOJIo9u7ZTMFuvC67Ye00Q _model_server_result.datetime_utc '2024-11-22 21:55:40' _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 6wad # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 6WAD # _exptl.entry_id 6WAD _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 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 6WAD _cell.length_a 94.068 _cell.length_b 94.068 _cell.length_c 109.242 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6WAD _symmetry.cell_setting ? _symmetry.Int_Tables_number 80 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 0 94.068 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 51 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 50 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 230 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 229 _struct_conn.ptnr2_symmetry 6_565 _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 2.05 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _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 SAH sing 277 n n N HN1 SAH sing 278 n n N HN2 SAH sing 279 n n CA CB SAH sing 280 n n CA C SAH sing 281 n n CA HA SAH sing 282 n n CB CG SAH sing 283 n n CB HB1 SAH sing 284 n n CB HB2 SAH sing 285 n n CG SD SAH sing 286 n n CG HG1 SAH sing 287 n n CG HG2 SAH sing 288 n n SD C5' SAH sing 289 n n C O SAH doub 290 n n C OXT SAH sing 291 n n OXT HXT SAH sing 292 n n C5' C4' SAH sing 293 n n C5' "H5'1" SAH sing 294 n n C5' "H5'2" SAH sing 295 n n C4' O4' SAH sing 296 n n C4' C3' SAH sing 297 n n C4' H4' SAH sing 298 n n O4' C1' SAH sing 299 n n C3' O3' SAH sing 300 n n C3' C2' SAH sing 301 n n C3' H3' SAH sing 302 n n O3' HO3' SAH sing 303 n n C2' O2' SAH sing 304 n n C2' C1' SAH sing 305 n n C2' H2' SAH sing 306 n n O2' HO2' SAH sing 307 n n C1' N9 SAH sing 308 n n C1' H1' SAH sing 309 n n N9 C8 SAH sing 310 n y N9 C4 SAH sing 311 n y C8 N7 SAH doub 312 n y C8 H8 SAH sing 313 n n N7 C5 SAH sing 314 n y C5 C6 SAH sing 315 n y C5 C4 SAH doub 316 n y C6 N6 SAH sing 317 n n C6 N1 SAH doub 318 n y N6 HN61 SAH sing 319 n n N6 HN62 SAH sing 320 n n N1 C2 SAH sing 321 n y C2 N3 SAH doub 322 n y C2 H2 SAH sing 323 n n N3 C4 SAH sing 324 n y # _atom_sites.entry_id 6WAD _atom_sites.fract_transf_matrix[1][1] 0.010631 _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] 0.010631 _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] 0.009154 _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 SAH A 1 501 501 SAH SAH . C 3 TQ7 A 1 502 601 TQ7 XXX . D 4 HOH A 1 601 7 HOH HOH . D 4 HOH A 2 602 15 HOH HOH . D 4 HOH A 3 603 4 HOH HOH . D 4 HOH A 4 604 26 HOH HOH . D 4 HOH A 5 605 19 HOH HOH . D 4 HOH A 6 606 6 HOH HOH . D 4 HOH A 7 607 13 HOH HOH . D 4 HOH A 8 608 27 HOH HOH . D 4 HOH A 9 609 12 HOH HOH . D 4 HOH A 10 610 2 HOH HOH . D 4 HOH A 11 611 8 HOH HOH . D 4 HOH A 12 612 14 HOH HOH . D 4 HOH A 13 613 9 HOH HOH . D 4 HOH A 14 614 16 HOH HOH . D 4 HOH A 15 615 1 HOH HOH . D 4 HOH A 16 616 21 HOH HOH . D 4 HOH A 17 617 10 HOH HOH . D 4 HOH A 18 618 28 HOH HOH . D 4 HOH A 19 619 25 HOH HOH . D 4 HOH A 20 620 24 HOH HOH . D 4 HOH A 21 621 23 HOH HOH . D 4 HOH A 22 622 11 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 . . . B 2 20.283 58.453 5.843 1 84.34 ? N SAH 501 A 1 HETATM 2 C CA SAH . . . B 2 18.831 58.638 5.572 1 81.66 ? CA SAH 501 A 1 HETATM 3 C CB SAH . . . B 2 18.18 57.303 5.202 1 82.65 ? CB SAH 501 A 1 HETATM 4 C CG SAH . . . B 2 17.938 57.191 3.727 1 81.44 ? CG SAH 501 A 1 HETATM 5 S SD SAH . . . B 2 16.884 55.812 3.216 1 83.75 ? SD SAH 501 A 1 HETATM 6 C C SAH . . . B 2 18.134 59.239 6.802 1 80.89 ? C SAH 501 A 1 HETATM 7 O O SAH . . . B 2 18.842 59.439 7.793 1 89.32 ? O SAH 501 A 1 HETATM 8 O OXT SAH . . . B 2 16.907 59.507 6.715 1 82.94 ? OXT SAH 501 A 1 HETATM 9 C C5' SAH . . . B 2 17.617 55.618 1.556 1 75.77 ? C5' SAH 501 A 1 HETATM 10 C C4' SAH . . . B 2 17.618 56.906 0.734 1 70.71 ? C4' SAH 501 A 1 HETATM 11 O O4' SAH . . . B 2 18.613 56.822 -0.314 1 56.61 ? O4' SAH 501 A 1 HETATM 12 C C3' SAH . . . B 2 16.289 57.253 0.044 1 67.75 ? C3' SAH 501 A 1 HETATM 13 O O3' SAH . . . B 2 15.957 58.587 0.433 1 60.99 ? O3' SAH 501 A 1 HETATM 14 C C2' SAH . . . B 2 16.588 56.986 -1.446 1 60.33 ? C2' SAH 501 A 1 HETATM 15 O O2' SAH . . . B 2 15.842 57.796 -2.327 1 55.29 ? O2' SAH 501 A 1 HETATM 16 C C1' SAH . . . B 2 18.077 57.323 -1.515 1 60.03 ? C1' SAH 501 A 1 HETATM 17 N N9 SAH . . . B 2 18.834 56.731 -2.615 1 56.78 ? N9 SAH 501 A 1 HETATM 18 C C8 SAH . . . B 2 18.76 55.438 -3.079 1 55.55 ? C8 SAH 501 A 1 HETATM 19 N N7 SAH . . . B 2 19.603 55.179 -4.051 1 52.81 ? N7 SAH 501 A 1 HETATM 20 C C5 SAH . . . B 2 20.299 56.368 -4.224 1 49.86 ? C5 SAH 501 A 1 HETATM 21 C C6 SAH . . . B 2 21.338 56.73 -5.101 1 45.69 ? C6 SAH 501 A 1 HETATM 22 N N6 SAH . . . B 2 21.868 55.895 -5.991 1 39.34 ? N6 SAH 501 A 1 HETATM 23 N N1 SAH . . . B 2 21.825 57.991 -4.999 1 45.41 ? N1 SAH 501 A 1 HETATM 24 C C2 SAH . . . B 2 21.279 58.824 -4.099 1 48.18 ? C2 SAH 501 A 1 HETATM 25 N N3 SAH . . . B 2 20.282 58.6 -3.242 1 48.72 ? N3 SAH 501 A 1 HETATM 26 C C4 SAH . . . B 2 19.835 57.336 -3.346 1 50.49 ? C4 SAH 501 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 26 #