data_6PQB # _model_server_result.job_id bhqSFdk21VmkBIHxwnRY-g _model_server_result.datetime_utc '2025-07-30 20:40:07' _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 6pqb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":301}' # _entry.id 6PQB # _exptl.entry_id 6PQB _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 4 _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 6PQB _cell.length_a 163.54 _cell.length_b 163.54 _cell.length_c 122.55 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PQB _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 PISA monomeric 1 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,I 1 1 B,F,J 2 1 C,G,K 3 1 D,H,L 4 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 E N N ? 2 F N N ? 2 G N N ? 2 H N N # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag n _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _chem_comp.type 'l-peptide linking' _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 6PQB _atom_sites.fract_transf_matrix[1][1] 0.006115 _atom_sites.fract_transf_matrix[1][2] 0.00353 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007061 _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] 0.00816 _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 2 SAH A 1 301 301 SAH SAH . F 2 SAH B 1 301 301 SAH SAH . G 2 SAH C 1 301 301 SAH SAH . H 2 SAH D 1 301 301 SAH SAH . I 3 HOH A 1 401 3 HOH HOH . I 3 HOH A 2 402 2 HOH HOH . J 3 HOH B 1 401 5 HOH HOH . J 3 HOH B 2 402 4 HOH HOH . K 3 HOH C 1 401 6 HOH HOH . K 3 HOH C 2 402 1 HOH HOH . K 3 HOH C 3 403 7 HOH HOH . K 3 HOH C 4 404 9 HOH HOH . L 3 HOH D 1 401 8 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 . . . F 2 143.93 125.079 2.77 1 135.75 ? N SAH 301 B 1 HETATM 2 C CA SAH . . . F 2 144.54 124.272 3.862 1 124.42 ? CA SAH 301 B 1 HETATM 3 C CB SAH . . . F 2 144.669 122.798 3.466 1 114.29 ? CB SAH 301 B 1 HETATM 4 C CG SAH . . . F 2 145.668 122.559 2.348 1 115.77 ? CG SAH 301 B 1 HETATM 5 S SD SAH . . . F 2 145.942 120.815 1.925 1 139.83 ? SD SAH 301 B 1 HETATM 6 C C SAH . . . F 2 145.923 124.836 4.203 1 143.35 ? C SAH 301 B 1 HETATM 7 O O SAH . . . F 2 146.64 124.157 4.961 1 157.05 ? O SAH 301 B 1 HETATM 8 O OXT SAH . . . F 2 146.231 125.935 3.702 1 157.68 ? OXT SAH 301 B 1 HETATM 9 C C5' SAH . . . F 2 144.432 120.351 1.036 1 125 ? C5' SAH 301 B 1 HETATM 10 C C4' SAH . . . F 2 143.236 120.018 1.896 1 124.58 ? C4' SAH 301 B 1 HETATM 11 O O4' SAH . . . F 2 142.059 120.008 1.053 1 121.55 ? O4' SAH 301 B 1 HETATM 12 C C3' SAH . . . F 2 143.282 118.642 2.566 1 113.33 ? C3' SAH 301 B 1 HETATM 13 O O3' SAH . . . F 2 142.617 118.683 3.821 1 129.98 ? O3' SAH 301 B 1 HETATM 14 C C2' SAH . . . F 2 142.491 117.781 1.578 1 113.49 ? C2' SAH 301 B 1 HETATM 15 O O2' SAH . . . F 2 141.955 116.598 2.132 1 123.65 ? O2' SAH 301 B 1 HETATM 16 C C1' SAH . . . F 2 141.409 118.762 1.146 1 107.98 ? C1' SAH 301 B 1 HETATM 17 N N9 SAH . . . F 2 140.852 118.457 -0.167 1 106.1 ? N9 SAH 301 B 1 HETATM 18 C C8 SAH . . . F 2 141.484 117.776 -1.177 1 115.04 ? C8 SAH 301 B 1 HETATM 19 N N7 SAH . . . F 2 140.754 117.649 -2.256 1 116.69 ? N7 SAH 301 B 1 HETATM 20 C C5 SAH . . . F 2 139.566 118.291 -1.942 1 103.3 ? C5 SAH 301 B 1 HETATM 21 C C6 SAH . . . F 2 138.384 118.501 -2.678 1 105.25 ? C6 SAH 301 B 1 HETATM 22 N N6 SAH . . . F 2 138.206 118.072 -3.924 1 110.72 ? N6 SAH 301 B 1 HETATM 23 N N1 SAH . . . F 2 137.384 119.183 -2.071 1 110.16 ? N1 SAH 301 B 1 HETATM 24 C C2 SAH . . . F 2 137.573 119.612 -0.817 1 110.53 ? C2 SAH 301 B 1 HETATM 25 N N3 SAH . . . F 2 138.636 119.473 -0.03 1 103.24 ? N3 SAH 301 B 1 HETATM 26 C C4 SAH . . . F 2 139.612 118.795 -0.656 1 104.6 ? C4 SAH 301 B 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 250 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 26 #