data_6GFN # _model_server_result.job_id aN80SKaERx-uLg791flMlQ _model_server_result.datetime_utc '2024-11-15 16:05:07' _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 6gfn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":300}' # _entry.id 6GFN # _exptl.entry_id 6GFN _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 6GFN _cell.length_a 92.36 _cell.length_b 92.36 _cell.length_c 180.65 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GFN _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41 2 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 _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 6GFN _atom_sites.fract_transf_matrix[1][1] 0.010827 _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] 0.010827 _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] 0.005536 _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 1 300 300 SAH SAH . C 3 HOH A 1 401 9 HOH HOH . C 3 HOH A 2 402 8 HOH HOH . C 3 HOH A 3 403 7 HOH HOH . C 3 HOH A 4 404 4 HOH HOH . C 3 HOH A 5 405 6 HOH HOH . C 3 HOH A 6 406 1 HOH HOH . C 3 HOH A 7 407 3 HOH HOH . C 3 HOH A 8 408 10 HOH HOH . C 3 HOH A 9 409 2 HOH HOH . C 3 HOH A 10 410 5 HOH HOH . C 3 HOH A 11 411 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 0.107 -23.435 -15.88 1 103.8 ? N SAH 300 A 1 HETATM 2 C CA SAH . . . B 2 -0.724 -23.279 -17.089 1 105.22 ? CA SAH 300 A 1 HETATM 3 C CB SAH . . . B 2 -2.282 -23.421 -16.996 1 105.17 ? CB SAH 300 A 1 HETATM 4 C CG SAH . . . B 2 -2.924 -22.673 -15.837 1 103.03 ? CG SAH 300 A 1 HETATM 5 S SD SAH . . . B 2 -4.674 -22.528 -16.283 1 104.01 ? SD SAH 300 A 1 HETATM 6 C C SAH . . . B 2 -0.312 -21.973 -17.815 1 104.61 ? C SAH 300 A 1 HETATM 7 O O SAH . . . B 2 -0.396 -22.129 -19.115 1 107.1 ? O SAH 300 A 1 HETATM 8 O OXT SAH . . . B 2 0.054 -20.948 -17.268 1 101.66 ? OXT SAH 300 A 1 HETATM 9 C C5' SAH . . . B 2 -5.526 -23.483 -15.002 1 102.75 ? C5' SAH 300 A 1 HETATM 10 C C4' SAH . . . B 2 -5.588 -24.929 -15.448 1 103.77 ? C4' SAH 300 A 1 HETATM 11 O O4' SAH . . . B 2 -5.734 -25.748 -14.273 1 105.56 ? O4' SAH 300 A 1 HETATM 12 C C3' SAH . . . B 2 -6.707 -25.327 -16.414 1 107.6 ? C3' SAH 300 A 1 HETATM 13 O O3' SAH . . . B 2 -6.219 -26.049 -17.539 1 107.7 ? O3' SAH 300 A 1 HETATM 14 C C2' SAH . . . B 2 -7.683 -26.136 -15.545 1 111 ? C2' SAH 300 A 1 HETATM 15 O O2' SAH . . . B 2 -8.309 -27.182 -16.281 1 113.22 ? O2' SAH 300 A 1 HETATM 16 C C1' SAH . . . B 2 -6.774 -26.69 -14.441 1 110.16 ? C1' SAH 300 A 1 HETATM 17 N N9 SAH . . . B 2 -7.414 -26.888 -13.135 1 112.17 ? N9 SAH 300 A 1 HETATM 18 C C8 SAH . . . B 2 -8.45 -26.155 -12.613 1 114.76 ? C8 SAH 300 A 1 HETATM 19 N N7 SAH . . . B 2 -8.798 -26.505 -11.399 1 116 ? N7 SAH 300 A 1 HETATM 20 C C5 SAH . . . B 2 -7.931 -27.545 -11.096 1 113.7 ? C5 SAH 300 A 1 HETATM 21 C C6 SAH . . . B 2 -7.772 -28.339 -9.943 1 112.9 ? C6 SAH 300 A 1 HETATM 22 N N6 SAH . . . B 2 -8.609 -28.297 -8.9 1 114.38 ? N6 SAH 300 A 1 HETATM 23 N N1 SAH . . . B 2 -6.764 -29.245 -9.937 1 110.67 ? N1 SAH 300 A 1 HETATM 24 C C2 SAH . . . B 2 -5.999 -29.367 -11.029 1 108.27 ? C2 SAH 300 A 1 HETATM 25 N N3 SAH . . . B 2 -6.079 -28.7 -12.187 1 107.76 ? N3 SAH 300 A 1 HETATM 26 C C4 SAH . . . B 2 -7.068 -27.79 -12.154 1 111 ? C4 SAH 300 A 1 # _model_server_stats.io_time_ms 65 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 26 #