data_4F84 # _model_server_result.job_id GeabLJWDrh9PwC3ynkLCHw _model_server_result.datetime_utc '2024-11-04 22:45:02' _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 4f84 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 4F84 # _exptl.entry_id 4F84 _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 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 120 _cell.entry_id 4F84 _cell.length_a 147.942 _cell.length_b 147.942 _cell.length_c 66.467 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4F84 _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details author_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 1,2,3,4,5,6 # 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' 2_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 147.942 0 0 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 73.971 128.12153 0 4 'crystal symmetry operation' 10_665 -y+1,-x+1,-z+1/2 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 73.971 128.12153 33.2335 5 'crystal symmetry operation' 11_655 -x+y+1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 147.942 0 33.2335 6 'crystal symmetry operation' 12_555 x,x-y,-z+1/2 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 0 0 33.2335 # _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 '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 277 n n N HN1 SAM sing 278 n n N HN2 SAM sing 279 n n CA C SAM sing 280 n n CA CB SAM sing 281 n n CA HA SAM sing 282 n n C O SAM doub 283 n n C OXT SAM sing 284 n n CB CG SAM sing 285 n n CB HB1 SAM sing 286 n n CB HB2 SAM sing 287 n n CG SD SAM sing 288 n n CG HG1 SAM sing 289 n n CG HG2 SAM sing 290 n n SD CE SAM sing 291 n n SD C5' SAM sing 292 n n CE HE1 SAM sing 293 n n CE HE2 SAM sing 294 n n CE HE3 SAM sing 295 n n C5' C4' SAM sing 296 n n C5' "H5'1" SAM sing 297 n n C5' "H5'2" SAM sing 298 n n C4' O4' SAM sing 299 n n C4' C3' SAM sing 300 n n C4' H4' SAM sing 301 n n O4' C1' SAM sing 302 n n C3' O3' SAM sing 303 n n C3' C2' SAM sing 304 n n C3' H3' SAM sing 305 n n O3' HO3' SAM sing 306 n n C2' O2' SAM sing 307 n n C2' C1' SAM sing 308 n n C2' H2' SAM sing 309 n n O2' HO2' SAM sing 310 n n C1' N9 SAM sing 311 n n C1' H1' SAM sing 312 n n N9 C8 SAM sing 313 n y N9 C4 SAM sing 314 n y C8 N7 SAM doub 315 n y C8 H8 SAM sing 316 n n N7 C5 SAM sing 317 n y C5 C6 SAM sing 318 n y C5 C4 SAM doub 319 n y C6 N6 SAM sing 320 n n C6 N1 SAM doub 321 n y N6 HN61 SAM sing 322 n n N6 HN62 SAM sing 323 n n N1 C2 SAM sing 324 n y C2 N3 SAM doub 325 n y C2 H2 SAM sing 326 n n N3 C4 SAM sing 327 n y # _atom_sites.entry_id 4F84 _atom_sites.fract_transf_matrix[1][1] 0.006759 _atom_sites.fract_transf_matrix[1][2] 0.003903 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007805 _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] 0.015045 _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 SAM A 1 501 501 SAM SAM . C 3 HOH A 1 601 602 HOH TIP . C 3 HOH A 2 602 603 HOH TIP . C 3 HOH A 3 603 604 HOH TIP . C 3 HOH A 4 604 605 HOH TIP . C 3 HOH A 5 605 606 HOH TIP . C 3 HOH A 6 606 607 HOH TIP . # 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 S SD SAM . . . B 2 45.915 48.061 30.159 1 79.32 ? SD SAM 501 A 1 HETATM 2 C CE SAM . . . B 2 45.973 49.816 30.64 1 78.75 ? CE SAM 501 A 1 HETATM 3 C C5' SAM . . . B 2 45.915 47.349 31.824 1 75.84 ? C5' SAM 501 A 1 HETATM 4 C C4' SAM . . . B 2 46.965 47.864 32.817 1 74.37 ? C4' SAM 501 A 1 HETATM 5 O O4' SAM . . . B 2 48.236 48.179 32.304 1 73.06 ? O4' SAM 501 A 1 HETATM 6 C C3' SAM . . . B 2 46.55 48.956 33.8 1 73.88 ? C3' SAM 501 A 1 HETATM 7 O O3' SAM . . . B 2 46.384 48.311 35.061 1 72.12 ? O3' SAM 501 A 1 HETATM 8 C C2' SAM . . . B 2 47.771 49.874 33.813 1 72.04 ? C2' SAM 501 A 1 HETATM 9 O O2' SAM . . . B 2 48.024 50.358 35.107 1 73.94 ? O2' SAM 501 A 1 HETATM 10 C C1' SAM . . . B 2 48.863 48.941 33.31 1 71.75 ? C1' SAM 501 A 1 HETATM 11 N N9 SAM . . . B 2 50.147 49.527 32.867 1 70.59 ? N9 SAM 501 A 1 HETATM 12 C C8 SAM . . . B 2 50.4 50.301 31.765 1 69.4 ? C8 SAM 501 A 1 HETATM 13 N N7 SAM . . . B 2 51.717 50.614 31.751 1 68.41 ? N7 SAM 501 A 1 HETATM 14 C C5 SAM . . . B 2 52.308 50.051 32.823 1 68.35 ? C5 SAM 501 A 1 HETATM 15 C C6 SAM . . . B 2 53.62 50.054 33.292 1 67.79 ? C6 SAM 501 A 1 HETATM 16 N N6 SAM . . . B 2 54.572 50.703 32.629 1 65.38 ? N6 SAM 501 A 1 HETATM 17 N N1 SAM . . . B 2 53.936 49.371 34.449 1 67.89 ? N1 SAM 501 A 1 HETATM 18 C C2 SAM . . . B 2 52.957 48.694 35.143 1 69.99 ? C2 SAM 501 A 1 HETATM 19 N N3 SAM . . . B 2 51.655 48.701 34.672 1 70.82 ? N3 SAM 501 A 1 HETATM 20 C C4 SAM . . . B 2 51.336 49.369 33.532 1 69.57 ? C4 SAM 501 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 20 #