data_4C1Q # _model_server_result.job_id bdFROD_6VjOfspN_t87Scg _model_server_result.datetime_utc '2024-11-04 20:32:37' _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 4c1q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":394}' # _entry.id 4C1Q # _exptl.entry_id 4C1Q _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 3 _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 4C1Q _cell.length_a 55.73 _cell.length_b 78.18 _cell.length_c 107.61 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4C1Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,H 1 1 B,F,G,I 2 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 D _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 covale ? covale1 C C THR 3 C THR 3 1_555 C N MLY 4 C MLY 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale2 C C MLY 4 C MLY 4 1_555 C N GLN 5 C GLN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? metalc ? metalc1 A SG CYS 12 A CYS 205 1_555 E ZN ZN . A ZN 493 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc2 A SG CYS 15 A CYS 208 1_555 E ZN ZN . A ZN 493 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc3 A SG CYS 23 A CYS 216 1_555 E ZN ZN . A ZN 493 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc4 A ND1 HIS 26 A HIS 219 1_555 E ZN ZN . A ZN 493 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? metalc ? metalc5 B SG CYS 12 B CYS 205 1_555 F ZN ZN . B ZN 493 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.202 ? metalc ? metalc6 B SG CYS 15 B CYS 208 1_555 F ZN ZN . B ZN 493 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.259 ? metalc ? metalc7 B SG CYS 23 B CYS 216 1_555 F ZN ZN . B ZN 493 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc8 B ND1 HIS 26 B HIS 219 1_555 F ZN ZN . B ZN 493 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? # _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 319 n n N HN1 SAH sing 320 n n N HN2 SAH sing 321 n n CA CB SAH sing 322 n n CA C SAH sing 323 n n CA HA SAH sing 324 n n CB CG SAH sing 325 n n CB HB1 SAH sing 326 n n CB HB2 SAH sing 327 n n CG SD SAH sing 328 n n CG HG1 SAH sing 329 n n CG HG2 SAH sing 330 n n SD C5' SAH sing 331 n n C O SAH doub 332 n n C OXT SAH sing 333 n n OXT HXT SAH sing 334 n n C5' C4' SAH sing 335 n n C5' "H5'1" SAH sing 336 n n C5' "H5'2" SAH sing 337 n n C4' O4' SAH sing 338 n n C4' C3' SAH sing 339 n n C4' H4' SAH sing 340 n n O4' C1' SAH sing 341 n n C3' O3' SAH sing 342 n n C3' C2' SAH sing 343 n n C3' H3' SAH sing 344 n n O3' HO3' SAH sing 345 n n C2' O2' SAH sing 346 n n C2' C1' SAH sing 347 n n C2' H2' SAH sing 348 n n O2' HO2' SAH sing 349 n n C1' N9 SAH sing 350 n n C1' H1' SAH sing 351 n n N9 C8 SAH sing 352 n y N9 C4 SAH sing 353 n y C8 N7 SAH doub 354 n y C8 H8 SAH sing 355 n n N7 C5 SAH sing 356 n y C5 C6 SAH sing 357 n y C5 C4 SAH doub 358 n y C6 N6 SAH sing 359 n n C6 N1 SAH doub 360 n y N6 HN61 SAH sing 361 n n N6 HN62 SAH sing 362 n n N1 C2 SAH sing 363 n y C2 N3 SAH doub 364 n y C2 H2 SAH sing 365 n n N3 C4 SAH sing 366 n y # _atom_sites.entry_id 4C1Q _atom_sites.fract_transf_matrix[1][1] 0.017944 _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] 0.012791 _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] 0.009293 _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 D 3 SAH A 1 394 394 SAH SAH . E 4 ZN A 1 493 493 ZN ZN . F 4 ZN B 1 493 493 ZN ZN . G 5 GOL B 1 1358 1358 GOL GOL . H 6 HOH A 1 2001 2001 HOH HOH . H 6 HOH A 2 2002 2002 HOH HOH . H 6 HOH A 3 2003 2003 HOH HOH . H 6 HOH A 4 2004 2004 HOH HOH . H 6 HOH A 5 2005 2005 HOH HOH . H 6 HOH A 6 2006 2006 HOH HOH . H 6 HOH A 7 2007 2007 HOH HOH . H 6 HOH A 8 2008 2008 HOH HOH . H 6 HOH A 9 2009 2009 HOH HOH . H 6 HOH A 10 2010 2010 HOH HOH . H 6 HOH A 11 2011 2011 HOH HOH . H 6 HOH A 12 2012 2012 HOH HOH . H 6 HOH A 13 2013 2013 HOH HOH . H 6 HOH A 14 2014 2014 HOH HOH . H 6 HOH A 15 2015 2015 HOH HOH . H 6 HOH A 16 2016 2016 HOH HOH . H 6 HOH A 17 2017 2017 HOH HOH . H 6 HOH A 18 2018 2018 HOH HOH . H 6 HOH A 19 2019 2019 HOH HOH . H 6 HOH A 20 2020 2020 HOH HOH . H 6 HOH A 21 2021 2021 HOH HOH . H 6 HOH A 22 2022 2022 HOH HOH . H 6 HOH A 23 2023 2023 HOH HOH . H 6 HOH A 24 2024 2024 HOH HOH . H 6 HOH A 25 2025 2025 HOH HOH . H 6 HOH A 26 2026 2026 HOH HOH . H 6 HOH A 27 2027 2027 HOH HOH . H 6 HOH A 28 2028 2028 HOH HOH . H 6 HOH A 29 2029 2029 HOH HOH . H 6 HOH A 30 2030 2030 HOH HOH . H 6 HOH A 31 2031 2031 HOH HOH . H 6 HOH A 32 2032 2032 HOH HOH . H 6 HOH A 33 2033 2033 HOH HOH . H 6 HOH A 34 2034 2034 HOH HOH . H 6 HOH A 35 2035 2035 HOH HOH . I 6 HOH B 1 2001 2001 HOH HOH . I 6 HOH B 2 2002 2002 HOH HOH . I 6 HOH B 3 2003 2003 HOH HOH . I 6 HOH B 4 2004 2004 HOH HOH . I 6 HOH B 5 2005 2005 HOH HOH . I 6 HOH B 6 2006 2006 HOH HOH . I 6 HOH B 7 2007 2007 HOH HOH . I 6 HOH B 8 2008 2008 HOH HOH . I 6 HOH B 9 2009 2009 HOH HOH . I 6 HOH B 10 2010 2010 HOH HOH . I 6 HOH B 11 2011 2011 HOH HOH . I 6 HOH B 12 2012 2012 HOH HOH . I 6 HOH B 13 2013 2013 HOH HOH . I 6 HOH B 14 2014 2014 HOH HOH . I 6 HOH B 15 2015 2015 HOH HOH . I 6 HOH B 16 2016 2016 HOH HOH . I 6 HOH B 17 2017 2017 HOH HOH . I 6 HOH B 18 2018 2018 HOH HOH . I 6 HOH B 19 2019 2019 HOH HOH . I 6 HOH B 20 2020 2020 HOH HOH . I 6 HOH B 21 2021 2021 HOH HOH . I 6 HOH B 22 2022 2022 HOH HOH . I 6 HOH B 23 2023 2023 HOH HOH . I 6 HOH B 24 2024 2024 HOH HOH . I 6 HOH B 25 2025 2025 HOH HOH . I 6 HOH B 26 2026 2026 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 . . . D 3 16.387 -30.243 -24.115 1 41.95 ? N SAH 394 A 1 HETATM 2 C CA SAH . . . D 3 16.711 -29.714 -22.789 1 48.61 ? CA SAH 394 A 1 HETATM 3 C CB SAH . . . D 3 15.672 -28.637 -22.4 1 52.29 ? CB SAH 394 A 1 HETATM 4 C CG SAH . . . D 3 15.907 -27.293 -23.094 1 51.96 ? CG SAH 394 A 1 HETATM 5 S SD SAH . . . D 3 17.423 -26.617 -22.492 1 56.78 ? SD SAH 394 A 1 HETATM 6 C C SAH . . . D 3 16.775 -30.805 -21.736 1 48.57 ? C SAH 394 A 1 HETATM 7 O O SAH . . . D 3 16.757 -30.539 -20.52 1 47.67 ? O SAH 394 A 1 HETATM 8 O OXT SAH . . . D 3 16.857 -31.994 -22.064 1 50.04 ? OXT SAH 394 A 1 HETATM 9 C C5' SAH . . . D 3 18.326 -26.118 -23.919 1 52.75 ? C5' SAH 394 A 1 HETATM 10 C C4' SAH . . . D 3 19.159 -27.297 -24.382 1 51.47 ? C4' SAH 394 A 1 HETATM 11 O O4' SAH . . . D 3 18.331 -28.216 -25.092 1 53.41 ? O4' SAH 394 A 1 HETATM 12 C C3' SAH . . . D 3 20.251 -26.88 -25.33 1 51.58 ? C3' SAH 394 A 1 HETATM 13 O O3' SAH . . . D 3 21.467 -26.822 -24.622 1 59 ? O3' SAH 394 A 1 HETATM 14 C C2' SAH . . . D 3 20.253 -27.975 -26.368 1 53.26 ? C2' SAH 394 A 1 HETATM 15 O O2' SAH . . . D 3 21.058 -29.066 -25.974 1 51.31 ? O2' SAH 394 A 1 HETATM 16 C C1' SAH . . . D 3 18.847 -28.536 -26.387 1 53.67 ? C1' SAH 394 A 1 HETATM 17 N N9 SAH . . . D 3 18.09 -27.897 -27.491 1 50.6 ? N9 SAH 394 A 1 HETATM 18 C C8 SAH . . . D 3 17.053 -27.026 -27.386 1 49.85 ? C8 SAH 394 A 1 HETATM 19 N N7 SAH . . . D 3 16.627 -26.638 -28.613 1 48.29 ? N7 SAH 394 A 1 HETATM 20 C C5 SAH . . . D 3 17.42 -27.263 -29.52 1 49.68 ? C5 SAH 394 A 1 HETATM 21 C C6 SAH . . . D 3 17.559 -27.318 -30.998 1 50.29 ? C6 SAH 394 A 1 HETATM 22 N N6 SAH . . . D 3 16.725 -26.598 -31.756 1 54.7 ? N6 SAH 394 A 1 HETATM 23 N N1 SAH . . . D 3 18.518 -28.099 -31.575 1 50.1 ? N1 SAH 394 A 1 HETATM 24 C C2 SAH . . . D 3 19.371 -28.829 -30.816 1 46.53 ? C2 SAH 394 A 1 HETATM 25 N N3 SAH . . . D 3 19.32 -28.824 -29.466 1 47.17 ? N3 SAH 394 A 1 HETATM 26 C C4 SAH . . . D 3 18.391 -28.085 -28.777 1 50.14 ? C4 SAH 394 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 26 #