data_9CKG # _model_server_result.job_id LdLrFB8gpk_A4TDhEC0MVg _model_server_result.datetime_utc '2025-01-15 18:39:19' _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 9ckg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 9CKG # _exptl.entry_id 9CKG _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 9CKG _cell.length_a 151.822 _cell.length_b 151.822 _cell.length_c 53.377 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9CKG _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall 'I 4' _symmetry.space_group_name_H-M 'I 4' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _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 # 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 metalc ? metalc1 A SG CYS 52 A CYS 52 1_555 E ZN ZN . A ZN 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc2 A SG CYS 55 A CYS 55 1_555 E ZN ZN . A ZN 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc3 A SG CYS 65 A CYS 65 1_555 C ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc4 A SG CYS 68 A CYS 68 1_555 C ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc5 A SG CYS 74 A CYS 74 1_555 E ZN ZN . A ZN 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc6 A SG CYS 78 A CYS 78 1_555 E ZN ZN . A ZN 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc7 A NE2 HIS 86 A HIS 86 1_555 C ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc8 A SG CYS 90 A CYS 90 1_555 C ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc9 A SG CYS 209 A CYS 209 1_555 D ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc10 A SG CYS 262 A CYS 262 1_555 D ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc11 A SG CYS 264 A CYS 264 1_555 D ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc12 A SG CYS 267 A CYS 267 1_555 D ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? # _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 342 n n N HN1 SAH sing 343 n n N HN2 SAH sing 344 n n CA CB SAH sing 345 n n CA C SAH sing 346 n n CA HA SAH sing 347 n n CB CG SAH sing 348 n n CB HB1 SAH sing 349 n n CB HB2 SAH sing 350 n n CG SD SAH sing 351 n n CG HG1 SAH sing 352 n n CG HG2 SAH sing 353 n n SD C5' SAH sing 354 n n C O SAH doub 355 n n C OXT SAH sing 356 n n OXT HXT SAH sing 357 n n C5' C4' SAH sing 358 n n C5' "H5'1" SAH sing 359 n n C5' "H5'2" SAH sing 360 n n C4' O4' SAH sing 361 n n C4' C3' SAH sing 362 n n C4' H4' SAH sing 363 n n O4' C1' SAH sing 364 n n C3' O3' SAH sing 365 n n C3' C2' SAH sing 366 n n C3' H3' SAH sing 367 n n O3' HO3' SAH sing 368 n n C2' O2' SAH sing 369 n n C2' C1' SAH sing 370 n n C2' H2' SAH sing 371 n n O2' HO2' SAH sing 372 n n C1' N9 SAH sing 373 n n C1' H1' SAH sing 374 n n N9 C8 SAH sing 375 n y N9 C4 SAH sing 376 n y C8 N7 SAH doub 377 n y C8 H8 SAH sing 378 n n N7 C5 SAH sing 379 n y C5 C6 SAH sing 380 n y C5 C4 SAH doub 381 n y C6 N6 SAH sing 382 n n C6 N1 SAH doub 383 n y N6 HN61 SAH sing 384 n n N6 HN62 SAH sing 385 n n N1 C2 SAH sing 386 n y C2 N3 SAH doub 387 n y C2 H2 SAH sing 388 n n N3 C4 SAH sing 389 n y # _atom_sites.entry_id 9CKG _atom_sites.fract_transf_matrix[1][1] 0.006587 _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] 0.006587 _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] 0.018735 _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 1 501 509 SAH SAH . C 3 ZN A 1 502 506 ZN ZN . D 3 ZN A 1 503 507 ZN ZN . E 3 ZN A 1 504 508 ZN ZN . F 4 PEG A 1 505 511 PEG PEG . G 4 PEG A 1 506 512 PEG PEG . H 5 PG4 A 1 507 513 PG4 PG4 . I 6 EOH A 1 508 510 EOH EOH . J 7 GOL A 1 509 514 GOL GOL . # 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 58.532 -16.865 -8.535 1 77.05 ? N SAH 501 A 1 HETATM 2 C CA SAH . . . B 2 58.243 -15.692 -9.35 1 75.48 ? CA SAH 501 A 1 HETATM 3 C CB SAH . . . B 2 56.799 -15.726 -9.836 1 61.45 ? CB SAH 501 A 1 HETATM 4 C CG SAH . . . B 2 56.556 -16.51 -11.126 1 71.77 ? CG SAH 501 A 1 HETATM 5 S SD SAH . . . B 2 57.159 -15.693 -12.625 1 73.89 ? SD SAH 501 A 1 HETATM 6 C C SAH . . . B 2 58.506 -14.405 -8.566 1 81.47 ? C SAH 501 A 1 HETATM 7 O O SAH . . . B 2 58.99 -14.442 -7.43 1 82.91 ? O SAH 501 A 1 HETATM 8 O OXT SAH . . . B 2 58.263 -13.301 -9.059 1 82.99 ? OXT SAH 501 A 1 HETATM 9 C C5' SAH . . . B 2 58.153 -17.111 -13.203 1 79.48 ? C5' SAH 501 A 1 HETATM 10 C C4' SAH . . . B 2 59.461 -17.389 -12.454 1 71.56 ? C4' SAH 501 A 1 HETATM 11 O O4' SAH . . . B 2 59.231 -18.045 -11.218 1 66.27 ? O4' SAH 501 A 1 HETATM 12 C C3' SAH . . . B 2 60.368 -18.347 -13.213 1 73.12 ? C3' SAH 501 A 1 HETATM 13 O O3' SAH . . . B 2 61.178 -17.652 -14.131 1 71.16 ? O3' SAH 501 A 1 HETATM 14 C C2' SAH . . . B 2 61.165 -19.023 -12.117 1 71.91 ? C2' SAH 501 A 1 HETATM 15 O O2' SAH . . . B 2 62.256 -18.21 -11.743 1 68.67 ? O2' SAH 501 A 1 HETATM 16 C C1' SAH . . . B 2 60.192 -19.054 -10.958 1 63.97 ? C1' SAH 501 A 1 HETATM 17 N N9 SAH . . . B 2 59.522 -20.372 -10.856 1 64.59 ? N9 SAH 501 A 1 HETATM 18 C C8 SAH . . . B 2 58.257 -20.666 -11.297 1 62.9 ? C8 SAH 501 A 1 HETATM 19 N N7 SAH . . . B 2 57.988 -21.966 -11.035 1 63.14 ? N7 SAH 501 A 1 HETATM 20 C C5 SAH . . . B 2 59.059 -22.513 -10.425 1 62.54 ? C5 SAH 501 A 1 HETATM 21 C C6 SAH . . . B 2 59.306 -23.796 -9.948 1 67.51 ? C6 SAH 501 A 1 HETATM 22 N N6 SAH . . . B 2 58.384 -24.75 -10.057 1 73.1 ? N6 SAH 501 A 1 HETATM 23 N N1 SAH . . . B 2 60.518 -24.079 -9.359 1 69.65 ? N1 SAH 501 A 1 HETATM 24 C C2 SAH . . . B 2 61.468 -23.085 -9.252 1 76.73 ? C2 SAH 501 A 1 HETATM 25 N N3 SAH . . . B 2 61.217 -21.813 -9.728 1 66.42 ? N3 SAH 501 A 1 HETATM 26 C C4 SAH . . . B 2 60.031 -21.527 -10.309 1 63.11 ? C4 SAH 501 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 26 #