data_6P5Z # _model_server_result.job_id QV2CAbDzUndnx1ZHBRiiEw _model_server_result.datetime_utc '2025-03-09 02:15:06' _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 6p5z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 6P5Z # _exptl.entry_id 6P5Z _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 2 _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 6P5Z _cell.length_a 59.601 _cell.length_b 100.446 _cell.length_c 146.4 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6P5Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 G N N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NE2 _struct_conn.ptnr1_label_comp_id HIS _struct_conn.ptnr1_label_seq_id 359 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id HIS _struct_conn.ptnr1_auth_seq_id 359 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id E _struct_conn.ptnr2_label_atom_id CO _struct_conn.ptnr2_label_comp_id F0X _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id F0X _struct_conn.ptnr2_auth_seq_id 503 _struct_conn.ptnr2_symmetry 1_555 _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 2.711 _struct_conn.pdbx_value_order ? # _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 391 n n N HN1 SAH sing 392 n n N HN2 SAH sing 393 n n CA CB SAH sing 394 n n CA C SAH sing 395 n n CA HA SAH sing 396 n n CB CG SAH sing 397 n n CB HB1 SAH sing 398 n n CB HB2 SAH sing 399 n n CG SD SAH sing 400 n n CG HG1 SAH sing 401 n n CG HG2 SAH sing 402 n n SD C5' SAH sing 403 n n C O SAH doub 404 n n C OXT SAH sing 405 n n OXT HXT SAH sing 406 n n C5' C4' SAH sing 407 n n C5' "H5'1" SAH sing 408 n n C5' "H5'2" SAH sing 409 n n C4' O4' SAH sing 410 n n C4' C3' SAH sing 411 n n C4' H4' SAH sing 412 n n O4' C1' SAH sing 413 n n C3' O3' SAH sing 414 n n C3' C2' SAH sing 415 n n C3' H3' SAH sing 416 n n O3' HO3' SAH sing 417 n n C2' O2' SAH sing 418 n n C2' C1' SAH sing 419 n n C2' H2' SAH sing 420 n n O2' HO2' SAH sing 421 n n C1' N9 SAH sing 422 n n C1' H1' SAH sing 423 n n N9 C8 SAH sing 424 n y N9 C4 SAH sing 425 n y C8 N7 SAH doub 426 n y C8 H8 SAH sing 427 n n N7 C5 SAH sing 428 n y C5 C6 SAH sing 429 n y C5 C4 SAH doub 430 n y C6 N6 SAH sing 431 n n C6 N1 SAH doub 432 n y N6 HN61 SAH sing 433 n n N6 HN62 SAH sing 434 n n N1 C2 SAH sing 435 n y C2 N3 SAH doub 436 n y C2 H2 SAH sing 437 n n N3 C4 SAH sing 438 n y # _atom_sites.entry_id 6P5Z _atom_sites.fract_transf_matrix[1][1] 0.016778 _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] 0.009956 _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] 0.006831 _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 C 2 SAH A 1 501 458 SAH SAH . D 3 F0X A 1 502 1 F0X SIR . E 3 F0X A 1 503 2 F0X SIR . F 4 CL A 1 504 2 CL CL . G 2 SAH B 1 501 458 SAH SAH . H 4 CL B 1 502 1 CL CL . I 5 HOH A 1 601 8 HOH HOH . I 5 HOH A 2 602 24 HOH HOH . I 5 HOH A 3 603 12 HOH HOH . I 5 HOH A 4 604 48 HOH HOH . I 5 HOH A 5 605 23 HOH HOH . I 5 HOH A 6 606 30 HOH HOH . I 5 HOH A 7 607 19 HOH HOH . I 5 HOH A 8 608 21 HOH HOH . I 5 HOH A 9 609 28 HOH HOH . I 5 HOH A 10 610 29 HOH HOH . I 5 HOH A 11 611 13 HOH HOH . I 5 HOH A 12 612 49 HOH HOH . I 5 HOH A 13 613 32 HOH HOH . I 5 HOH A 14 614 22 HOH HOH . I 5 HOH A 15 615 37 HOH HOH . I 5 HOH A 16 616 9 HOH HOH . I 5 HOH A 17 617 36 HOH HOH . I 5 HOH A 18 618 7 HOH HOH . I 5 HOH A 19 619 53 HOH HOH . I 5 HOH A 20 620 15 HOH HOH . I 5 HOH A 21 621 46 HOH HOH . I 5 HOH A 22 622 11 HOH HOH . I 5 HOH A 23 623 25 HOH HOH . I 5 HOH A 24 624 26 HOH HOH . I 5 HOH A 25 625 44 HOH HOH . I 5 HOH A 26 626 45 HOH HOH . I 5 HOH A 27 627 50 HOH HOH . I 5 HOH A 28 628 27 HOH HOH . I 5 HOH A 29 629 52 HOH HOH . J 5 HOH B 1 601 51 HOH HOH . J 5 HOH B 2 602 43 HOH HOH . J 5 HOH B 3 603 16 HOH HOH . J 5 HOH B 4 604 34 HOH HOH . J 5 HOH B 5 605 33 HOH HOH . J 5 HOH B 6 606 17 HOH HOH . J 5 HOH B 7 607 6 HOH HOH . J 5 HOH B 8 608 41 HOH HOH . J 5 HOH B 9 609 10 HOH HOH . J 5 HOH B 10 610 1 HOH HOH . J 5 HOH B 11 611 18 HOH HOH . J 5 HOH B 12 612 39 HOH HOH . J 5 HOH B 13 613 4 HOH HOH . J 5 HOH B 14 614 14 HOH HOH . J 5 HOH B 15 615 20 HOH HOH . J 5 HOH B 16 616 31 HOH HOH . J 5 HOH B 17 617 40 HOH HOH . J 5 HOH B 18 618 35 HOH HOH . J 5 HOH B 19 619 2 HOH HOH . J 5 HOH B 20 620 5 HOH HOH . J 5 HOH B 21 621 3 HOH HOH . J 5 HOH B 22 622 38 HOH HOH . J 5 HOH B 23 623 42 HOH HOH . J 5 HOH B 24 624 47 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 . . . C 2 9.398 1.905 18.188 1 46.82 ? N SAH 501 A 1 HETATM 2 C CA SAH . . . C 2 8.356 1.376 17.313 1 41.1 ? CA SAH 501 A 1 HETATM 3 C CB SAH . . . C 2 8.052 2.324 16.152 1 42.13 ? CB SAH 501 A 1 HETATM 4 C CG SAH . . . C 2 7.754 3.782 16.486 1 54.72 ? CG SAH 501 A 1 HETATM 5 S SD SAH . . . C 2 7.859 4.895 15.038 1 67.45 ? SD SAH 501 A 1 HETATM 6 C C SAH . . . C 2 8.754 0.014 16.762 1 53.65 ? C SAH 501 A 1 HETATM 7 O O SAH . . . C 2 9.832 -0.511 17.093 1 49.99 ? O SAH 501 A 1 HETATM 8 O OXT SAH . . . C 2 7.996 -0.565 15.965 1 53.41 ? OXT SAH 501 A 1 HETATM 9 C C5' SAH . . . C 2 6.099 4.826 14.586 1 61.01 ? C5' SAH 501 A 1 HETATM 10 C C4' SAH . . . C 2 5.891 4.126 13.243 1 62.87 ? C4' SAH 501 A 1 HETATM 11 O O4' SAH . . . C 2 5.985 2.714 13.386 1 56.33 ? O4' SAH 501 A 1 HETATM 12 C C3' SAH . . . C 2 4.524 4.386 12.596 1 53.75 ? C3' SAH 501 A 1 HETATM 13 O O3' SAH . . . C 2 4.517 5.571 11.846 1 62.94 ? O3' SAH 501 A 1 HETATM 14 C C2' SAH . . . C 2 4.339 3.188 11.703 1 61.66 ? C2' SAH 501 A 1 HETATM 15 O O2' SAH . . . C 2 5.041 3.358 10.482 1 65.05 ? O2' SAH 501 A 1 HETATM 16 C C1' SAH . . . C 2 5.075 2.104 12.478 1 58.62 ? C1' SAH 501 A 1 HETATM 17 N N9 SAH . . . C 2 4.159 1.198 13.2 1 54.23 ? N9 SAH 501 A 1 HETATM 18 C C8 SAH . . . C 2 3.987 1.097 14.555 1 53.06 ? C8 SAH 501 A 1 HETATM 19 N N7 SAH . . . C 2 3.054 0.143 14.804 1 50.6 ? N7 SAH 501 A 1 HETATM 20 C C5 SAH . . . C 2 2.629 -0.368 13.626 1 51.72 ? C5 SAH 501 A 1 HETATM 21 C C6 SAH . . . C 2 1.697 -1.355 13.291 1 56.04 ? C6 SAH 501 A 1 HETATM 22 N N6 SAH . . . C 2 1.024 -2.012 14.232 1 56.38 ? N6 SAH 501 A 1 HETATM 23 N N1 SAH . . . C 2 1.468 -1.654 11.961 1 56.54 ? N1 SAH 501 A 1 HETATM 24 C C2 SAH . . . C 2 2.155 -0.981 10.971 1 47.51 ? C2 SAH 501 A 1 HETATM 25 N N3 SAH . . . C 2 3.071 -0.006 11.301 1 44.47 ? N3 SAH 501 A 1 HETATM 26 C C4 SAH . . . C 2 3.31 0.294 12.61 1 52.67 ? C4 SAH 501 A 1 # _model_server_stats.io_time_ms 30 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 26 #