data_7QW7 # _model_server_result.job_id AO_vbd422HKysB2bnqaT8w _model_server_result.datetime_utc '2024-10-11 10:16:56' _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 7qw7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":601}' # _entry.id 7QW7 # _exptl.entry_id 7QW7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 4 _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 120 _cell.entry_id 7QW7 _cell.length_a 88.01 _cell.length_b 88.01 _cell.length_c 155.481 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7QW7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall 'P 61' _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 4 _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 B O3' DG 6 Z DG 6 1_555 B P 6MA 7 Z 6MA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.604 ? covale ? covale2 B O3' 6MA 7 Z 6MA 7 1_555 B P DT 8 Z DT 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.606 ? covale ? covale3 C O3' DG 6 Y DG 16 1_555 C P 6MA 7 Y 6MA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.6 ? covale ? covale4 C O3' 6MA 7 Y 6MA 17 1_555 C P DT 8 Y DT 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.608 ? hydrog WATSON-CRICK hydrog1 B N1 DG 1 Z DG 1 1_555 C N3 DC 10 Y DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N2 DG 1 Z DG 1 1_555 C O2 DC 10 Y DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B O6 DG 1 Z DG 1 1_555 C N4 DC 10 Y DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N3 DC 2 Z DC 2 1_555 C N1 DG 9 Y DG 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B N4 DC 2 Z DC 2 1_555 C O6 DG 9 Y DG 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B O2 DC 2 Z DC 2 1_555 C N2 DG 9 Y DG 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B N1 DA 3 Z DA 3 1_555 C N3 DT 8 Y DT 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B N6 DA 3 Z DA 3 1_555 C O4 DT 8 Y DT 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B N3 DT 4 Z DT 4 1_555 C N1 6MA 7 Y 6MA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 B O4 DT 4 Z DT 4 1_555 C N6 6MA 7 Y 6MA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 B N3 DC 5 Z DC 5 1_555 C N1 DG 6 Y DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 B N4 DC 5 Z DC 5 1_555 C O6 DG 6 Y DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 B O2 DC 5 Z DC 5 1_555 C N2 DG 6 Y DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 B N1 DG 6 Z DG 6 1_555 C N3 DC 5 Y DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 B N2 DG 6 Z DG 6 1_555 C O2 DC 5 Y DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 B O6 DG 6 Z DG 6 1_555 C N4 DC 5 Y DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 B N3 DT 8 Z DT 8 1_555 C N1 DA 3 Y DA 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 B O4 DT 8 Z DT 8 1_555 C N6 DA 3 Y DA 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DC-DG PAIR' hydrog19 B O2 DC 9 Z DC 9 1_555 C N2 DG 2 Y DG 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 B N1 DG 10 Z DG 10 1_555 C N3 DC 1 Y DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 B N2 DG 10 Z DG 10 1_555 C O2 DC 1 Y DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 B O6 DG 10 Z DG 10 1_555 C N4 DC 1 Y DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 467 n n N HN1 SAH sing 468 n n N HN2 SAH sing 469 n n CA CB SAH sing 470 n n CA C SAH sing 471 n n CA HA SAH sing 472 n n CB CG SAH sing 473 n n CB HB1 SAH sing 474 n n CB HB2 SAH sing 475 n n CG SD SAH sing 476 n n CG HG1 SAH sing 477 n n CG HG2 SAH sing 478 n n SD C5' SAH sing 479 n n C O SAH doub 480 n n C OXT SAH sing 481 n n OXT HXT SAH sing 482 n n C5' C4' SAH sing 483 n n C5' "H5'1" SAH sing 484 n n C5' "H5'2" SAH sing 485 n n C4' O4' SAH sing 486 n n C4' C3' SAH sing 487 n n C4' H4' SAH sing 488 n n O4' C1' SAH sing 489 n n C3' O3' SAH sing 490 n n C3' C2' SAH sing 491 n n C3' H3' SAH sing 492 n n O3' HO3' SAH sing 493 n n C2' O2' SAH sing 494 n n C2' C1' SAH sing 495 n n C2' H2' SAH sing 496 n n O2' HO2' SAH sing 497 n n C1' N9 SAH sing 498 n n C1' H1' SAH sing 499 n n N9 C8 SAH sing 500 n y N9 C4 SAH sing 501 n y C8 N7 SAH doub 502 n y C8 H8 SAH sing 503 n n N7 C5 SAH sing 504 n y C5 C6 SAH sing 505 n y C5 C4 SAH doub 506 n y C6 N6 SAH sing 507 n n C6 N1 SAH doub 508 n y N6 HN61 SAH sing 509 n n N6 HN62 SAH sing 510 n n N1 C2 SAH sing 511 n y C2 N3 SAH doub 512 n y C2 H2 SAH sing 513 n n N3 C4 SAH sing 514 n y # _atom_sites.entry_id 7QW7 _atom_sites.fract_transf_matrix[1][1] 0.011362 _atom_sites.fract_transf_matrix[1][2] 0.00656 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01312 _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] 0.006432 _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 4 SAH A 1 601 1 SAH SAH . E 5 HOH A 1 701 35 HOH HOH . E 5 HOH A 2 702 34 HOH HOH . E 5 HOH A 3 703 36 HOH HOH . E 5 HOH A 4 704 13 HOH HOH . E 5 HOH A 5 705 5 HOH HOH . E 5 HOH A 6 706 14 HOH HOH . E 5 HOH A 7 707 6 HOH HOH . E 5 HOH A 8 708 38 HOH HOH . E 5 HOH A 9 709 21 HOH HOH . E 5 HOH A 10 710 8 HOH HOH . E 5 HOH A 11 711 33 HOH HOH . E 5 HOH A 12 712 45 HOH HOH . E 5 HOH A 13 713 10 HOH HOH . E 5 HOH A 14 714 32 HOH HOH . E 5 HOH A 15 715 7 HOH HOH . E 5 HOH A 16 716 27 HOH HOH . E 5 HOH A 17 717 22 HOH HOH . E 5 HOH A 18 718 44 HOH HOH . E 5 HOH A 19 719 26 HOH HOH . E 5 HOH A 20 720 24 HOH HOH . E 5 HOH A 21 721 11 HOH HOH . E 5 HOH A 22 722 46 HOH HOH . E 5 HOH A 23 723 41 HOH HOH . E 5 HOH A 24 724 28 HOH HOH . E 5 HOH A 25 725 30 HOH HOH . E 5 HOH A 26 726 1 HOH HOH . E 5 HOH A 27 727 2 HOH HOH . E 5 HOH A 28 728 15 HOH HOH . E 5 HOH A 29 729 20 HOH HOH . E 5 HOH A 30 730 18 HOH HOH . E 5 HOH A 31 731 17 HOH HOH . E 5 HOH A 32 732 37 HOH HOH . E 5 HOH A 33 733 31 HOH HOH . E 5 HOH A 34 734 39 HOH HOH . E 5 HOH A 35 735 47 HOH HOH . E 5 HOH A 36 736 40 HOH HOH . E 5 HOH A 37 737 42 HOH HOH . E 5 HOH A 38 738 25 HOH HOH . F 5 HOH Z 1 101 4 HOH HOH . F 5 HOH Z 2 102 12 HOH HOH . F 5 HOH Z 3 103 23 HOH HOH . F 5 HOH Z 4 104 9 HOH HOH . F 5 HOH Z 5 105 43 HOH HOH . F 5 HOH Z 6 106 3 HOH HOH . G 5 HOH Y 1 101 16 HOH HOH . G 5 HOH Y 2 102 19 HOH HOH . G 5 HOH Y 3 103 29 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 4 73.014 76.465 7.915 1 60.16 ? N SAH 601 A 1 HETATM 2 C CA SAH . . . D 4 73.293 77.115 9.211 1 57.7 ? CA SAH 601 A 1 HETATM 3 C CB SAH . . . D 4 72.019 77.218 10.046 1 59.81 ? CB SAH 601 A 1 HETATM 4 C CG SAH . . . D 4 71.058 76.1 9.812 1 55.04 ? CG SAH 601 A 1 HETATM 5 S SD SAH . . . D 4 69.59 76.296 10.823 1 74.78 ? SD SAH 601 A 1 HETATM 6 C C SAH . . . D 4 74.34 76.293 9.956 1 62.14 ? C SAH 601 A 1 HETATM 7 O O SAH . . . D 4 74.452 75.112 9.64 1 60.86 ? O SAH 601 A 1 HETATM 8 O OXT SAH . . . D 4 74.997 76.868 10.809 1 64.92 ? OXT SAH 601 A 1 HETATM 9 C C5' SAH . . . D 4 68.307 76.247 9.562 1 58.36 ? C5' SAH 601 A 1 HETATM 10 C C4' SAH . . . D 4 68.036 77.614 9.002 1 55.61 ? C4' SAH 601 A 1 HETATM 11 O O4' SAH . . . D 4 67.23 77.471 7.815 1 58.14 ? O4' SAH 601 A 1 HETATM 12 C C3' SAH . . . D 4 67.265 78.541 9.941 1 54.28 ? C3' SAH 601 A 1 HETATM 13 O O3' SAH . . . D 4 67.988 79.74 10.177 1 63.37 ? O3' SAH 601 A 1 HETATM 14 C C2' SAH . . . D 4 65.945 78.816 9.215 1 56.62 ? C2' SAH 601 A 1 HETATM 15 O O2' SAH . . . D 4 65.535 80.157 9.356 1 51.67 ? O2' SAH 601 A 1 HETATM 16 C C1' SAH . . . D 4 66.304 78.522 7.766 1 60.05 ? C1' SAH 601 A 1 HETATM 17 N N9 SAH . . . D 4 65.176 78.075 6.965 1 52.65 ? N9 SAH 601 A 1 HETATM 18 C C8 SAH . . . D 4 64.213 77.182 7.351 1 54.06 ? C8 SAH 601 A 1 HETATM 19 N N7 SAH . . . D 4 63.318 76.958 6.427 1 49.27 ? N7 SAH 601 A 1 HETATM 20 C C5 SAH . . . D 4 63.72 77.746 5.363 1 53.62 ? C5 SAH 601 A 1 HETATM 21 C C6 SAH . . . D 4 63.18 77.943 4.082 1 54.16 ? C6 SAH 601 A 1 HETATM 22 N N6 SAH . . . D 4 62.084 77.331 3.651 1 50.46 ? N6 SAH 601 A 1 HETATM 23 N N1 SAH . . . D 4 63.826 78.793 3.254 1 53.56 ? N1 SAH 601 A 1 HETATM 24 C C2 SAH . . . D 4 64.932 79.398 3.701 1 46.77 ? C2 SAH 601 A 1 HETATM 25 N N3 SAH . . . D 4 65.528 79.293 4.883 1 51.76 ? N3 SAH 601 A 1 HETATM 26 C C4 SAH . . . D 4 64.867 78.44 5.679 1 56.3 ? C4 SAH 601 A 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 26 #