data_6OVY # _model_server_result.job_id 2OPpYpZ-snynOeMOZsECGg _model_server_result.datetime_utc '2024-11-09 01:50:06' _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 6ovy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":1601}' # _entry.id 6OVY # _exptl.entry_id 6OVY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 175.959 _entity.id 9 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PYROPHOSPHATE 2-' _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 98.8 _cell.angle_gamma 90 _cell.entry_id 6OVY _cell.length_a 184.83 _cell.length_b 102.479 _cell.length_c 295.596 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6OVY _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details nonameric _pdbx_struct_assembly.oligomeric_count 9 _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,K,L,M _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 9 _struct_asym.id J _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 I O3' GTP 1 I GTP 2 1_555 I P G 2 I G 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.629 ? metalc ? metalc1 D SG CYS 58 D CYS 58 1_555 L ZN ZN . D ZN 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.608 ? metalc ? metalc2 D SG CYS 60 D CYS 60 1_555 L ZN ZN . D ZN 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc3 D SG CYS 73 D CYS 73 1_555 L ZN ZN . D ZN 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.215 ? metalc ? metalc4 D SG CYS 76 D CYS 76 1_555 L ZN ZN . D ZN 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc5 D OD1 ASP 739 D ASP 739 1_555 K MG MG . D MG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.929 ? metalc ? metalc6 D OD1 ASP 741 D ASP 741 1_555 K MG MG . D MG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? metalc ? metalc7 D OD2 ASP 741 D ASP 741 1_555 K MG MG . D MG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.66 ? metalc ? metalc8 D OD1 ASP 743 D ASP 743 1_555 K MG MG . D MG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? metalc ? metalc9 D SG CYS 1112 D CYS 1112 1_555 M ZN ZN . D ZN 1604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc10 D SG CYS 1194 D CYS 1194 1_555 M ZN ZN . D ZN 1604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc11 D SG CYS 1201 D CYS 1201 1_555 M ZN ZN . D ZN 1604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? metalc ? metalc12 D SG CYS 1204 D CYS 1204 1_555 M ZN ZN . D ZN 1604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? metalc ? metalc13 K MG MG . D MG 1602 1_555 I O3' G 4 I G 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? hydrog 'DC-DG PAIR' hydrog1 G O2 DC 5 G DC 3 1_555 H N1 DG 23 H DG 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 G N1 DA 6 G DA 4 1_555 H N3 DT 22 H DT 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 G N6 DA 6 G DA 4 1_555 H O4 DT 22 H DT 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 G N3 DT 7 G DT 5 1_555 H N1 DA 21 H DA 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 G O4 DT 7 G DT 5 1_555 H N6 DA 21 H DA 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 G N3 DC 8 G DC 6 1_555 H N1 DG 20 H DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 G N4 DC 8 G DC 6 1_555 H O6 DG 20 H DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 G O2 DC 8 G DC 6 1_555 H N2 DG 20 H DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 G N1 DA 9 G DA 7 1_555 H N3 DT 19 H DT 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 G N6 DA 9 G DA 7 1_555 H O4 DT 19 H DT 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 G N1 DG 10 G DG 8 1_555 H N3 DC 18 H DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 G N2 DG 10 G DG 8 1_555 H O2 DC 18 H DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 G O6 DG 10 G DG 8 1_555 H N4 DC 18 H DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 G N1 DA 11 G DA 9 1_555 H N3 DT 17 H DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 G N6 DA 11 G DA 9 1_555 H O4 DT 17 H DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 G N3 DC 13 G DC 11 1_555 I N1 G 4 I G 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 G N4 DC 13 G DC 11 1_555 I O6 G 4 I G 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 G O2 DC 13 G DC 11 1_555 I N2 G 4 I G 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 G N3 DC 14 G DC 12 1_555 I N1 G 3 I G 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 G N4 DC 14 G DC 12 1_555 I O6 G 3 I G 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 G O2 DC 14 G DC 12 1_555 I N2 G 3 I G 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 G N3 DC 15 G DC 13 1_555 I N1 G 2 I G 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 G N4 DC 15 G DC 13 1_555 I O6 G 2 I G 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 G O2 DC 15 G DC 13 1_555 I N2 G 2 I G 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 G N3 DC 16 G DC 14 1_555 I N1 GTP 1 I GTP 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 G N4 DC 16 G DC 14 1_555 I O6 GTP 1 I GTP 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 G O2 DC 16 G DC 14 1_555 I N2 GTP 1 I GTP 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'H2 O7 P2 -2' _chem_comp.formula_weight 175.959 _chem_comp.id POP _chem_comp.mon_nstd_flag . _chem_comp.name 'PYROPHOSPHATE 2-' _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 P1 O1 POP doub 497 n n P1 O2 POP sing 498 n n P1 O3 POP sing 499 n n P1 O POP sing 500 n n O2 HO2 POP sing 501 n n O P2 POP sing 502 n n P2 O4 POP doub 503 n n P2 O5 POP sing 504 n n P2 O6 POP sing 505 n n O5 HO5 POP sing 506 n n # _atom_sites.entry_id 6OVY _atom_sites.fract_transf_matrix[1][1] 0.00541 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000838 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009758 _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] 0.003423 _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 J 9 POP D 1 1601 1201 POP POP . K 10 MG D 1 1602 2001 MG MG . L 11 ZN D 1 1603 3001 ZN ZN . M 11 ZN D 1 1604 3002 ZN ZN . # 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 P P1 POP . . . J 9 641.13 3.165 674.119 1 101.35 ? P1 POP 1601 D 1 HETATM 2 O O1 POP . . . J 9 639.728 3.238 673.643 1 92.66 ? O1 POP 1601 D 1 HETATM 3 O O2 POP . . . J 9 641.467 1.919 674.831 1 84.9 ? O2 POP 1601 D 1 HETATM 4 O O3 POP . . . J 9 641.594 4.356 674.832 1 90.71 ? O3 POP 1601 D 1 HETATM 5 O O POP . . . J 9 642.017 3.146 672.799 1 116.85 ? O POP 1601 D 1 HETATM 6 P P2 POP . . . J 9 642.452 4.406 671.898 1 124.79 ? P2 POP 1601 D 1 HETATM 7 O O4 POP . . . J 9 641.314 4.672 670.969 1 102.57 ? O4 POP 1601 D 1 HETATM 8 O O5 POP . . . J 9 643.648 3.855 671.174 1 91.55 ? O5 POP 1601 D 1 HETATM 9 O O6 POP . . . J 9 642.704 5.523 672.866 1 100.16 ? O6 POP 1601 D 1 # _model_server_stats.io_time_ms 47 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 37 _model_server_stats.query_time_ms 332 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 9 #