data_9MF6 # _model_server_result.job_id 0aPsSGSiAAiN03ytmck4Cg _model_server_result.datetime_utc '2025-01-10 08:03:06' _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 9mf6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":505}' # _entry.id 9MF6 # _exptl.entry_id 9MF6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 177.975 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description PYROPHOSPHATE _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 9MF6 _cell.length_a 86.96 _cell.length_b 86.96 _cell.length_c 473.874 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9MF6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,N,O,P,Q,R _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 5 _struct_asym.id I _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 OD1 ASP 122 A ASP 114 1_555 H MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? metalc ? metalc2 H MG MG . A MG 504 1_555 I OPP PPV . A PPV 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.733 ? # _chem_comp.formula 'H4 O7 P2' _chem_comp.formula_weight 177.975 _chem_comp.id PPV _chem_comp.mon_nstd_flag . _chem_comp.name PYROPHOSPHATE _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 O11 P1 PPV sing 324 n n O11 H11 PPV sing 325 n n P1 O21 PPV sing 326 n n P1 O31 PPV doub 327 n n P1 OPP PPV sing 328 n n O21 H21 PPV sing 329 n n OPP P2 PPV sing 330 n n P2 O12 PPV sing 331 n n P2 O22 PPV doub 332 n n P2 O32 PPV sing 333 n n O12 H12 PPV sing 334 n n O32 H32 PPV sing 335 n n # _atom_sites.entry_id 9MF6 _atom_sites.fract_transf_matrix[1][1] 0.0115 _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] 0.0115 _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] 0.00211 _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 E 2 HSX A 1 501 505 HSX HSX . F 3 AMP A 1 502 507 AMP AMP . G 3 AMP A 1 503 509 AMP AMP . H 4 MG A 1 504 1 MG MG . I 5 PPV A 1 505 501 PPV PPV . J 2 HSX B 1 501 504 HSX HSX . K 3 AMP B 1 502 508 AMP AMP . L 3 AMP B 1 503 510 AMP AMP . M 2 HSX C 1 501 503 HSX HSX . N 2 HSX D 1 501 506 HSX HSX . O 6 HOH A 1 601 14 HOH HOH . O 6 HOH A 2 602 3 HOH HOH . O 6 HOH A 3 603 5 HOH HOH . O 6 HOH A 4 604 17 HOH HOH . O 6 HOH A 5 605 1 HOH HOH . P 6 HOH B 1 601 28 HOH HOH . P 6 HOH B 2 602 10 HOH HOH . P 6 HOH B 3 603 8 HOH HOH . P 6 HOH B 4 604 26 HOH HOH . P 6 HOH B 5 605 6 HOH HOH . P 6 HOH B 6 606 11 HOH HOH . P 6 HOH B 7 607 13 HOH HOH . P 6 HOH B 8 608 20 HOH HOH . P 6 HOH B 9 609 21 HOH HOH . P 6 HOH B 10 610 16 HOH HOH . Q 6 HOH C 1 601 19 HOH HOH . Q 6 HOH C 2 602 15 HOH HOH . Q 6 HOH C 3 603 7 HOH HOH . Q 6 HOH C 4 604 27 HOH HOH . Q 6 HOH C 5 605 9 HOH HOH . Q 6 HOH C 6 606 18 HOH HOH . Q 6 HOH C 7 607 4 HOH HOH . Q 6 HOH C 8 608 22 HOH HOH . Q 6 HOH C 9 609 23 HOH HOH . R 6 HOH D 1 601 12 HOH HOH . R 6 HOH D 2 602 25 HOH HOH . R 6 HOH D 3 603 2 HOH HOH . R 6 HOH D 4 604 24 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 O O11 PPV . . . I 5 17.612 -17.395 -25.419 1 125.34 ? O11 PPV 505 A 1 HETATM 2 P P1 PPV . . . I 5 19.006 -17.413 -26.051 1 120.66 ? P1 PPV 505 A 1 HETATM 3 O O21 PPV . . . I 5 19.965 -16.387 -25.436 1 114.5 ? O21 PPV 505 A 1 HETATM 4 O O31 PPV . . . I 5 18.973 -17.344 -27.58 1 115.74 ? O31 PPV 505 A 1 HETATM 5 O OPP PPV . . . I 5 19.721 -18.856 -25.639 1 111.26 ? OPP PPV 505 A 1 HETATM 6 P P2 PPV . . . I 5 20.934 -19.826 -26.23 1 100.06 ? P2 PPV 505 A 1 HETATM 7 O O12 PPV . . . I 5 22.046 -18.899 -26.727 1 109.27 ? O12 PPV 505 A 1 HETATM 8 O O22 PPV . . . I 5 21.388 -20.744 -25.101 1 99.82 ? O22 PPV 505 A 1 HETATM 9 O O32 PPV . . . I 5 20.221 -20.57 -27.359 1 107.66 ? O32 PPV 505 A 1 # _model_server_stats.io_time_ms 32 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 9 #