data_5HVK # _model_server_result.job_id 0j6WXOZ6nFiuygX3_Y9THg _model_server_result.datetime_utc '2024-10-10 23:26:34' _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 5hvk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":701}' # _entry.id 5HVK # _exptl.entry_id 5HVK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 5HVK _cell.length_a 81.116 _cell.length_b 102.283 _cell.length_c 141.9 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5HVK _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F 1 1 C,D,G,H 2 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 ? 4 E N N ? 4 G N 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 A C TYR 184 A TYR 507 1_555 A N TPO 185 A TPO 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 A C TPO 185 A TPO 508 1_555 A N VAL 186 A VAL 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale3 B C ALA 1 B ALA 2 1_555 B N SEP 2 B SEP 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale4 B C SEP 2 B SEP 3 1_555 B N GLY 3 B GLY 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale5 C C TYR 184 C TYR 507 1_555 C N TPO 185 C TPO 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 C C TPO 185 C TPO 508 1_555 C N VAL 186 C VAL 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 A O HIS 141 A HIS 464 1_555 F MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc2 E O3' ANP . A ANP 1001 1_555 F MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc3 C OD1 ASN 142 C ASN 465 1_555 H MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.803 ? # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id ANP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 PG O1G ANP doub 13 n n PG O2G ANP sing 14 n n PG O3G ANP sing 15 n n PG N3B ANP sing 16 n n O2G HOG2 ANP sing 17 n n O3G HOG3 ANP sing 18 n n PB O1B ANP doub 19 n n PB O2B ANP sing 20 n n PB N3B ANP sing 21 n n PB O3A ANP sing 22 n n O2B HOB2 ANP sing 23 n n N3B HNB1 ANP sing 24 n n PA O1A ANP doub 25 n n PA O2A ANP sing 26 n n PA O3A ANP sing 27 n n PA O5' ANP sing 28 n n O2A HOA2 ANP sing 29 n n O5' C5' ANP sing 30 n n C5' C4' ANP sing 31 n n C5' "H5'1" ANP sing 32 n n C5' "H5'2" ANP sing 33 n n C4' O4' ANP sing 34 n n C4' C3' ANP sing 35 n n C4' H4' ANP sing 36 n n O4' C1' ANP sing 37 n n C3' O3' ANP sing 38 n n C3' C2' ANP sing 39 n n C3' H3' ANP sing 40 n n O3' HO3' ANP sing 41 n n C2' O2' ANP sing 42 n n C2' C1' ANP sing 43 n n C2' H2' ANP sing 44 n n O2' HO2' ANP sing 45 n n C1' N9 ANP sing 46 n n C1' H1' ANP sing 47 n n N9 C8 ANP sing 48 n y N9 C4 ANP sing 49 n y C8 N7 ANP doub 50 n y C8 H8 ANP sing 51 n n N7 C5 ANP sing 52 n y C5 C6 ANP sing 53 n y C5 C4 ANP doub 54 n y C6 N6 ANP sing 55 n n C6 N1 ANP doub 56 n y N6 HN61 ANP sing 57 n n N6 HN62 ANP sing 58 n n N1 C2 ANP sing 59 n y C2 N3 ANP doub 60 n y C2 H2 ANP sing 61 n n N3 C4 ANP sing 62 n y # _atom_sites.entry_id 5HVK _atom_sites.fract_transf_matrix[1][1] 0.012328 _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] 0.009777 _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] 0.007047 _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 4 ANP A 1 1001 1001 ANP ANP . F 5 MG A 1 1002 1 MG MG . G 4 ANP C 1 701 1000 ANP ANP . H 5 MG C 1 702 2 MG MG . # 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 PG ANP . . . G 4 -20.846 9.1 26.413 1 125.42 ? PG ANP 701 C 1 HETATM 2 O O1G ANP . . . G 4 -20.262 8.076 25.359 1 93.98 ? O1G ANP 701 C 1 HETATM 3 O O2G ANP . . . G 4 -21.063 8.365 27.791 1 92.88 ? O2G ANP 701 C 1 HETATM 4 O O3G ANP . . . G 4 -22.151 9.64 25.922 1 110.51 ? O3G ANP 701 C 1 HETATM 5 P PB ANP . . . G 4 -18.836 10.174 27.997 1 72.71 ? PB ANP 701 C 1 HETATM 6 O O1B ANP . . . G 4 -17.623 9.249 27.689 1 80.59 ? O1B ANP 701 C 1 HETATM 7 O O2B ANP . . . G 4 -19.658 9.542 29.073 1 65.07 ? O2B ANP 701 C 1 HETATM 8 N N3B ANP . . . G 4 -19.744 10.371 26.601 1 83.97 ? N3B ANP 701 C 1 HETATM 9 P PA ANP . . . G 4 -19.194 12.613 29.24 1 76.97 ? PA ANP 701 C 1 HETATM 10 O O1A ANP . . . G 4 -19.641 13.655 28.213 1 87.98 ? O1A ANP 701 C 1 HETATM 11 O O2A ANP . . . G 4 -20.315 11.982 29.977 1 55.57 ? O2A ANP 701 C 1 HETATM 12 O O3A ANP . . . G 4 -18.296 11.56 28.458 1 76.28 ? O3A ANP 701 C 1 HETATM 13 O O5' ANP . . . G 4 -18.211 13.252 30.296 1 38.96 ? O5' ANP 701 C 1 HETATM 14 C C5' ANP . . . G 4 -17.879 12.528 31.488 1 33.55 ? C5' ANP 701 C 1 HETATM 15 C C4' ANP . . . G 4 -16.474 12.865 31.916 1 28.34 ? C4' ANP 701 C 1 HETATM 16 O O4' ANP . . . G 4 -16.538 13.749 33.057 1 30.04 ? O4' ANP 701 C 1 HETATM 17 C C3' ANP . . . G 4 -15.636 11.656 32.336 1 29.78 ? C3' ANP 701 C 1 HETATM 18 O O3' ANP . . . G 4 -14.71 11.291 31.319 1 22.2 ? O3' ANP 701 C 1 HETATM 19 C C2' ANP . . . G 4 -14.921 12.131 33.607 1 30.58 ? C2' ANP 701 C 1 HETATM 20 O O2' ANP . . . G 4 -13.682 12.763 33.311 1 27.18 ? O2' ANP 701 C 1 HETATM 21 C C1' ANP . . . G 4 -15.893 13.165 34.168 1 34.61 ? C1' ANP 701 C 1 HETATM 22 N N9 ANP . . . G 4 -16.909 12.628 35.072 1 21.23 ? N9 ANP 701 C 1 HETATM 23 C C8 ANP . . . G 4 -17.84 11.662 34.791 1 22.94 ? C8 ANP 701 C 1 HETATM 24 N N7 ANP . . . G 4 -18.634 11.376 35.793 1 32.58 ? N7 ANP 701 C 1 HETATM 25 C C5 ANP . . . G 4 -18.2 12.22 36.806 1 18.65 ? C5 ANP 701 C 1 HETATM 26 C C6 ANP . . . G 4 -18.632 12.406 38.132 1 17.59 ? C6 ANP 701 C 1 HETATM 27 N N6 ANP . . . G 4 -19.642 11.729 38.687 1 17.63 ? N6 ANP 701 C 1 HETATM 28 N N1 ANP . . . G 4 -17.982 13.326 38.88 1 21.11 ? N1 ANP 701 C 1 HETATM 29 C C2 ANP . . . G 4 -16.973 14.006 38.329 1 35.19 ? C2 ANP 701 C 1 HETATM 30 N N3 ANP . . . G 4 -16.477 13.915 37.093 1 38.68 ? N3 ANP 701 C 1 HETATM 31 C C4 ANP . . . G 4 -17.139 12.996 36.376 1 22.41 ? C4 ANP 701 C 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #