data_4R3A # _model_server_result.job_id JqkGTzJtrArE60vQecU0tQ _model_server_result.datetime_utc '2024-11-17 16:29:05' _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 4r3a # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 4R3A # _exptl.entry_id 4R3A _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 3 _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 120 _cell.entry_id 4R3A _cell.length_a 98.882 _cell.length_b 98.882 _cell.length_c 422.255 _cell.Z_PDB 36 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4R3A _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,C,D,E 1 1 B,F,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 ? 3 D N N ? 3 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 disulf ? disulf1 A SG CYS 84 A CYS 78 1_555 A SG CYS 117 A CYS 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 B SG CYS 84 B CYS 78 1_555 B SG CYS 117 B CYS 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? metalc ? metalc1 A OD1 ASN 256 A ASN 250 1_555 C MG MG . A MG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc2 C MG MG . A MG 400 1_555 D O2G ANP . A ANP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.879 ? metalc ? metalc3 C MG MG . A MG 400 1_555 D O1A ANP . A ANP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc4 C MG MG . A MG 400 1_555 D O2B ANP . A ANP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc5 B OD1 ASN 256 B ASN 250 1_555 F MG MG . B MG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc6 F MG MG . B MG 400 1_555 G O2G ANP . B ANP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.977 ? metalc ? metalc7 F MG MG . B MG 400 1_555 G O1A ANP . B ANP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc8 F MG MG . B MG 400 1_555 G O2B ANP . B ANP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? # _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 4R3A _atom_sites.fract_transf_matrix[1][1] 0.010113 _atom_sites.fract_transf_matrix[1][2] 0.005839 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011678 _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] 0.002368 _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 MG A 1 400 400 MG MG . D 3 ANP A 1 401 401 ANP ANP . E 4 RBF A 1 402 402 RBF RBF . F 2 MG B 1 400 400 MG MG . G 3 ANP B 1 401 401 ANP ANP . H 4 RBF B 1 402 402 RBF RBF . # 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 . . . D 3 -14.419 22.606 62.079 1 52.94 ? PG ANP 401 A 1 HETATM 2 O O1G ANP . . . D 3 -13.615 23.014 63.266 1 34.81 ? O1G ANP 401 A 1 HETATM 3 O O2G ANP . . . D 3 -15.357 23.8 61.656 1 123.13 ? O2G ANP 401 A 1 HETATM 4 O O3G ANP . . . D 3 -13.475 22.197 60.879 1 182.63 ? O3G ANP 401 A 1 HETATM 5 P PB ANP . . . D 3 -16.897 21.986 62.922 1 39.03 ? PB ANP 401 A 1 HETATM 6 O O1B ANP . . . D 3 -17.607 21.129 63.931 1 25.59 ? O1B ANP 401 A 1 HETATM 7 O O2B ANP . . . D 3 -17.735 22.101 61.617 1 166.29 ? O2B ANP 401 A 1 HETATM 8 N N3B ANP . . . D 3 -15.409 21.318 62.536 1 158.8 ? N3B ANP 401 A 1 HETATM 9 P PA ANP . . . D 3 -17.737 24.587 63.232 1 217.67 ? PA ANP 401 A 1 HETATM 10 O O1A ANP . . . D 3 -17.652 25.01 61.818 1 185.56 ? O1A ANP 401 A 1 HETATM 11 O O2A ANP . . . D 3 -17.4 25.696 64.228 1 192.36 ? O2A ANP 401 A 1 HETATM 12 O O3A ANP . . . D 3 -16.705 23.415 63.518 1 89.66 ? O3A ANP 401 A 1 HETATM 13 O O5' ANP . . . D 3 -19.183 24.007 63.521 1 59.24 ? O5' ANP 401 A 1 HETATM 14 C C5' ANP . . . D 3 -19.859 24.249 64.79 1 71.91 ? C5' ANP 401 A 1 HETATM 15 C C4' ANP . . . D 3 -21.085 23.37 64.96 1 61.17 ? C4' ANP 401 A 1 HETATM 16 O O4' ANP . . . D 3 -22.212 23.963 64.286 1 43.14 ? O4' ANP 401 A 1 HETATM 17 C C3' ANP . . . D 3 -20.998 21.954 64.403 1 45.23 ? C3' ANP 401 A 1 HETATM 18 O O3' ANP . . . D 3 -20.376 21.066 65.327 1 60.37 ? O3' ANP 401 A 1 HETATM 19 C C2' ANP . . . D 3 -22.469 21.596 64.171 1 53.31 ? C2' ANP 401 A 1 HETATM 20 O O2' ANP . . . D 3 -23.086 21.035 65.324 1 40.33 ? O2' ANP 401 A 1 HETATM 21 C C1' ANP . . . D 3 -23.092 22.955 63.821 1 31.92 ? C1' ANP 401 A 1 HETATM 22 N N9 ANP . . . D 3 -23.303 23.16 62.389 1 35.26 ? N9 ANP 401 A 1 HETATM 23 C C8 ANP . . . D 3 -22.522 23.902 61.549 1 23.13 ? C8 ANP 401 A 1 HETATM 24 N N7 ANP . . . D 3 -22.941 23.925 60.303 1 25.52 ? N7 ANP 401 A 1 HETATM 25 C C5 ANP . . . D 3 -24.084 23.131 60.337 1 29.1 ? C5 ANP 401 A 1 HETATM 26 C C6 ANP . . . D 3 -24.995 22.753 59.33 1 27.64 ? C6 ANP 401 A 1 HETATM 27 N N6 ANP . . . D 3 -24.899 23.132 58.055 1 32.04 ? N6 ANP 401 A 1 HETATM 28 N N1 ANP . . . D 3 -26.026 21.953 59.693 1 35.1 ? N1 ANP 401 A 1 HETATM 29 C C2 ANP . . . D 3 -26.127 21.572 60.97 1 44.87 ? C2 ANP 401 A 1 HETATM 30 N N3 ANP . . . D 3 -25.329 21.868 61.999 1 53.5 ? N3 ANP 401 A 1 HETATM 31 C C4 ANP . . . D 3 -24.315 22.655 61.613 1 39.23 ? C4 ANP 401 A 1 HETATM 32 H HNB1 ANP . . . D 3 -15.505 20.747 61.837 1 190.56 ? HNB1 ANP 401 A 1 HETATM 33 H "H5'1" ANP . . . D 3 -20.127 25.183 64.832 1 86.29 ? "H5'1" ANP 401 A 1 HETATM 34 H "H5'2" ANP . . . D 3 -19.233 24.066 65.523 1 86.29 ? "H5'2" ANP 401 A 1 HETATM 35 H H4' ANP . . . D 3 -21.326 23.312 65.907 1 73.4 ? H4' ANP 401 A 1 HETATM 36 H H3' ANP . . . D 3 -20.528 21.973 63.566 1 54.28 ? H3' ANP 401 A 1 HETATM 37 H HO3' ANP . . . D 3 -19.504 21.038 65.169 1 72.44 ? HO3' ANP 401 A 1 HETATM 38 H H2' ANP . . . D 3 -22.552 21.013 63.407 1 63.97 ? H2' ANP 401 A 1 HETATM 39 H HO2' ANP . . . D 3 -22.463 20.701 65.862 1 48.4 ? HO2' ANP 401 A 1 HETATM 40 H H1' ANP . . . D 3 -23.937 23.022 64.292 1 38.3 ? H1' ANP 401 A 1 HETATM 41 H H8 ANP . . . D 3 -21.741 24.368 61.843 1 27.76 ? H8 ANP 401 A 1 HETATM 42 H HN61 ANP . . . D 3 -24.193 23.661 57.782 1 38.45 ? HN61 ANP 401 A 1 HETATM 43 H HN62 ANP . . . D 3 -25.532 22.868 57.451 1 38.45 ? HN62 ANP 401 A 1 HETATM 44 H H2 ANP . . . D 3 -26.884 21 61.178 1 53.84 ? H2 ANP 401 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 220 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 44 #