data_2XE8 # _model_server_result.job_id -0YlPo7xV6nTO7c0U1KAVw _model_server_result.datetime_utc '2025-01-25 13:48:21' _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 2xe8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1418}' # _entry.id 2XE8 # _exptl.entry_id 2XE8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _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 2XE8 _cell.length_a 59.32 _cell.length_b 71.17 _cell.length_c 91.47 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2XE8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C11 H18 N5 O12 P3' _chem_comp.formula_weight 505.208 _chem_comp.id ACP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE" # 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 ACP doub 18 n n PG O2G ACP sing 19 n n PG O3G ACP sing 20 n n PG C3B ACP sing 21 n n O2G HOG2 ACP sing 22 n n O3G HOG3 ACP sing 23 n n PB O1B ACP doub 24 n n PB O2B ACP sing 25 n n PB C3B ACP sing 26 n n PB O3A ACP sing 27 n n O2B HOB2 ACP sing 28 n n C3B H3B1 ACP sing 29 n n C3B H3B2 ACP sing 30 n n PA O1A ACP doub 31 n n PA O2A ACP sing 32 n n PA O3A ACP sing 33 n n PA O5' ACP sing 34 n n O2A HOA2 ACP sing 35 n n O5' C5' ACP sing 36 n n C5' C4' ACP sing 37 n n C5' "H5'1" ACP sing 38 n n C5' "H5'2" ACP sing 39 n n C4' O4' ACP sing 40 n n C4' C3' ACP sing 41 n n C4' H4' ACP sing 42 n n O4' C1' ACP sing 43 n n C3' O3' ACP sing 44 n n C3' C2' ACP sing 45 n n C3' H3' ACP sing 46 n n O3' HO3' ACP sing 47 n n C2' O2' ACP sing 48 n n C2' C1' ACP sing 49 n n C2' H2' ACP sing 50 n n O2' HO2' ACP sing 51 n n C1' N9 ACP sing 52 n n C1' H1' ACP sing 53 n n N9 C8 ACP sing 54 n y N9 C4 ACP sing 55 n y C8 N7 ACP doub 56 n y C8 H8 ACP sing 57 n n N7 C5 ACP sing 58 n y C5 C6 ACP sing 59 n y C5 C4 ACP doub 60 n y C6 N6 ACP sing 61 n n C6 N1 ACP doub 62 n y N6 HN61 ACP sing 63 n n N6 HN62 ACP sing 64 n n N1 C2 ACP sing 65 n y C2 N3 ACP doub 66 n y C2 H2 ACP sing 67 n n N3 C4 ACP sing 68 n y # _atom_sites.entry_id 2XE8 _atom_sites.fract_transf_matrix[1][1] 0.016858 _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] 0.014051 _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] 0.010933 _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 B 2 3PG A 1 1417 1417 3PG 3PG . C 3 ACP A 1 1418 1418 ACP ACP . D 4 HOH A 1 2001 2001 HOH HOH . D 4 HOH A 2 2002 2002 HOH HOH . D 4 HOH A 3 2003 2003 HOH HOH . D 4 HOH A 4 2004 2004 HOH HOH . D 4 HOH A 5 2005 2005 HOH HOH . D 4 HOH A 6 2006 2006 HOH HOH . D 4 HOH A 7 2007 2007 HOH HOH . D 4 HOH A 8 2008 2008 HOH HOH . D 4 HOH A 9 2009 2009 HOH HOH . D 4 HOH A 10 2010 2010 HOH HOH . D 4 HOH A 11 2011 2011 HOH HOH . D 4 HOH A 12 2012 2012 HOH HOH . D 4 HOH A 13 2013 2013 HOH HOH . D 4 HOH A 14 2014 2014 HOH HOH . D 4 HOH A 15 2015 2015 HOH HOH . D 4 HOH A 16 2016 2016 HOH HOH . D 4 HOH A 17 2017 2017 HOH HOH . D 4 HOH A 18 2018 2018 HOH HOH . D 4 HOH A 19 2019 2019 HOH HOH . D 4 HOH A 20 2020 2020 HOH HOH . D 4 HOH A 21 2021 2021 HOH HOH . D 4 HOH A 22 2022 2022 HOH HOH . D 4 HOH A 23 2023 2023 HOH HOH . D 4 HOH A 24 2024 2024 HOH HOH . D 4 HOH A 25 2025 2025 HOH HOH . D 4 HOH A 26 2026 2026 HOH HOH . D 4 HOH A 27 2027 2027 HOH HOH . D 4 HOH A 28 2028 2028 HOH HOH . D 4 HOH A 29 2029 2029 HOH HOH . D 4 HOH A 30 2030 2030 HOH HOH . D 4 HOH A 31 2031 2031 HOH HOH . D 4 HOH A 32 2032 2032 HOH HOH . D 4 HOH A 33 2033 2033 HOH HOH . D 4 HOH A 34 2034 2034 HOH HOH . D 4 HOH A 35 2035 2035 HOH HOH . D 4 HOH A 36 2036 2036 HOH HOH . D 4 HOH A 37 2037 2037 HOH HOH . D 4 HOH A 38 2038 2038 HOH HOH . D 4 HOH A 39 2039 2039 HOH HOH . D 4 HOH A 40 2040 2040 HOH HOH . D 4 HOH A 41 2041 2041 HOH HOH . D 4 HOH A 42 2042 2042 HOH HOH . D 4 HOH A 43 2043 2043 HOH HOH . D 4 HOH A 44 2044 2044 HOH HOH . D 4 HOH A 45 2045 2045 HOH HOH . D 4 HOH A 46 2046 2046 HOH HOH . D 4 HOH A 47 2047 2047 HOH HOH . D 4 HOH A 48 2048 2048 HOH HOH . D 4 HOH A 49 2049 2049 HOH HOH . D 4 HOH A 50 2050 2050 HOH HOH . D 4 HOH A 51 2051 2051 HOH HOH . D 4 HOH A 52 2052 2052 HOH HOH . D 4 HOH A 53 2053 2053 HOH HOH . D 4 HOH A 54 2054 2054 HOH HOH . D 4 HOH A 55 2055 2055 HOH HOH . D 4 HOH A 56 2056 2056 HOH HOH . D 4 HOH A 57 2057 2057 HOH HOH . D 4 HOH A 58 2058 2058 HOH HOH . D 4 HOH A 59 2059 2059 HOH HOH . D 4 HOH A 60 2060 2060 HOH HOH . D 4 HOH A 61 2061 2061 HOH HOH . D 4 HOH A 62 2062 2062 HOH HOH . D 4 HOH A 63 2063 2063 HOH HOH . D 4 HOH A 64 2064 2064 HOH HOH . D 4 HOH A 65 2065 2065 HOH HOH . D 4 HOH A 66 2066 2066 HOH HOH . D 4 HOH A 67 2067 2067 HOH HOH . D 4 HOH A 68 2068 2068 HOH HOH . D 4 HOH A 69 2069 2069 HOH HOH . D 4 HOH A 70 2070 2070 HOH HOH . D 4 HOH A 71 2071 2071 HOH HOH . D 4 HOH A 72 2072 2072 HOH HOH . D 4 HOH A 73 2073 2073 HOH HOH . D 4 HOH A 74 2074 2074 HOH HOH . D 4 HOH A 75 2075 2075 HOH HOH . D 4 HOH A 76 2076 2076 HOH HOH . D 4 HOH A 77 2077 2077 HOH HOH . D 4 HOH A 78 2078 2078 HOH HOH . D 4 HOH A 79 2079 2079 HOH HOH . D 4 HOH A 80 2080 2080 HOH HOH . D 4 HOH A 81 2081 2081 HOH HOH . D 4 HOH A 82 2082 2082 HOH HOH . D 4 HOH A 83 2083 2083 HOH HOH . D 4 HOH A 84 2084 2084 HOH HOH . D 4 HOH A 85 2085 2085 HOH HOH . D 4 HOH A 86 2086 2086 HOH HOH . D 4 HOH A 87 2087 2087 HOH HOH . D 4 HOH A 88 2088 2088 HOH HOH . D 4 HOH A 89 2089 2089 HOH HOH . D 4 HOH A 90 2090 2090 HOH HOH . D 4 HOH A 91 2091 2091 HOH HOH . D 4 HOH A 92 2092 2092 HOH HOH . D 4 HOH A 93 2093 2093 HOH HOH . D 4 HOH A 94 2094 2094 HOH HOH . D 4 HOH A 95 2095 2095 HOH HOH . D 4 HOH A 96 2096 2096 HOH HOH . D 4 HOH A 97 2097 2097 HOH HOH . D 4 HOH A 98 2098 2098 HOH HOH . D 4 HOH A 99 2099 2099 HOH HOH . D 4 HOH A 100 2100 2100 HOH HOH . D 4 HOH A 101 2101 2101 HOH HOH . D 4 HOH A 102 2102 2102 HOH HOH . D 4 HOH A 103 2103 2103 HOH HOH . D 4 HOH A 104 2104 2104 HOH HOH . D 4 HOH A 105 2105 2105 HOH HOH . D 4 HOH A 106 2106 2106 HOH HOH . D 4 HOH A 107 2107 2107 HOH HOH . D 4 HOH A 108 2108 2108 HOH HOH . D 4 HOH A 109 2109 2109 HOH HOH . D 4 HOH A 110 2110 2110 HOH HOH . D 4 HOH A 111 2111 2111 HOH HOH . D 4 HOH A 112 2112 2112 HOH HOH . D 4 HOH A 113 2113 2113 HOH HOH . D 4 HOH A 114 2114 2114 HOH HOH . D 4 HOH A 115 2115 2115 HOH HOH . D 4 HOH A 116 2116 2116 HOH HOH . D 4 HOH A 117 2117 2117 HOH HOH . D 4 HOH A 118 2118 2118 HOH HOH . D 4 HOH A 119 2119 2119 HOH HOH . D 4 HOH A 120 2120 2120 HOH HOH . D 4 HOH A 121 2121 2121 HOH HOH . D 4 HOH A 122 2122 2122 HOH HOH . D 4 HOH A 123 2123 2123 HOH HOH . D 4 HOH A 124 2124 2124 HOH HOH . D 4 HOH A 125 2125 2125 HOH HOH . D 4 HOH A 126 2126 2126 HOH HOH . D 4 HOH A 127 2127 2127 HOH HOH . D 4 HOH A 128 2128 2128 HOH HOH . D 4 HOH A 129 2129 2129 HOH HOH . D 4 HOH A 130 2130 2130 HOH HOH . D 4 HOH A 131 2131 2131 HOH HOH . D 4 HOH A 132 2132 2132 HOH HOH . D 4 HOH A 133 2133 2133 HOH HOH . D 4 HOH A 134 2134 2134 HOH HOH . D 4 HOH A 135 2135 2135 HOH HOH . D 4 HOH A 136 2136 2136 HOH HOH . D 4 HOH A 137 2137 2137 HOH HOH . D 4 HOH A 138 2138 2138 HOH HOH . D 4 HOH A 139 2139 2139 HOH HOH . D 4 HOH A 140 2140 2140 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 P PG ACP . . . C 3 -4.158 -8.632 -23.66 1 55.43 ? PG ACP 1418 A 1 HETATM 2 O O1G ACP . . . C 3 -5.195 -9.15 -22.458 1 52.7 ? O1G ACP 1418 A 1 HETATM 3 O O2G ACP . . . C 3 -3.041 -9.834 -23.853 1 54.84 ? O2G ACP 1418 A 1 HETATM 4 O O3G ACP . . . C 3 -3.508 -7.304 -23.374 1 54.6 ? O3G ACP 1418 A 1 HETATM 5 P PB ACP . . . C 3 -6.615 -9.678 -24.865 1 55.08 ? PB ACP 1418 A 1 HETATM 6 O O1B ACP . . . C 3 -6.286 -11.079 -24.014 1 50.34 ? O1B ACP 1418 A 1 HETATM 7 O O2B ACP . . . C 3 -7.522 -8.661 -24.196 1 51.23 ? O2B ACP 1418 A 1 HETATM 8 C C3B ACP . . . C 3 -5.06 -8.781 -25.22 1 53.09 ? C3B ACP 1418 A 1 HETATM 9 P PA ACP . . . C 3 -8.309 -9.55 -26.999 1 41.88 ? PA ACP 1418 A 1 HETATM 10 O O1A ACP . . . C 3 -8.452 -8.136 -26.186 1 40.27 ? O1A ACP 1418 A 1 HETATM 11 O O2A ACP . . . C 3 -8.09 -9.299 -28.476 1 36.96 ? O2A ACP 1418 A 1 HETATM 12 O O3A ACP . . . C 3 -7.167 -10.392 -26.279 1 46.84 ? O3A ACP 1418 A 1 HETATM 13 O O5' ACP . . . C 3 -9.69 -10.334 -26.622 1 37.86 ? O5' ACP 1418 A 1 HETATM 14 C C5' ACP . . . C 3 -9.844 -11.379 -25.634 1 34.43 ? C5' ACP 1418 A 1 HETATM 15 C C4' ACP . . . C 3 -11.237 -11.08 -25.075 1 31.35 ? C4' ACP 1418 A 1 HETATM 16 O O4' ACP . . . C 3 -12.159 -11.019 -26.24 1 27.42 ? O4' ACP 1418 A 1 HETATM 17 C C3' ACP . . . C 3 -11.841 -12.092 -24.096 1 28.13 ? C3' ACP 1418 A 1 HETATM 18 O O3' ACP . . . C 3 -11.753 -11.48 -22.804 1 29.22 ? O3' ACP 1418 A 1 HETATM 19 C C2' ACP . . . C 3 -13.32 -12.216 -24.59 1 26.56 ? C2' ACP 1418 A 1 HETATM 20 O O2' ACP . . . C 3 -14.259 -11.997 -23.514 1 24.81 ? O2' ACP 1418 A 1 HETATM 21 C C1' ACP . . . C 3 -13.462 -11.057 -25.609 1 24.94 ? C1' ACP 1418 A 1 HETATM 22 N N9 ACP . . . C 3 -14.492 -11.477 -26.632 1 21.71 ? N9 ACP 1418 A 1 HETATM 23 C C8 ACP . . . C 3 -14.62 -12.637 -27.283 1 22.34 ? C8 ACP 1418 A 1 HETATM 24 N N7 ACP . . . C 3 -15.669 -12.538 -28.12 1 20.74 ? N7 ACP 1418 A 1 HETATM 25 C C5 ACP . . . C 3 -16.185 -11.34 -28.008 1 21.74 ? C5 ACP 1418 A 1 HETATM 26 C C6 ACP . . . C 3 -17.22 -10.64 -28.576 1 19.57 ? C6 ACP 1418 A 1 HETATM 27 N N6 ACP . . . C 3 -18.036 -11.244 -29.493 1 15.58 ? N6 ACP 1418 A 1 HETATM 28 N N1 ACP . . . C 3 -17.423 -9.345 -28.194 1 19 ? N1 ACP 1418 A 1 HETATM 29 C C2 ACP . . . C 3 -16.681 -8.705 -27.299 1 22.31 ? C2 ACP 1418 A 1 HETATM 30 N N3 ACP . . . C 3 -15.66 -9.374 -26.753 1 19.72 ? N3 ACP 1418 A 1 HETATM 31 C C4 ACP . . . C 3 -15.407 -10.65 -27.069 1 23 ? C4 ACP 1418 A 1 # _model_server_stats.io_time_ms 62 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 250 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #