data_4D57 # _model_server_result.job_id ivX07CSHFCYEpVdt1pzSSQ _model_server_result.datetime_utc '2025-07-08 05:59:18' _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 4d57 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1495}' # _entry.id 4D57 # _exptl.entry_id 4D57 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ADENOSINE MONOPHOSPHATE' _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 4D57 _cell.length_a 68.142 _cell.length_b 81.845 _cell.length_c 89.651 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4D57 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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,E,F,G _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 F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_atom_id C _struct_conn.ptnr1_label_comp_id ARG _struct_conn.ptnr1_label_seq_id . _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id ARG _struct_conn.ptnr1_auth_seq_id 1491 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id F _struct_conn.ptnr2_label_atom_id O1P _struct_conn.ptnr2_label_comp_id AMP _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id AMP _struct_conn.ptnr2_auth_seq_id 1495 _struct_conn.ptnr2_symmetry 1_555 _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 1.453 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C10 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id AMP _chem_comp.mon_nstd_flag . _chem_comp.name 'ADENOSINE MONOPHOSPHATE' _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 P O1P AMP doub 13 n n P O2P AMP sing 14 n n P O3P AMP sing 15 n n P O5' AMP sing 16 n n O2P HOP2 AMP sing 17 n n O3P HOP3 AMP sing 18 n n O5' C5' AMP sing 19 n n C5' C4' AMP sing 20 n n C5' "H5'1" AMP sing 21 n n C5' "H5'2" AMP sing 22 n n C4' O4' AMP sing 23 n n C4' C3' AMP sing 24 n n C4' H4' AMP sing 25 n n O4' C1' AMP sing 26 n n C3' O3' AMP sing 27 n n C3' C2' AMP sing 28 n n C3' H3' AMP sing 29 n n O3' HO3' AMP sing 30 n n C2' O2' AMP sing 31 n n C2' C1' AMP sing 32 n n C2' H2' AMP sing 33 n n O2' HO2' AMP sing 34 n n C1' N9 AMP sing 35 n n C1' H1' AMP sing 36 n n N9 C8 AMP sing 37 n y N9 C4 AMP sing 38 n y C8 N7 AMP doub 39 n y C8 H8 AMP sing 40 n n N7 C5 AMP sing 41 n y C5 C6 AMP sing 42 n y C5 C4 AMP doub 43 n y C6 N6 AMP sing 44 n n C6 N1 AMP doub 45 n y N6 HN61 AMP sing 46 n n N6 HN62 AMP sing 47 n n N1 C2 AMP sing 48 n y C2 N3 AMP doub 49 n y C2 H2 AMP sing 50 n n N3 C4 AMP sing 51 n y # _atom_sites.entry_id 4D57 _atom_sites.fract_transf_matrix[1][1] 0.014675 _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] 0.012218 _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] 0.011154 _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 ARG A 1 1491 1491 ARG ARG . C 3 GOL A 1 1492 1492 GOL GOL . D 3 GOL A 1 1493 1493 GOL GOL . E 4 PO4 A 1 1494 1494 PO4 PO4 . F 5 AMP A 1 1495 1495 AMP AMP . G 6 HOH A 1 2001 2001 HOH HOH . G 6 HOH A 2 2002 2002 HOH HOH . G 6 HOH A 3 2003 2003 HOH HOH . G 6 HOH A 4 2004 2004 HOH HOH . G 6 HOH A 5 2005 2005 HOH HOH . G 6 HOH A 6 2006 2006 HOH HOH . G 6 HOH A 7 2007 2007 HOH HOH . G 6 HOH A 8 2008 2008 HOH HOH . G 6 HOH A 9 2009 2009 HOH HOH . G 6 HOH A 10 2010 2010 HOH HOH . G 6 HOH A 11 2011 2011 HOH HOH . G 6 HOH A 12 2012 2012 HOH HOH . G 6 HOH A 13 2013 2013 HOH HOH . G 6 HOH A 14 2014 2014 HOH HOH . G 6 HOH A 15 2015 2015 HOH HOH . G 6 HOH A 16 2016 2016 HOH HOH . G 6 HOH A 17 2017 2017 HOH HOH . G 6 HOH A 18 2018 2018 HOH HOH . G 6 HOH A 19 2019 2019 HOH HOH . G 6 HOH A 20 2020 2020 HOH HOH . G 6 HOH A 21 2021 2021 HOH HOH . G 6 HOH A 22 2022 2022 HOH HOH . G 6 HOH A 23 2023 2023 HOH HOH . G 6 HOH A 24 2024 2024 HOH HOH . G 6 HOH A 25 2025 2025 HOH HOH . G 6 HOH A 26 2026 2026 HOH HOH . G 6 HOH A 27 2027 2027 HOH HOH . G 6 HOH A 28 2028 2028 HOH HOH . G 6 HOH A 29 2029 2029 HOH HOH . G 6 HOH A 30 2030 2030 HOH HOH . G 6 HOH A 31 2031 2031 HOH HOH . G 6 HOH A 32 2032 2032 HOH HOH . G 6 HOH A 33 2033 2033 HOH HOH . G 6 HOH A 34 2034 2034 HOH HOH . G 6 HOH A 35 2035 2035 HOH HOH . G 6 HOH A 36 2036 2036 HOH HOH . G 6 HOH A 37 2037 2037 HOH HOH . G 6 HOH A 38 2038 2038 HOH HOH . G 6 HOH A 39 2039 2039 HOH HOH . G 6 HOH A 40 2040 2040 HOH HOH . G 6 HOH A 41 2041 2041 HOH HOH . G 6 HOH A 42 2042 2042 HOH HOH . G 6 HOH A 43 2043 2043 HOH HOH . G 6 HOH A 44 2044 2044 HOH HOH . G 6 HOH A 45 2045 2045 HOH HOH . G 6 HOH A 46 2046 2046 HOH HOH . G 6 HOH A 47 2047 2047 HOH HOH . G 6 HOH A 48 2048 2048 HOH HOH . G 6 HOH A 49 2049 2049 HOH HOH . G 6 HOH A 50 2050 2050 HOH HOH . G 6 HOH A 51 2051 2051 HOH HOH . G 6 HOH A 52 2052 2052 HOH HOH . G 6 HOH A 53 2053 2053 HOH HOH . G 6 HOH A 54 2054 2054 HOH HOH . G 6 HOH A 55 2055 2055 HOH HOH . G 6 HOH A 56 2056 2056 HOH HOH . G 6 HOH A 57 2057 2057 HOH HOH . G 6 HOH A 58 2058 2058 HOH HOH . G 6 HOH A 59 2059 2059 HOH HOH . G 6 HOH A 60 2060 2060 HOH HOH . G 6 HOH A 61 2061 2061 HOH HOH . G 6 HOH A 62 2062 2062 HOH HOH . G 6 HOH A 63 2063 2063 HOH HOH . G 6 HOH A 64 2064 2064 HOH HOH . G 6 HOH A 65 2065 2065 HOH HOH . G 6 HOH A 66 2066 2066 HOH HOH . G 6 HOH A 67 2067 2067 HOH HOH . G 6 HOH A 68 2068 2068 HOH HOH . G 6 HOH A 69 2069 2069 HOH HOH . G 6 HOH A 70 2070 2070 HOH HOH . G 6 HOH A 71 2071 2071 HOH HOH . G 6 HOH A 72 2072 2072 HOH HOH . G 6 HOH A 73 2073 2073 HOH HOH . G 6 HOH A 74 2074 2074 HOH HOH . G 6 HOH A 75 2075 2075 HOH HOH . G 6 HOH A 76 2076 2076 HOH HOH . G 6 HOH A 77 2077 2077 HOH HOH . G 6 HOH A 78 2078 2078 HOH HOH . G 6 HOH A 79 2079 2079 HOH HOH . G 6 HOH A 80 2080 2080 HOH HOH . G 6 HOH A 81 2081 2081 HOH HOH . G 6 HOH A 82 2082 2082 HOH HOH . G 6 HOH A 83 2083 2083 HOH HOH . G 6 HOH A 84 2084 2084 HOH HOH . G 6 HOH A 85 2085 2085 HOH HOH . G 6 HOH A 86 2086 2086 HOH HOH . G 6 HOH A 87 2087 2087 HOH HOH . G 6 HOH A 88 2088 2088 HOH HOH . G 6 HOH A 89 2089 2089 HOH HOH . G 6 HOH A 90 2090 2090 HOH HOH . G 6 HOH A 91 2091 2091 HOH HOH . G 6 HOH A 92 2092 2092 HOH HOH . G 6 HOH A 93 2093 2093 HOH HOH . G 6 HOH A 94 2094 2094 HOH HOH . G 6 HOH A 95 2095 2095 HOH HOH . G 6 HOH A 96 2096 2096 HOH HOH . G 6 HOH A 97 2097 2097 HOH HOH . G 6 HOH A 98 2098 2098 HOH HOH . G 6 HOH A 99 2099 2099 HOH HOH . G 6 HOH A 100 2100 2100 HOH HOH . G 6 HOH A 101 2101 2101 HOH HOH . G 6 HOH A 102 2102 2102 HOH HOH . G 6 HOH A 103 2103 2103 HOH HOH . G 6 HOH A 104 2104 2104 HOH HOH . G 6 HOH A 105 2105 2105 HOH HOH . G 6 HOH A 106 2106 2106 HOH HOH . G 6 HOH A 107 2107 2107 HOH HOH . G 6 HOH A 108 2108 2108 HOH HOH . G 6 HOH A 109 2109 2109 HOH HOH . G 6 HOH A 110 2110 2110 HOH HOH . G 6 HOH A 111 2111 2111 HOH HOH . G 6 HOH A 112 2112 2112 HOH HOH . G 6 HOH A 113 2113 2113 HOH HOH . G 6 HOH A 114 2114 2114 HOH HOH . G 6 HOH A 115 2115 2115 HOH HOH . G 6 HOH A 116 2116 2116 HOH HOH . G 6 HOH A 117 2117 2117 HOH HOH . G 6 HOH A 118 2118 2118 HOH HOH . G 6 HOH A 119 2119 2119 HOH HOH . G 6 HOH A 120 2120 2120 HOH HOH . G 6 HOH A 121 2121 2121 HOH HOH . G 6 HOH A 122 2122 2122 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 P AMP . . . F 5 11.451 -20.045 11.463 1 39.85 ? P AMP 1495 A 1 HETATM 2 O O1P AMP . . . F 5 11.892 -18.757 12.392 1 41.99 ? O1P AMP 1495 A 1 HETATM 3 O O2P AMP . . . F 5 12.687 -20.397 10.609 1 43.77 ? O2P AMP 1495 A 1 HETATM 4 O O3P AMP . . . F 5 10.016 -19.91 11.061 1 36.12 ? O3P AMP 1495 A 1 HETATM 5 O O5' AMP . . . F 5 11.4 -21.313 12.483 1 34.95 ? O5' AMP 1495 A 1 HETATM 6 C C5' AMP . . . F 5 10.566 -21.165 13.625 1 37.57 ? C5' AMP 1495 A 1 HETATM 7 C C4' AMP . . . F 5 10.591 -22.45 14.406 1 35.89 ? C4' AMP 1495 A 1 HETATM 8 O O4' AMP . . . F 5 11.899 -22.701 14.898 1 37.18 ? O4' AMP 1495 A 1 HETATM 9 C C3' AMP . . . F 5 9.652 -22.341 15.582 1 35.34 ? C3' AMP 1495 A 1 HETATM 10 O O3' AMP . . . F 5 8.316 -22.557 15.189 1 31.61 ? O3' AMP 1495 A 1 HETATM 11 C C2' AMP . . . F 5 10.229 -23.388 16.514 1 38.36 ? C2' AMP 1495 A 1 HETATM 12 O O2' AMP . . . F 5 9.924 -24.732 16.107 1 32.78 ? O2' AMP 1495 A 1 HETATM 13 C C1' AMP . . . F 5 11.708 -23.148 16.265 1 39.01 ? C1' AMP 1495 A 1 HETATM 14 N N9 AMP . . . F 5 12.356 -22.155 17.127 1 41.9 ? N9 AMP 1495 A 1 HETATM 15 C C8 AMP . . . F 5 12.645 -20.846 16.873 1 40.85 ? C8 AMP 1495 A 1 HETATM 16 N N7 AMP . . . F 5 13.34 -20.325 17.92 1 45.42 ? N7 AMP 1495 A 1 HETATM 17 C C5 AMP . . . F 5 13.471 -21.325 18.839 1 41.04 ? C5 AMP 1495 A 1 HETATM 18 C C6 AMP . . . F 5 14.061 -21.468 20.174 1 38.16 ? C6 AMP 1495 A 1 HETATM 19 N N6 AMP . . . F 5 14.7 -20.394 20.7 1 36.95 ? N6 AMP 1495 A 1 HETATM 20 N N1 AMP . . . F 5 13.943 -22.671 20.77 1 36.06 ? N1 AMP 1495 A 1 HETATM 21 C C2 AMP . . . F 5 13.333 -23.753 20.221 1 40.49 ? C2 AMP 1495 A 1 HETATM 22 N N3 AMP . . . F 5 12.766 -23.725 18.982 1 37.04 ? N3 AMP 1495 A 1 HETATM 23 C C4 AMP . . . F 5 12.832 -22.544 18.296 1 39.97 ? C4 AMP 1495 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 23 #