data_2WHX # _model_server_result.job_id '_UWSQPmg1rizLpewq-3uPQ' _model_server_result.datetime_utc '2024-11-08 18:17:07' _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 2whx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1619}' # _entry.id 2WHX # _exptl.entry_id 2WHX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 92.9 _cell.angle_gamma 90 _cell.entry_id 2WHX _cell.length_a 52.42 _cell.length_b 87.72 _cell.length_c 75.779 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2WHX _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 3 _struct_asym.id C _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 OG1 THR 200 A THR 200 1_555 D MN MN . A MN 1620 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc2 A OE2 GLU 285 A GLU 285 1_555 D MN MN . A MN 1620 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? metalc ? metalc3 C O2B ADP . A ADP 1619 1_555 D MN MN . A MN 1620 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? metalc ? metalc4 D MN MN . A MN 1620 1_555 G O HOH . A HOH 2135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc5 D MN MN . A MN 1620 1_555 G O HOH . A HOH 2136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? metalc ? metalc6 D MN MN . A MN 1620 1_555 G O HOH . A HOH 2137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 2WHX _atom_sites.fract_transf_matrix[1][1] 0.019077 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000966 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.0114 _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] 0.013213 _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 3 ADP A 1 1619 1619 ADP ADP . D 4 MN A 1 1620 1620 MN MN . E 5 CL A 1 1621 1621 CL CL . F 5 CL A 1 1622 1622 CL CL . 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 . G 6 HOH A 123 2123 2123 HOH HOH . G 6 HOH A 124 2124 2124 HOH HOH . G 6 HOH A 125 2125 2125 HOH HOH . G 6 HOH A 126 2126 2126 HOH HOH . G 6 HOH A 127 2127 2127 HOH HOH . G 6 HOH A 128 2128 2128 HOH HOH . G 6 HOH A 129 2129 2129 HOH HOH . G 6 HOH A 130 2130 2130 HOH HOH . G 6 HOH A 131 2131 2131 HOH HOH . G 6 HOH A 132 2132 2132 HOH HOH . G 6 HOH A 133 2133 2133 HOH HOH . G 6 HOH A 134 2134 2134 HOH HOH . G 6 HOH A 135 2135 2135 HOH HOH . G 6 HOH A 136 2136 2136 HOH HOH . G 6 HOH A 137 2137 2137 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 PB ADP . . . C 3 19.894 0.632 15.842 1 27.78 ? PB ADP 1619 A 1 HETATM 2 O O1B ADP . . . C 3 18.89 0.264 16.914 1 26.08 ? O1B ADP 1619 A 1 HETATM 3 O O2B ADP . . . C 3 21.335 0.401 16.247 1 26.41 ? O2B ADP 1619 A 1 HETATM 4 O O3B ADP . . . C 3 19.633 1.972 15.216 1 26.29 ? O3B ADP 1619 A 1 HETATM 5 P PA ADP . . . C 3 20.658 -1.377 13.973 1 29.61 ? PA ADP 1619 A 1 HETATM 6 O O1A ADP . . . C 3 21.121 -2.391 14.984 1 29.36 ? O1A ADP 1619 A 1 HETATM 7 O O2A ADP . . . C 3 21.668 -0.518 13.264 1 28.99 ? O2A ADP 1619 A 1 HETATM 8 O O3A ADP . . . C 3 19.564 -0.406 14.657 1 27.79 ? O3A ADP 1619 A 1 HETATM 9 O O5' ADP . . . C 3 19.76 -2.15 12.882 1 30.38 ? O5' ADP 1619 A 1 HETATM 10 C C5' ADP . . . C 3 19.253 -1.513 11.712 1 33.11 ? C5' ADP 1619 A 1 HETATM 11 C C4' ADP . . . C 3 18.433 -2.512 10.901 1 35.39 ? C4' ADP 1619 A 1 HETATM 12 O O4' ADP . . . C 3 19.271 -3.594 10.483 1 37.21 ? O4' ADP 1619 A 1 HETATM 13 C C3' ADP . . . C 3 17.293 -3.135 11.704 1 36.32 ? C3' ADP 1619 A 1 HETATM 14 O O3' ADP . . . C 3 16.129 -3.166 10.875 1 36.12 ? O3' ADP 1619 A 1 HETATM 15 C C2' ADP . . . C 3 17.75 -4.552 11.991 1 37.34 ? C2' ADP 1619 A 1 HETATM 16 O O2' ADP . . . C 3 16.654 -5.462 12.105 1 37.25 ? O2' ADP 1619 A 1 HETATM 17 C C1' ADP . . . C 3 18.629 -4.839 10.78 1 38.94 ? C1' ADP 1619 A 1 HETATM 18 N N9 ADP . . . C 3 19.638 -5.914 10.965 1 41.95 ? N9 ADP 1619 A 1 HETATM 19 C C8 ADP . . . C 3 20.4 -6.154 12.049 1 42.84 ? C8 ADP 1619 A 1 HETATM 20 N N7 ADP . . . C 3 21.214 -7.223 11.845 1 44.22 ? N7 ADP 1619 A 1 HETATM 21 C C5 ADP . . . C 3 20.981 -7.682 10.599 1 45.1 ? C5 ADP 1619 A 1 HETATM 22 C C6 ADP . . . C 3 21.491 -8.782 9.735 1 46.24 ? C6 ADP 1619 A 1 HETATM 23 N N6 ADP . . . C 3 22.449 -9.636 10.175 1 46.91 ? N6 ADP 1619 A 1 HETATM 24 N N1 ADP . . . C 3 20.967 -8.908 8.486 1 46.88 ? N1 ADP 1619 A 1 HETATM 25 C C2 ADP . . . C 3 20.012 -8.073 8.019 1 46.48 ? C2 ADP 1619 A 1 HETATM 26 N N3 ADP . . . C 3 19.507 -7.058 8.752 1 45.93 ? N3 ADP 1619 A 1 HETATM 27 C C4 ADP . . . C 3 19.942 -6.813 10.022 1 44.32 ? C4 ADP 1619 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 333 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #