data_3KPV
#
_model_server_result.job_id            jPvfHXebNHQFfLzOH9S_qA 
_model_server_result.datetime_utc      '2024-11-23 03:26:30' 
_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          3kpv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":290}' 
#
_entry.id    3KPV 
#
_exptl.entry_id    3KPV 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              135.127 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            ADENINE 
_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            3KPV 
_cell.length_a            94.178 
_cell.length_b            94.178 
_cell.length_c            188.801 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3KPV 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43 21 2' 
#
_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,H 
_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 
#
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 F 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 48 A CYS 48 1_555 B SG CYS 139 B CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf2 A SG CYS 139 A CYS 139 1_555 B SG CYS 48 B CYS 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
#
_chem_comp.formula           'C5 H5 N5' 
_chem_comp.formula_weight    135.127 
_chem_comp.id                ADE 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              ADENINE 
_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
N9 C8 ADE sing 1 n y 
N9 C4 ADE sing 2 n y 
N9 HN9 ADE sing 3 n n 
C8 N7 ADE doub 4 n y 
C8 H8 ADE sing 5 n n 
N7 C5 ADE sing 6 n y 
C5 C6 ADE sing 7 n y 
C5 C4 ADE doub 8 n y 
C6 N6 ADE sing 9 n n 
C6 N1 ADE doub 10 n y 
N6 HN61 ADE sing 11 n n 
N6 HN62 ADE sing 12 n n 
N1 C2 ADE sing 13 n y 
C2 N3 ADE doub 14 n y 
C2 H2 ADE sing 15 n n 
N3 C4 ADE sing 16 n y 
#
_atom_sites.entry_id                     3KPV 
_atom_sites.fract_transf_matrix[1][1]    0.010618 
_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]    0.010618 
_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]    0.005297 
_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 SAH A 1 2001 2001 SAH SAH . 
D 3 ADE A 1 290 1 ADE ADE . 
E 2 SAH B 1 2002 2002 SAH SAH . 
F 3 ADE B 1 290 2 ADE ADE . 
G 4 HOH A 1 2006 2006 HOH HOH . 
G 4 HOH A 2 2008 2008 HOH HOH . 
G 4 HOH A 3 2013 2013 HOH HOH . 
G 4 HOH A 4 2019 2019 HOH HOH . 
G 4 HOH A 5 2022 2022 HOH HOH . 
G 4 HOH A 6 2030 2030 HOH HOH . 
G 4 HOH A 7 2031 2031 HOH HOH . 
G 4 HOH A 8 2032 2032 HOH HOH . 
G 4 HOH A 9 2034 2034 HOH HOH . 
G 4 HOH A 10 2035 2035 HOH HOH . 
G 4 HOH A 11 2036 2036 HOH HOH . 
G 4 HOH A 12 2037 2037 HOH HOH . 
G 4 HOH A 13 2038 2038 HOH HOH . 
G 4 HOH A 14 2047 2047 HOH HOH . 
G 4 HOH A 15 2056 2056 HOH HOH . 
G 4 HOH A 16 2058 2058 HOH HOH . 
G 4 HOH A 17 2061 2061 HOH HOH . 
G 4 HOH A 18 2062 2062 HOH HOH . 
G 4 HOH A 19 2065 2065 HOH HOH . 
G 4 HOH A 20 2066 2066 HOH HOH . 
G 4 HOH A 21 2068 2068 HOH HOH . 
G 4 HOH A 22 2071 2071 HOH HOH . 
G 4 HOH A 23 2077 2077 HOH HOH . 
G 4 HOH A 24 2079 2079 HOH HOH . 
G 4 HOH A 25 2081 2081 HOH HOH . 
G 4 HOH A 26 2082 2082 HOH HOH . 
G 4 HOH A 27 2084 2084 HOH HOH . 
G 4 HOH A 28 2085 2085 HOH HOH . 
G 4 HOH A 29 2091 2091 HOH HOH . 
G 4 HOH A 30 2094 2094 HOH HOH . 
G 4 HOH A 31 2097 2097 HOH HOH . 
G 4 HOH A 32 2098 2098 HOH HOH . 
G 4 HOH A 33 2103 2103 HOH HOH . 
G 4 HOH A 34 2105 2105 HOH HOH . 
G 4 HOH A 35 2106 2106 HOH HOH . 
G 4 HOH A 36 2108 2108 HOH HOH . 
G 4 HOH A 37 2113 2113 HOH HOH . 
G 4 HOH A 38 2114 2114 HOH HOH . 
G 4 HOH A 39 2117 2117 HOH HOH . 
G 4 HOH A 40 2121 2121 HOH HOH . 
G 4 HOH A 41 2134 2134 HOH HOH . 
G 4 HOH A 42 2135 2135 HOH HOH . 
G 4 HOH A 43 2138 2138 HOH HOH . 
G 4 HOH A 44 2141 2141 HOH HOH . 
G 4 HOH A 45 2143 2143 HOH HOH . 
G 4 HOH A 46 2145 2145 HOH HOH . 
G 4 HOH A 47 2146 2146 HOH HOH . 
G 4 HOH A 48 2151 2151 HOH HOH . 
G 4 HOH A 49 2153 2153 HOH HOH . 
G 4 HOH A 50 2154 2154 HOH HOH . 
G 4 HOH A 51 2157 2157 HOH HOH . 
G 4 HOH A 52 2164 2164 HOH HOH . 
G 4 HOH A 53 2168 2168 HOH HOH . 
G 4 HOH A 54 2170 2170 HOH HOH . 
G 4 HOH A 55 2172 2172 HOH HOH . 
G 4 HOH A 56 2175 2175 HOH HOH . 
G 4 HOH A 57 2176 2176 HOH HOH . 
G 4 HOH A 58 2180 2180 HOH HOH . 
G 4 HOH A 59 2183 2183 HOH HOH . 
G 4 HOH A 60 2185 2185 HOH HOH . 
G 4 HOH A 61 2187 2187 HOH HOH . 
G 4 HOH A 62 2189 2189 HOH HOH . 
G 4 HOH A 63 2190 2190 HOH HOH . 
G 4 HOH A 64 2195 2195 HOH HOH . 
G 4 HOH A 65 2196 2196 HOH HOH . 
G 4 HOH A 66 2200 2200 HOH HOH . 
G 4 HOH A 67 2202 2202 HOH HOH . 
G 4 HOH A 68 2204 2204 HOH HOH . 
G 4 HOH A 69 2205 2205 HOH HOH . 
G 4 HOH A 70 2210 2210 HOH HOH . 
G 4 HOH A 71 2214 2214 HOH HOH . 
G 4 HOH A 72 2215 2215 HOH HOH . 
G 4 HOH A 73 2219 2219 HOH HOH . 
G 4 HOH A 74 2220 2220 HOH HOH . 
G 4 HOH A 75 2221 2221 HOH HOH . 
G 4 HOH A 76 2222 2222 HOH HOH . 
G 4 HOH A 77 2228 2228 HOH HOH . 
G 4 HOH A 78 2232 2232 HOH HOH . 
G 4 HOH A 79 2233 2233 HOH HOH . 
G 4 HOH A 80 2234 2234 HOH HOH . 
G 4 HOH A 81 2235 2235 HOH HOH . 
G 4 HOH A 82 2236 2236 HOH HOH . 
G 4 HOH A 83 2237 2237 HOH HOH . 
G 4 HOH A 84 2238 2238 HOH HOH . 
G 4 HOH A 85 2239 2239 HOH HOH . 
G 4 HOH A 86 2240 2240 HOH HOH . 
G 4 HOH A 87 2241 2241 HOH HOH . 
G 4 HOH A 88 2242 2242 HOH HOH . 
G 4 HOH A 89 2243 2243 HOH HOH . 
H 4 HOH B 1 2004 2004 HOH HOH . 
H 4 HOH B 2 2009 2009 HOH HOH . 
H 4 HOH B 3 2010 2010 HOH HOH . 
H 4 HOH B 4 2011 2011 HOH HOH . 
H 4 HOH B 5 2014 2014 HOH HOH . 
H 4 HOH B 6 2015 2015 HOH HOH . 
H 4 HOH B 7 2016 2016 HOH HOH . 
H 4 HOH B 8 2017 2017 HOH HOH . 
H 4 HOH B 9 2021 2021 HOH HOH . 
H 4 HOH B 10 2023 2023 HOH HOH . 
H 4 HOH B 11 2025 2025 HOH HOH . 
H 4 HOH B 12 2028 2028 HOH HOH . 
H 4 HOH B 13 2033 2033 HOH HOH . 
H 4 HOH B 14 2039 2039 HOH HOH . 
H 4 HOH B 15 2040 2040 HOH HOH . 
H 4 HOH B 16 2042 2042 HOH HOH . 
H 4 HOH B 17 2043 2043 HOH HOH . 
H 4 HOH B 18 2044 2044 HOH HOH . 
H 4 HOH B 19 2046 2046 HOH HOH . 
H 4 HOH B 20 2048 2048 HOH HOH . 
H 4 HOH B 21 2049 2049 HOH HOH . 
H 4 HOH B 22 2050 2050 HOH HOH . 
H 4 HOH B 23 2051 2051 HOH HOH . 
H 4 HOH B 24 2052 2052 HOH HOH . 
H 4 HOH B 25 2053 2053 HOH HOH . 
H 4 HOH B 26 2054 2054 HOH HOH . 
H 4 HOH B 27 2055 2055 HOH HOH . 
H 4 HOH B 28 2059 2059 HOH HOH . 
H 4 HOH B 29 2060 2060 HOH HOH . 
H 4 HOH B 30 2067 2067 HOH HOH . 
H 4 HOH B 31 2069 2069 HOH HOH . 
H 4 HOH B 32 2070 2070 HOH HOH . 
H 4 HOH B 33 2072 2072 HOH HOH . 
H 4 HOH B 34 2073 2073 HOH HOH . 
H 4 HOH B 35 2074 2074 HOH HOH . 
H 4 HOH B 36 2075 2075 HOH HOH . 
H 4 HOH B 37 2076 2076 HOH HOH . 
H 4 HOH B 38 2078 2078 HOH HOH . 
H 4 HOH B 39 2080 2080 HOH HOH . 
H 4 HOH B 40 2088 2088 HOH HOH . 
H 4 HOH B 41 2089 2089 HOH HOH . 
H 4 HOH B 42 2090 2090 HOH HOH . 
H 4 HOH B 43 2092 2092 HOH HOH . 
H 4 HOH B 44 2093 2093 HOH HOH . 
H 4 HOH B 45 2095 2095 HOH HOH . 
H 4 HOH B 46 2099 2099 HOH HOH . 
H 4 HOH B 47 2100 2100 HOH HOH . 
H 4 HOH B 48 2101 2101 HOH HOH . 
H 4 HOH B 49 2102 2102 HOH HOH . 
H 4 HOH B 50 2104 2104 HOH HOH . 
H 4 HOH B 51 2107 2107 HOH HOH . 
H 4 HOH B 52 2109 2109 HOH HOH . 
H 4 HOH B 53 2110 2110 HOH HOH . 
H 4 HOH B 54 2111 2111 HOH HOH . 
H 4 HOH B 55 2112 2112 HOH HOH . 
H 4 HOH B 56 2115 2115 HOH HOH . 
H 4 HOH B 57 2116 2116 HOH HOH . 
H 4 HOH B 58 2118 2118 HOH HOH . 
H 4 HOH B 59 2119 2119 HOH HOH . 
H 4 HOH B 60 2120 2120 HOH HOH . 
H 4 HOH B 61 2122 2122 HOH HOH . 
H 4 HOH B 62 2123 2123 HOH HOH . 
H 4 HOH B 63 2124 2124 HOH HOH . 
H 4 HOH B 64 2125 2125 HOH HOH . 
H 4 HOH B 65 2126 2126 HOH HOH . 
H 4 HOH B 66 2127 2127 HOH HOH . 
H 4 HOH B 67 2128 2128 HOH HOH . 
H 4 HOH B 68 2131 2131 HOH HOH . 
H 4 HOH B 69 2132 2132 HOH HOH . 
H 4 HOH B 70 2133 2133 HOH HOH . 
H 4 HOH B 71 2137 2137 HOH HOH . 
H 4 HOH B 72 2140 2140 HOH HOH . 
H 4 HOH B 73 2144 2144 HOH HOH . 
H 4 HOH B 74 2147 2147 HOH HOH . 
H 4 HOH B 75 2149 2149 HOH HOH . 
H 4 HOH B 76 2150 2150 HOH HOH . 
H 4 HOH B 77 2152 2152 HOH HOH . 
H 4 HOH B 78 2155 2155 HOH HOH . 
H 4 HOH B 79 2156 2156 HOH HOH . 
H 4 HOH B 80 2158 2158 HOH HOH . 
H 4 HOH B 81 2159 2159 HOH HOH . 
H 4 HOH B 82 2160 2160 HOH HOH . 
H 4 HOH B 83 2161 2161 HOH HOH . 
H 4 HOH B 84 2162 2162 HOH HOH . 
H 4 HOH B 85 2163 2163 HOH HOH . 
H 4 HOH B 86 2165 2165 HOH HOH . 
H 4 HOH B 87 2166 2166 HOH HOH . 
H 4 HOH B 88 2167 2167 HOH HOH . 
H 4 HOH B 89 2171 2171 HOH HOH . 
H 4 HOH B 90 2173 2173 HOH HOH . 
H 4 HOH B 91 2174 2174 HOH HOH . 
H 4 HOH B 92 2178 2178 HOH HOH . 
H 4 HOH B 93 2179 2179 HOH HOH . 
H 4 HOH B 94 2181 2181 HOH HOH . 
H 4 HOH B 95 2184 2184 HOH HOH . 
H 4 HOH B 96 2186 2186 HOH HOH . 
H 4 HOH B 97 2188 2188 HOH HOH . 
H 4 HOH B 98 2191 2191 HOH HOH . 
H 4 HOH B 99 2192 2192 HOH HOH . 
H 4 HOH B 100 2197 2197 HOH HOH . 
H 4 HOH B 101 2201 2201 HOH HOH . 
H 4 HOH B 102 2203 2203 HOH HOH . 
H 4 HOH B 103 2207 2207 HOH HOH . 
H 4 HOH B 104 2208 2208 HOH HOH . 
H 4 HOH B 105 2209 2209 HOH HOH . 
H 4 HOH B 106 2211 2211 HOH HOH . 
H 4 HOH B 107 2212 2212 HOH HOH . 
H 4 HOH B 108 2216 2216 HOH HOH . 
H 4 HOH B 109 2217 2217 HOH HOH . 
H 4 HOH B 110 2224 2224 HOH HOH . 
H 4 HOH B 111 2225 2225 HOH HOH . 
H 4 HOH B 112 2226 2226 HOH HOH . 
H 4 HOH B 113 2227 2227 HOH HOH . 
H 4 HOH B 114 2229 2229 HOH HOH . 
H 4 HOH B 115 2230 2230 HOH HOH . 
H 4 HOH B 116 2231 2231 HOH HOH . 
H 4 HOH B 117 2244 2244 HOH HOH . 
H 4 HOH B 118 2245 2245 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 N N9 ADE . . . F 3 26.276 58.812 -26.065 1 49.88 ? N9 ADE 290 B 1 
HETATM 2 C C8 ADE . . . F 3 27.134 57.815 -26.412 1 49.39 ? C8 ADE 290 B 1 
HETATM 3 N N7 ADE . . . F 3 27.573 58.058 -27.682 1 46.54 ? N7 ADE 290 B 1 
HETATM 4 C C5 ADE . . . F 3 26.993 59.198 -28.115 1 48.47 ? C5 ADE 290 B 1 
HETATM 5 C C6 ADE . . . F 3 27.086 59.904 -29.323 1 47.62 ? C6 ADE 290 B 1 
HETATM 6 N N6 ADE . . . F 3 27.937 59.429 -30.407 1 44.42 ? N6 ADE 290 B 1 
HETATM 7 N N1 ADE . . . F 3 26.381 61.042 -29.493 1 43.6 ? N1 ADE 290 B 1 
HETATM 8 C C2 ADE . . . F 3 25.571 61.514 -28.483 1 41.1 ? C2 ADE 290 B 1 
HETATM 9 N N3 ADE . . . F 3 25.479 60.819 -27.291 1 38.2 ? N3 ADE 290 B 1 
HETATM 10 C C4 ADE . . . F 3 26.188 59.666 -27.111 1 44.63 ? C4 ADE 290 B 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           25 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           311 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           10 
#