data_2VYP # _model_server_result.job_id kGfKFteW7QiJQ8YygUztjQ _model_server_result.datetime_utc '2024-12-11 19:23:51' _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 2vyp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1376}' # _entry.id 2VYP # _exptl.entry_id 2VYP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _entity.pdbx_number_of_molecules 4 _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 2VYP _cell.length_a 77.653 _cell.length_b 194.863 _cell.length_c 53.038 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2VYP _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 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 PQS monomeric 1 author_and_software_defined_assembly 1 PQS 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,F,G,H,M 1 1 B,I,J,K,L,N 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 I N N ? 3 K N N ? 3 L 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 metalc ? metalc1 A OE1 GLU 169 A GLU 167 2_655 I CA CA . B CA 1376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.858 ? metalc ? metalc2 A OE2 GLU 169 A GLU 167 2_655 I CA CA . B CA 1376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc3 C O1G ATP . A ATP 1375 1_555 D CA CA . A CA 1376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.237 ? metalc ? metalc4 C O1B ATP . A ATP 1375 1_555 D CA CA . A CA 1376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc5 D CA CA . A CA 1376 1_555 M O HOH . A HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc6 D CA CA . A CA 1376 1_555 M O HOH . A HOH 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.455 ? metalc ? metalc7 D CA CA . A CA 1376 1_555 M O HOH . A HOH 2038 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? metalc ? metalc8 D CA CA . A CA 1376 1_555 M O HOH . A HOH 2140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc9 B OD2 ASP 288 B ASP 286 1_555 L CA CA . B CA 1379 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.544 ? metalc ? metalc10 B OD1 ASP 288 B ASP 286 1_555 L CA CA . B CA 1379 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.738 ? metalc ? metalc11 B OD2 ASP 290 B ASP 288 1_555 L CA CA . B CA 1379 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc12 B O GLN 356 B GLN 354 1_555 I CA CA . B CA 1376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc13 B O TRP 358 B TRP 356 1_555 I CA CA . B CA 1376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.904 ? metalc ? metalc14 B OE2 GLU 363 B GLU 361 1_555 I CA CA . B CA 1376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.787 ? metalc ? metalc15 B OE1 GLU 363 B GLU 361 1_555 I CA CA . B CA 1376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.631 ? metalc ? metalc16 J O1G ATP . B ATP 1377 1_555 K CA CA . B CA 1378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.498 ? metalc ? metalc17 J O1B ATP . B ATP 1377 1_555 K CA CA . B CA 1378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc18 K CA CA . B CA 1378 1_555 N O HOH . B HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc19 K CA CA . B CA 1378 1_555 N O HOH . B HOH 2016 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? metalc ? metalc20 K CA CA . B CA 1378 1_555 N O HOH . B HOH 2021 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? metalc ? metalc21 K CA CA . B CA 1378 1_555 N O HOH . B HOH 2062 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.577 ? # _chem_comp.formula 'Ca 2' _chem_comp.formula_weight 40.078 _chem_comp.id CA _chem_comp.mon_nstd_flag . _chem_comp.name 'CALCIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 2VYP _atom_sites.fract_transf_matrix[1][1] 0.012878 _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] 0.005132 _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] 0.018854 _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 ATP A 1 1375 1375 ATP ATP . D 3 CA A 1 1376 1376 CA CA . E 4 RH9 A 1 1377 1377 RH9 RH9 . F 5 HEZ A 1 1378 1378 HEZ HEZ . G 5 HEZ A 1 1379 1379 HEZ HEZ . H 5 HEZ A 1 1380 1380 HEZ HEZ . I 3 CA B 1 1376 1376 CA CA . J 2 ATP B 1 1377 1377 ATP ATP . K 3 CA B 1 1378 1378 CA CA . L 3 CA B 1 1379 1379 CA CA . M 6 HOH A 1 2001 2001 HOH HOH . M 6 HOH A 2 2002 2002 HOH HOH . M 6 HOH A 3 2003 2003 HOH HOH . M 6 HOH A 4 2004 2004 HOH HOH . M 6 HOH A 5 2005 2005 HOH HOH . M 6 HOH A 6 2006 2006 HOH HOH . M 6 HOH A 7 2007 2007 HOH HOH . M 6 HOH A 8 2008 2008 HOH HOH . M 6 HOH A 9 2009 2009 HOH HOH . M 6 HOH A 10 2010 2010 HOH HOH . M 6 HOH A 11 2011 2011 HOH HOH . M 6 HOH A 12 2012 2012 HOH HOH . M 6 HOH A 13 2013 2013 HOH HOH . M 6 HOH A 14 2014 2014 HOH HOH . M 6 HOH A 15 2015 2015 HOH HOH . M 6 HOH A 16 2016 2016 HOH HOH . M 6 HOH A 17 2017 2017 HOH HOH . M 6 HOH A 18 2018 2018 HOH HOH . M 6 HOH A 19 2019 2019 HOH HOH . M 6 HOH A 20 2020 2020 HOH HOH . M 6 HOH A 21 2021 2021 HOH HOH . M 6 HOH A 22 2022 2022 HOH HOH . M 6 HOH A 23 2023 2023 HOH HOH . M 6 HOH A 24 2024 2024 HOH HOH . M 6 HOH A 25 2025 2025 HOH HOH . M 6 HOH A 26 2026 2026 HOH HOH . M 6 HOH A 27 2027 2027 HOH HOH . M 6 HOH A 28 2028 2028 HOH HOH . M 6 HOH A 29 2029 2029 HOH HOH . M 6 HOH A 30 2030 2030 HOH HOH . M 6 HOH A 31 2031 2031 HOH HOH . M 6 HOH A 32 2032 2032 HOH HOH . M 6 HOH A 33 2033 2033 HOH HOH . M 6 HOH A 34 2034 2034 HOH HOH . M 6 HOH A 35 2035 2035 HOH HOH . M 6 HOH A 36 2036 2036 HOH HOH . M 6 HOH A 37 2037 2037 HOH HOH . M 6 HOH A 38 2038 2038 HOH HOH . M 6 HOH A 39 2039 2039 HOH HOH . M 6 HOH A 40 2040 2040 HOH HOH . M 6 HOH A 41 2041 2041 HOH HOH . M 6 HOH A 42 2042 2042 HOH HOH . M 6 HOH A 43 2043 2043 HOH HOH . M 6 HOH A 44 2044 2044 HOH HOH . M 6 HOH A 45 2045 2045 HOH HOH . M 6 HOH A 46 2046 2046 HOH HOH . M 6 HOH A 47 2047 2047 HOH HOH . M 6 HOH A 48 2048 2048 HOH HOH . M 6 HOH A 49 2049 2049 HOH HOH . M 6 HOH A 50 2050 2050 HOH HOH . M 6 HOH A 51 2051 2051 HOH HOH . M 6 HOH A 52 2052 2052 HOH HOH . M 6 HOH A 53 2053 2053 HOH HOH . M 6 HOH A 54 2054 2054 HOH HOH . M 6 HOH A 55 2055 2055 HOH HOH . M 6 HOH A 56 2056 2056 HOH HOH . M 6 HOH A 57 2057 2057 HOH HOH . M 6 HOH A 58 2058 2058 HOH HOH . M 6 HOH A 59 2060 2060 HOH HOH . M 6 HOH A 60 2061 2061 HOH HOH . M 6 HOH A 61 2062 2062 HOH HOH . M 6 HOH A 62 2063 2063 HOH HOH . M 6 HOH A 63 2064 2064 HOH HOH . M 6 HOH A 64 2065 2065 HOH HOH . M 6 HOH A 65 2066 2066 HOH HOH . M 6 HOH A 66 2067 2067 HOH HOH . M 6 HOH A 67 2068 2068 HOH HOH . M 6 HOH A 68 2069 2069 HOH HOH . M 6 HOH A 69 2070 2070 HOH HOH . M 6 HOH A 70 2071 2071 HOH HOH . M 6 HOH A 71 2072 2072 HOH HOH . M 6 HOH A 72 2073 2073 HOH HOH . M 6 HOH A 73 2074 2074 HOH HOH . M 6 HOH A 74 2075 2075 HOH HOH . M 6 HOH A 75 2076 2076 HOH HOH . M 6 HOH A 76 2077 2077 HOH HOH . M 6 HOH A 77 2078 2078 HOH HOH . M 6 HOH A 78 2079 2079 HOH HOH . M 6 HOH A 79 2080 2080 HOH HOH . M 6 HOH A 80 2081 2081 HOH HOH . M 6 HOH A 81 2082 2082 HOH HOH . M 6 HOH A 82 2083 2083 HOH HOH . M 6 HOH A 83 2084 2084 HOH HOH . M 6 HOH A 84 2085 2085 HOH HOH . M 6 HOH A 85 2086 2086 HOH HOH . M 6 HOH A 86 2087 2087 HOH HOH . M 6 HOH A 87 2088 2088 HOH HOH . M 6 HOH A 88 2089 2089 HOH HOH . M 6 HOH A 89 2090 2090 HOH HOH . M 6 HOH A 90 2091 2091 HOH HOH . M 6 HOH A 91 2092 2092 HOH HOH . M 6 HOH A 92 2093 2093 HOH HOH . M 6 HOH A 93 2094 2094 HOH HOH . M 6 HOH A 94 2095 2095 HOH HOH . M 6 HOH A 95 2096 2096 HOH HOH . M 6 HOH A 96 2097 2097 HOH HOH . M 6 HOH A 97 2098 2098 HOH HOH . M 6 HOH A 98 2099 2099 HOH HOH . M 6 HOH A 99 2100 2100 HOH HOH . M 6 HOH A 100 2101 2101 HOH HOH . M 6 HOH A 101 2102 2102 HOH HOH . M 6 HOH A 102 2103 2103 HOH HOH . M 6 HOH A 103 2104 2104 HOH HOH . M 6 HOH A 104 2105 2105 HOH HOH . M 6 HOH A 105 2106 2106 HOH HOH . M 6 HOH A 106 2107 2107 HOH HOH . M 6 HOH A 107 2108 2108 HOH HOH . M 6 HOH A 108 2109 2109 HOH HOH . M 6 HOH A 109 2110 2110 HOH HOH . M 6 HOH A 110 2111 2111 HOH HOH . M 6 HOH A 111 2112 2112 HOH HOH . M 6 HOH A 112 2113 2113 HOH HOH . M 6 HOH A 113 2114 2114 HOH HOH . M 6 HOH A 114 2115 2115 HOH HOH . M 6 HOH A 115 2116 2116 HOH HOH . M 6 HOH A 116 2117 2117 HOH HOH . M 6 HOH A 117 2118 2118 HOH HOH . M 6 HOH A 118 2119 2119 HOH HOH . M 6 HOH A 119 2120 2120 HOH HOH . M 6 HOH A 120 2121 2121 HOH HOH . M 6 HOH A 121 2122 2122 HOH HOH . M 6 HOH A 122 2123 2123 HOH HOH . M 6 HOH A 123 2124 2124 HOH HOH . M 6 HOH A 124 2125 2125 HOH HOH . M 6 HOH A 125 2126 2126 HOH HOH . M 6 HOH A 126 2127 2127 HOH HOH . M 6 HOH A 127 2128 2128 HOH HOH . M 6 HOH A 128 2129 2129 HOH HOH . M 6 HOH A 129 2130 2130 HOH HOH . M 6 HOH A 130 2131 2131 HOH HOH . M 6 HOH A 131 2132 2132 HOH HOH . M 6 HOH A 132 2133 2133 HOH HOH . M 6 HOH A 133 2134 2134 HOH HOH . M 6 HOH A 134 2135 2135 HOH HOH . M 6 HOH A 135 2136 2136 HOH HOH . M 6 HOH A 136 2137 2137 HOH HOH . M 6 HOH A 137 2138 2138 HOH HOH . M 6 HOH A 138 2139 2139 HOH HOH . M 6 HOH A 139 2140 2140 HOH HOH . M 6 HOH A 140 2141 2141 HOH HOH . M 6 HOH A 141 2142 2142 HOH HOH . M 6 HOH A 142 2143 2143 HOH HOH . M 6 HOH A 143 2144 2144 HOH HOH . M 6 HOH A 144 2145 2145 HOH HOH . M 6 HOH A 145 2146 2146 HOH HOH . M 6 HOH A 146 2147 2147 HOH HOH . M 6 HOH A 147 2148 2148 HOH HOH . M 6 HOH A 148 2149 2149 HOH HOH . M 6 HOH A 149 2150 2150 HOH HOH . M 6 HOH A 150 2151 2151 HOH HOH . M 6 HOH A 151 2152 2152 HOH HOH . M 6 HOH A 152 2153 2153 HOH HOH . N 6 HOH B 1 2001 2001 HOH HOH . N 6 HOH B 2 2002 2002 HOH HOH . N 6 HOH B 3 2003 2003 HOH HOH . N 6 HOH B 4 2004 2004 HOH HOH . N 6 HOH B 5 2005 2005 HOH HOH . N 6 HOH B 6 2006 2006 HOH HOH . N 6 HOH B 7 2007 2007 HOH HOH . N 6 HOH B 8 2008 2008 HOH HOH . N 6 HOH B 9 2009 2009 HOH HOH . N 6 HOH B 10 2010 2010 HOH HOH . N 6 HOH B 11 2011 2011 HOH HOH . N 6 HOH B 12 2012 2012 HOH HOH . N 6 HOH B 13 2013 2013 HOH HOH . N 6 HOH B 14 2014 2014 HOH HOH . N 6 HOH B 15 2015 2015 HOH HOH . N 6 HOH B 16 2016 2016 HOH HOH . N 6 HOH B 17 2017 2017 HOH HOH . N 6 HOH B 18 2018 2018 HOH HOH . N 6 HOH B 19 2019 2019 HOH HOH . N 6 HOH B 20 2020 2020 HOH HOH . N 6 HOH B 21 2021 2021 HOH HOH . N 6 HOH B 22 2022 2022 HOH HOH . N 6 HOH B 23 2023 2023 HOH HOH . N 6 HOH B 24 2024 2024 HOH HOH . N 6 HOH B 25 2025 2025 HOH HOH . N 6 HOH B 26 2026 2026 HOH HOH . N 6 HOH B 27 2027 2027 HOH HOH . N 6 HOH B 28 2028 2028 HOH HOH . N 6 HOH B 29 2029 2029 HOH HOH . N 6 HOH B 30 2030 2030 HOH HOH . N 6 HOH B 31 2031 2031 HOH HOH . N 6 HOH B 32 2032 2032 HOH HOH . N 6 HOH B 33 2033 2033 HOH HOH . N 6 HOH B 34 2034 2034 HOH HOH . N 6 HOH B 35 2035 2035 HOH HOH . N 6 HOH B 36 2036 2036 HOH HOH . N 6 HOH B 37 2037 2037 HOH HOH . N 6 HOH B 38 2038 2038 HOH HOH . N 6 HOH B 39 2039 2039 HOH HOH . N 6 HOH B 40 2040 2040 HOH HOH . N 6 HOH B 41 2041 2041 HOH HOH . N 6 HOH B 42 2042 2042 HOH HOH . N 6 HOH B 43 2043 2043 HOH HOH . N 6 HOH B 44 2044 2044 HOH HOH . N 6 HOH B 45 2045 2045 HOH HOH . N 6 HOH B 46 2046 2046 HOH HOH . N 6 HOH B 47 2047 2047 HOH HOH . N 6 HOH B 48 2048 2048 HOH HOH . N 6 HOH B 49 2049 2049 HOH HOH . N 6 HOH B 50 2050 2050 HOH HOH . N 6 HOH B 51 2051 2051 HOH HOH . N 6 HOH B 52 2052 2052 HOH HOH . N 6 HOH B 53 2053 2053 HOH HOH . N 6 HOH B 54 2054 2054 HOH HOH . N 6 HOH B 55 2055 2055 HOH HOH . N 6 HOH B 56 2056 2056 HOH HOH . N 6 HOH B 57 2057 2057 HOH HOH . N 6 HOH B 58 2058 2058 HOH HOH . N 6 HOH B 59 2059 2059 HOH HOH . N 6 HOH B 60 2060 2060 HOH HOH . N 6 HOH B 61 2061 2061 HOH HOH . N 6 HOH B 62 2062 2062 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CA _atom_site.label_atom_id CA _atom_site.label_comp_id CA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 3 _atom_site.Cartn_x 28.989 _atom_site.Cartn_y 31.411 _atom_site.Cartn_z 3.174 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 35.4 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 1376 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 523 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 1 #