data_1VAF # _model_server_result.job_id XhQnQsg5vOP2vQlqsplc-A _model_server_result.datetime_utc '2024-11-04 23:07:50' _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 1vaf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":901}' # _entry.id 1VAF # _exptl.entry_id 1VAF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 241.247 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5,6,7,8-TETRAHYDROBIOPTERIN _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 120 _cell.entry_id 1VAF _cell.length_a 216.344 _cell.length_b 216.344 _cell.length_c 117.835 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VAF _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 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 PISA,PQS dimeric 2 author_and_software_defined_assembly 1 PISA,PQS dimeric 2 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,K 1 1,2 B,G,H,I,J,L 2 1,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 10_665 -y+1,-x+1,-z+5/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 108.172 187.3594 98.195833 3 'crystal symmetry operation' 9_554 -x,-x+y,-z-1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 -39.278333 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 E N N ? 4 I 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 SG CYS 28 A CYS 104 1_555 C ZN ZN . A ZN 950 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc2 A SG CYS 28 A CYS 104 10_665 C ZN ZN . A ZN 950 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc3 A SG CYS 33 A CYS 109 1_555 C ZN ZN . A ZN 950 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.7 ? metalc ? metalc4 A SG CYS 33 A CYS 109 10_665 C ZN ZN . A ZN 950 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.476 ? metalc ? metalc5 A SG CYS 118 A CYS 194 1_555 D FE HEM . A HEM 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? metalc ? metalc6 B SG CYS 28 B CYS 104 1_555 G ZN ZN . B ZN 950 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc7 B SG CYS 28 B CYS 104 9_554 G ZN ZN . B ZN 950 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.524 ? metalc ? metalc8 B SG CYS 33 B CYS 109 1_555 G ZN ZN . B ZN 950 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.538 ? metalc ? metalc9 B SG CYS 33 B CYS 109 9_554 G ZN ZN . B ZN 950 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.435 ? metalc ? metalc10 B SG CYS 118 B CYS 194 1_555 H FE HEM . B HEM 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.649 ? # _chem_comp.formula 'C9 H15 N5 O3' _chem_comp.formula_weight 241.247 _chem_comp.id H4B _chem_comp.mon_nstd_flag . _chem_comp.name 5,6,7,8-TETRAHYDROBIOPTERIN _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 N1 C2 H4B doub 176 n y N1 C8A H4B sing 177 n y C2 N2 H4B sing 178 n n C2 N3 H4B sing 179 n y N2 HN21 H4B sing 180 n n N2 HN22 H4B sing 181 n n N3 C4 H4B sing 182 n y N3 HN3 H4B sing 183 n n C4 O4 H4B doub 184 n n C4 C4A H4B sing 185 n y C4A C8A H4B doub 186 n y C4A N5 H4B sing 187 n n C8A N8 H4B sing 188 n n N5 C6 H4B sing 189 n n N5 HN5 H4B sing 190 n n N8 C7 H4B sing 191 n n N8 HN8 H4B sing 192 n n C6 C7 H4B sing 193 n n C6 C9 H4B sing 194 n n C6 H6 H4B sing 195 n n C7 H71 H4B sing 196 n n C7 H72 H4B sing 197 n n C9 O9 H4B sing 198 n n C9 C10 H4B sing 199 n n C9 H9 H4B sing 200 n n O9 HO9 H4B sing 201 n n C10 C11 H4B sing 202 n n C10 O10 H4B sing 203 n n C10 H10 H4B sing 204 n n C11 H111 H4B sing 205 n n C11 H112 H4B sing 206 n n C11 H113 H4B sing 207 n n O10 HO0 H4B sing 208 n n # _atom_sites.entry_id 1VAF _atom_sites.fract_transf_matrix[1][1] 0.004622 _atom_sites.fract_transf_matrix[1][2] 0.002669 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005337 _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] 0.008486 _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 ZN A 1 950 950 ZN ZN2 . D 3 HEM A 1 900 900 HEM HEM . E 4 H4B A 1 901 901 H4B H4B . F 5 ARR A 1 902 902 ARR R17 . G 2 ZN B 1 950 950 ZN ZN2 . H 3 HEM B 1 900 900 HEM HEM . I 4 H4B B 1 1901 901 H4B H4B . J 5 ARR B 1 903 902 ARR R17 . K 6 HOH A 1 951 2 HOH HOH . K 6 HOH A 2 952 4 HOH HOH . K 6 HOH A 3 953 5 HOH HOH . K 6 HOH A 4 954 6 HOH HOH . K 6 HOH A 5 955 7 HOH HOH . K 6 HOH A 6 956 10 HOH HOH . K 6 HOH A 7 957 17 HOH HOH . K 6 HOH A 8 958 18 HOH HOH . K 6 HOH A 9 959 20 HOH HOH . K 6 HOH A 10 960 21 HOH HOH . K 6 HOH A 11 961 22 HOH HOH . K 6 HOH A 12 962 23 HOH HOH . K 6 HOH A 13 963 24 HOH HOH . K 6 HOH A 14 964 25 HOH HOH . K 6 HOH A 15 965 26 HOH HOH . K 6 HOH A 16 966 27 HOH HOH . K 6 HOH A 17 967 28 HOH HOH . K 6 HOH A 18 968 29 HOH HOH . K 6 HOH A 19 969 30 HOH HOH . K 6 HOH A 20 970 31 HOH HOH . K 6 HOH A 21 971 34 HOH HOH . K 6 HOH A 22 972 35 HOH HOH . K 6 HOH A 23 973 39 HOH HOH . K 6 HOH A 24 974 40 HOH HOH . K 6 HOH A 25 975 43 HOH HOH . K 6 HOH A 26 976 45 HOH HOH . K 6 HOH A 27 977 46 HOH HOH . K 6 HOH A 28 978 49 HOH HOH . K 6 HOH A 29 979 50 HOH HOH . K 6 HOH A 30 980 51 HOH HOH . K 6 HOH A 31 981 52 HOH HOH . K 6 HOH A 32 982 53 HOH HOH . K 6 HOH A 33 983 56 HOH HOH . K 6 HOH A 34 984 59 HOH HOH . K 6 HOH A 35 985 62 HOH HOH . K 6 HOH A 36 986 64 HOH HOH . K 6 HOH A 37 987 66 HOH HOH . K 6 HOH A 38 988 67 HOH HOH . K 6 HOH A 39 989 69 HOH HOH . K 6 HOH A 40 990 70 HOH HOH . K 6 HOH A 41 991 72 HOH HOH . K 6 HOH A 42 992 73 HOH HOH . K 6 HOH A 43 993 76 HOH HOH . K 6 HOH A 44 994 77 HOH HOH . K 6 HOH A 45 995 81 HOH HOH . K 6 HOH A 46 996 84 HOH HOH . K 6 HOH A 47 997 86 HOH HOH . K 6 HOH A 48 998 89 HOH HOH . K 6 HOH A 49 999 90 HOH HOH . K 6 HOH A 50 1000 91 HOH HOH . K 6 HOH A 51 1001 92 HOH HOH . K 6 HOH A 52 1002 94 HOH HOH . K 6 HOH A 53 1003 95 HOH HOH . K 6 HOH A 54 1004 96 HOH HOH . K 6 HOH A 55 1005 98 HOH HOH . K 6 HOH A 56 1006 100 HOH HOH . K 6 HOH A 57 1007 101 HOH HOH . K 6 HOH A 58 1008 107 HOH HOH . K 6 HOH A 59 1009 108 HOH HOH . K 6 HOH A 60 1010 109 HOH HOH . K 6 HOH A 61 1011 111 HOH HOH . K 6 HOH A 62 1012 114 HOH HOH . K 6 HOH A 63 1013 115 HOH HOH . K 6 HOH A 64 1014 121 HOH HOH . K 6 HOH A 65 1015 122 HOH HOH . K 6 HOH A 66 1016 123 HOH HOH . K 6 HOH A 67 1017 127 HOH HOH . K 6 HOH A 68 1018 129 HOH HOH . K 6 HOH A 69 1019 131 HOH HOH . K 6 HOH A 70 1020 132 HOH HOH . K 6 HOH A 71 1021 137 HOH HOH . K 6 HOH A 72 1022 138 HOH HOH . K 6 HOH A 73 1023 139 HOH HOH . K 6 HOH A 74 1024 140 HOH HOH . K 6 HOH A 75 1025 141 HOH HOH . K 6 HOH A 76 1026 142 HOH HOH . K 6 HOH A 77 1027 143 HOH HOH . K 6 HOH A 78 1028 146 HOH HOH . K 6 HOH A 79 1029 147 HOH HOH . K 6 HOH A 80 1030 148 HOH HOH . K 6 HOH A 81 1031 149 HOH HOH . K 6 HOH A 82 1032 150 HOH HOH . K 6 HOH A 83 1033 151 HOH HOH . K 6 HOH A 84 1034 152 HOH HOH . K 6 HOH A 85 1035 153 HOH HOH . K 6 HOH A 86 1036 154 HOH HOH . K 6 HOH A 87 1037 155 HOH HOH . K 6 HOH A 88 1038 156 HOH HOH . K 6 HOH A 89 1039 157 HOH HOH . L 6 HOH B 1 1902 1 HOH HOH . L 6 HOH B 2 1903 3 HOH HOH . L 6 HOH B 3 1904 8 HOH HOH . L 6 HOH B 4 1905 9 HOH HOH . L 6 HOH B 5 1906 11 HOH HOH . L 6 HOH B 6 1907 12 HOH HOH . L 6 HOH B 7 1908 13 HOH HOH . L 6 HOH B 8 1909 14 HOH HOH . L 6 HOH B 9 1910 15 HOH HOH . L 6 HOH B 10 1911 16 HOH HOH . L 6 HOH B 11 1912 19 HOH HOH . L 6 HOH B 12 1913 32 HOH HOH . L 6 HOH B 13 1914 33 HOH HOH . L 6 HOH B 14 1915 36 HOH HOH . L 6 HOH B 15 1916 37 HOH HOH . L 6 HOH B 16 1917 38 HOH HOH . L 6 HOH B 17 1918 41 HOH HOH . L 6 HOH B 18 1919 42 HOH HOH . L 6 HOH B 19 1920 44 HOH HOH . L 6 HOH B 20 1921 47 HOH HOH . L 6 HOH B 21 1922 48 HOH HOH . L 6 HOH B 22 1923 54 HOH HOH . L 6 HOH B 23 1924 55 HOH HOH . L 6 HOH B 24 1925 57 HOH HOH . L 6 HOH B 25 1926 58 HOH HOH . L 6 HOH B 26 1927 60 HOH HOH . L 6 HOH B 27 1928 61 HOH HOH . L 6 HOH B 28 1929 63 HOH HOH . L 6 HOH B 29 1930 65 HOH HOH . L 6 HOH B 30 1931 68 HOH HOH . L 6 HOH B 31 1932 71 HOH HOH . L 6 HOH B 32 1933 74 HOH HOH . L 6 HOH B 33 1934 75 HOH HOH . L 6 HOH B 34 1935 78 HOH HOH . L 6 HOH B 35 1936 79 HOH HOH . L 6 HOH B 36 1937 80 HOH HOH . L 6 HOH B 37 1938 82 HOH HOH . L 6 HOH B 38 1939 83 HOH HOH . L 6 HOH B 39 1940 85 HOH HOH . L 6 HOH B 40 1941 87 HOH HOH . L 6 HOH B 41 1942 88 HOH HOH . L 6 HOH B 42 1943 93 HOH HOH . L 6 HOH B 43 1944 97 HOH HOH . L 6 HOH B 44 1945 99 HOH HOH . L 6 HOH B 45 1946 102 HOH HOH . L 6 HOH B 46 1947 103 HOH HOH . L 6 HOH B 47 1948 104 HOH HOH . L 6 HOH B 48 1949 105 HOH HOH . L 6 HOH B 49 1950 106 HOH HOH . L 6 HOH B 50 1951 110 HOH HOH . L 6 HOH B 51 1952 112 HOH HOH . L 6 HOH B 52 1953 113 HOH HOH . L 6 HOH B 53 1954 116 HOH HOH . L 6 HOH B 54 1955 117 HOH HOH . L 6 HOH B 55 1956 118 HOH HOH . L 6 HOH B 56 1957 119 HOH HOH . L 6 HOH B 57 1958 120 HOH HOH . L 6 HOH B 58 1959 124 HOH HOH . L 6 HOH B 59 1960 125 HOH HOH . L 6 HOH B 60 1961 126 HOH HOH . L 6 HOH B 61 1962 128 HOH HOH . L 6 HOH B 62 1963 130 HOH HOH . L 6 HOH B 63 1964 133 HOH HOH . L 6 HOH B 64 1965 134 HOH HOH . L 6 HOH B 65 1966 135 HOH HOH . L 6 HOH B 66 1967 136 HOH HOH . L 6 HOH B 67 1968 144 HOH HOH . L 6 HOH B 68 1969 145 HOH HOH . L 6 HOH B 69 1970 158 HOH HOH . L 6 HOH B 70 1971 159 HOH HOH . L 6 HOH B 71 1972 160 HOH HOH . L 6 HOH B 72 1973 161 HOH HOH . L 6 HOH B 73 1974 162 HOH HOH . L 6 HOH B 74 1975 163 HOH HOH . L 6 HOH B 75 1976 164 HOH HOH . L 6 HOH B 76 1977 165 HOH HOH . L 6 HOH B 77 1978 166 HOH HOH . L 6 HOH B 78 1979 167 HOH HOH . L 6 HOH B 79 1980 168 HOH HOH . L 6 HOH B 80 1981 169 HOH HOH . L 6 HOH B 81 1982 170 HOH HOH . L 6 HOH B 82 1983 171 HOH HOH . L 6 HOH B 83 1984 172 HOH HOH . L 6 HOH B 84 1985 173 HOH HOH . L 6 HOH B 85 1986 174 HOH HOH . L 6 HOH B 86 1987 175 HOH HOH . L 6 HOH B 87 1988 176 HOH HOH . L 6 HOH B 88 1989 177 HOH HOH . L 6 HOH B 89 1990 178 HOH HOH . L 6 HOH B 90 1991 179 HOH HOH . L 6 HOH B 91 1992 180 HOH HOH . L 6 HOH B 92 1993 181 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 N1 H4B . . . E 4 -47.279 144.107 45.433 1 49.89 ? N1 H4B 901 A 1 HETATM 2 C C2 H4B . . . E 4 -48.242 143.202 45.144 1 50.1 ? C2 H4B 901 A 1 HETATM 3 N N2 H4B . . . E 4 -49.022 142.691 46.06 1 51.88 ? N2 H4B 901 A 1 HETATM 4 N N3 H4B . . . E 4 -48.384 142.826 43.85 1 48.62 ? N3 H4B 901 A 1 HETATM 5 C C4 H4B . . . E 4 -47.607 143.3 42.765 1 48.87 ? C4 H4B 901 A 1 HETATM 6 O O4 H4B . . . E 4 -47.844 142.876 41.625 1 50.44 ? O4 H4B 901 A 1 HETATM 7 C C4A H4B . . . E 4 -46.616 144.24 43.145 1 48.85 ? C4A H4B 901 A 1 HETATM 8 C C8A H4B . . . E 4 -46.453 144.644 44.464 1 49.57 ? C8A H4B 901 A 1 HETATM 9 N N5 H4B . . . E 4 -45.745 144.804 42.102 1 49.13 ? N5 H4B 901 A 1 HETATM 10 N N8 H4B . . . E 4 -45.518 145.539 44.827 1 50.36 ? N8 H4B 901 A 1 HETATM 11 C C6 H4B . . . E 4 -44.383 145.224 42.646 1 49.45 ? C6 H4B 901 A 1 HETATM 12 C C7 H4B . . . E 4 -44.606 146.142 43.827 1 49.37 ? C7 H4B 901 A 1 HETATM 13 C C9 H4B . . . E 4 -43.599 145.821 41.462 1 50.25 ? C9 H4B 901 A 1 HETATM 14 O O9 H4B . . . E 4 -44.263 146.938 40.901 1 51.96 ? O9 H4B 901 A 1 HETATM 15 C C10 H4B . . . E 4 -42.19 146.286 41.863 1 50.9 ? C10 H4B 901 A 1 HETATM 16 C C11 H4B . . . E 4 -41.431 146.846 40.719 1 48.93 ? C11 H4B 901 A 1 HETATM 17 O O10 H4B . . . E 4 -41.56 145.131 42.426 1 54.11 ? O10 H4B 901 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 17 #