data_4DJF # _model_server_result.job_id zX2BaDAHyAFxVcf5_QQH1Q _model_server_result.datetime_utc '2024-11-14 15:56:38' _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 4djf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":300}' # _entry.id 4DJF # _exptl.entry_id 4DJF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 459.456 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '5-METHYL-5,6,7,8-TETRAHYDROFOLIC ACID' _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 4DJF _cell.length_a 136.006 _cell.length_b 250.686 _cell.length_c 81.8 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4DJF _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,I,J,K,L,M,N,O,P,Q,R,S,T _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 ? 4 G 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 J CA CA . B CA 301 1_555 P O HOH . B HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.152 ? metalc ? metalc2 J CA CA . B CA 301 1_555 P O HOH . B HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.065 ? metalc ? metalc3 C SG CYS 17 C CYS 17 1_555 K FE2 SF4 . C SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc4 C SG CYS 20 C CYS 20 1_555 K FE1 SF4 . C SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc5 C SG CYS 25 C CYS 25 1_555 K FE4 SF4 . C SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc6 C SG CYS 42 C CYS 42 1_555 K FE3 SF4 . C SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc7 E SG CYS 17 E CYS 17 1_555 M FE2 SF4 . E SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc8 E SG CYS 20 E CYS 20 1_555 M FE1 SF4 . E SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc9 E SG CYS 25 E CYS 25 1_555 M FE4 SF4 . E SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc10 E SG CYS 42 E CYS 42 1_555 M FE3 SF4 . E SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? # _chem_comp.formula 'C20 H25 N7 O6' _chem_comp.formula_weight 459.456 _chem_comp.id C2F _chem_comp.mon_nstd_flag . _chem_comp.name '5-METHYL-5,6,7,8-TETRAHYDROFOLIC ACID' _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 C2F doub 70 n y N1 C8A C2F sing 71 n y C2 NA2 C2F sing 72 n n C2 N3 C2F sing 73 n y NA2 HN21 C2F sing 74 n n NA2 HN22 C2F sing 75 n n N3 C4 C2F sing 76 n y N3 HN3 C2F sing 77 n n C4 O4 C2F doub 78 n n C4 C4A C2F sing 79 n y C4A N5 C2F sing 80 n n C4A C8A C2F doub 81 n y N5 C6 C2F sing 82 n n N5 C11 C2F sing 83 n n C6 C7 C2F sing 84 n n C6 C9 C2F sing 85 n n C6 H6 C2F sing 86 n n C7 N8 C2F sing 87 n n C7 H71 C2F sing 88 n n C7 H72 C2F sing 89 n n N8 C8A C2F sing 90 n n N8 HN8 C2F sing 91 n n C9 N10 C2F sing 92 n n C9 H91 C2F sing 93 n n C9 H92 C2F sing 94 n n N10 C15 C2F sing 95 n n N10 HN1 C2F sing 96 n n C11 H111 C2F sing 97 n n C11 H112 C2F sing 98 n n C11 H113 C2F sing 99 n n C12 C13 C2F doub 100 n y C12 C17 C2F sing 101 n y C12 C C2F sing 102 n n C13 C14 C2F sing 103 n y C13 H13 C2F sing 104 n n C14 C15 C2F doub 105 n y C14 H14 C2F sing 106 n n C15 C16 C2F sing 107 n y C16 C17 C2F doub 108 n y C16 H16 C2F sing 109 n n C17 H17 C2F sing 110 n n C O C2F doub 111 n n C N C2F sing 112 n n N CA C2F sing 113 n n N HN C2F sing 114 n n CA CB C2F sing 115 n n CA CT C2F sing 116 n n CA HA C2F sing 117 n n CB CG C2F sing 118 n n CB HB1 C2F sing 119 n n CB HB2 C2F sing 120 n n CG CD C2F sing 121 n n CG HG1 C2F sing 122 n n CG HG2 C2F sing 123 n n CD OE1 C2F doub 124 n n CD OE2 C2F sing 125 n n OE2 HOE2 C2F sing 126 n n CT O1 C2F doub 127 n n CT O2 C2F sing 128 n n O2 HO2 C2F sing 129 n n # _atom_sites.entry_id 4DJF _atom_sites.fract_transf_matrix[1][1] 0.007353 _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] 0.003989 _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] 0.012225 _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 G 4 C2F A 1 300 300 C2F C2F . H 5 CA A 1 301 301 CA CA . I 4 C2F B 1 300 300 C2F C2F . J 5 CA B 1 301 301 CA CA . K 6 SF4 C 1 501 500 SF4 SF4 . L 7 COB C 1 502 600 COB B12 . M 6 SF4 E 1 501 500 SF4 SF4 . N 7 COB E 1 502 600 COB B12 . O 8 HOH A 1 401 1 HOH HOH . O 8 HOH A 2 402 2 HOH HOH . O 8 HOH A 3 403 5 HOH HOH . O 8 HOH A 4 404 6 HOH HOH . O 8 HOH A 5 405 7 HOH HOH . O 8 HOH A 6 406 8 HOH HOH . P 8 HOH B 1 401 3 HOH HOH . P 8 HOH B 2 402 4 HOH HOH . P 8 HOH B 3 403 9 HOH HOH . P 8 HOH B 4 404 12 HOH HOH . Q 8 HOH C 1 601 10 HOH HOH . R 8 HOH D 1 401 14 HOH HOH . S 8 HOH E 1 601 13 HOH HOH . T 8 HOH F 1 401 11 HOH HOH . T 8 HOH F 2 402 15 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 C2F . . . I 4 -13.59 75.932 -17.193 1 91.17 ? N1 C2F 300 B 1 HETATM 2 C C2 C2F . . . I 4 -12.283 75.663 -17.299 1 91.17 ? C2 C2F 300 B 1 HETATM 3 N NA2 C2F . . . I 4 -11.594 74.922 -16.18 1 91.17 ? NA2 C2F 300 B 1 HETATM 4 N N3 C2F . . . I 4 -11.568 76.032 -18.371 1 91.17 ? N3 C2F 300 B 1 HETATM 5 C C4 C2F . . . I 4 -12.16 76.695 -19.381 1 91.17 ? C4 C2F 300 B 1 HETATM 6 O O4 C2F . . . I 4 -11.428 77.077 -20.489 1 91.17 ? O4 C2F 300 B 1 HETATM 7 C C4A C2F . . . I 4 -13.52 76.996 -19.308 1 91.17 ? C4A C2F 300 B 1 HETATM 8 N N5 C2F . . . I 4 -14.133 77.702 -20.397 1 91.17 ? N5 C2F 300 B 1 HETATM 9 C C6 C2F . . . I 4 -15.565 77.751 -20.34 1 91.17 ? C6 C2F 300 B 1 HETATM 10 C C7 C2F . . . I 4 -16.129 77.856 -18.896 1 91.17 ? C7 C2F 300 B 1 HETATM 11 N N8 C2F . . . I 4 -15.617 76.854 -18.013 1 91.17 ? N8 C2F 300 B 1 HETATM 12 C C8A C2F . . . I 4 -14.23 76.594 -18.182 1 91.17 ? C8A C2F 300 B 1 HETATM 13 C C9 C2F . . . I 4 -16.127 76.529 -21.021 1 91.17 ? C9 C2F 300 B 1 HETATM 14 N N10 C2F . . . I 4 -17.473 76.616 -21.492 1 91.17 ? N10 C2F 300 B 1 HETATM 15 C C12 C2F . . . I 4 -18.365 78.61 -25.134 1 91.17 ? C12 C2F 300 B 1 HETATM 16 C C13 C2F . . . I 4 -19.26 78.65 -24.083 1 91.17 ? C13 C2F 300 B 1 HETATM 17 C C14 C2F . . . I 4 -18.97 77.999 -22.891 1 91.17 ? C14 C2F 300 B 1 HETATM 18 C C15 C2F . . . I 4 -17.773 77.305 -22.758 1 91.17 ? C15 C2F 300 B 1 HETATM 19 C C16 C2F . . . I 4 -16.867 77.261 -23.815 1 91.17 ? C16 C2F 300 B 1 HETATM 20 C C17 C2F . . . I 4 -17.164 77.913 -25.005 1 91.17 ? C17 C2F 300 B 1 HETATM 21 C C C2F . . . I 4 -18.702 79.312 -26.402 1 91.17 ? C C2F 300 B 1 HETATM 22 O O C2F . . . I 4 -18.075 79.065 -27.412 1 91.17 ? O C2F 300 B 1 HETATM 23 N N C2F . . . I 4 -19.79 80.277 -26.404 1 91.17 ? N C2F 300 B 1 HETATM 24 C CA C2F . . . I 4 -20.212 81.025 -27.597 1 91.17 ? CA C2F 300 B 1 HETATM 25 C CB C2F . . . I 4 -21.24 82.12 -27.298 1 91.17 ? CB C2F 300 B 1 HETATM 26 C CG C2F . . . I 4 -22.618 82.036 -27.973 1 91.17 ? CG C2F 300 B 1 HETATM 27 C CD C2F . . . I 4 -23.609 83.145 -27.663 1 91.17 ? CD C2F 300 B 1 HETATM 28 O OE1 C2F . . . I 4 -23.226 84.189 -27.029 1 91.17 ? OE1 C2F 300 B 1 HETATM 29 O OE2 C2F . . . I 4 -24.807 83.034 -28.026 1 91.17 ? OE2 C2F 300 B 1 HETATM 30 C CT C2F . . . I 4 -19.035 81.675 -28.252 1 91.17 ? CT C2F 300 B 1 HETATM 31 O O1 C2F . . . I 4 -18.046 82.067 -27.55 1 91.17 ? O1 C2F 300 B 1 HETATM 32 O O2 C2F . . . I 4 -19.026 81.842 -29.5 1 91.17 ? O2 C2F 300 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 32 #