data_1AFL # _model_server_result.job_id J3zViFh1FKweHwXxs4wS0g _model_server_result.datetime_utc '2024-11-24 16:24:12' _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 1afl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":125}' # _entry.id 1AFL # _exptl.entry_id 1AFL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-MONOPHOSPHOADENOSINE-5'-DIPHOSPHATE" _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 90.08 _cell.angle_gamma 90 _cell.entry_id 1AFL _cell.length_a 101.93 _cell.length_b 33.44 _cell.length_c 73.69 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1AFL _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_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,G 1 1 B,E,F,H 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 ? 2 C N N ? 2 E 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 26 A CYS 26 1_555 A SG CYS 84 A CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf2 A SG CYS 40 A CYS 40 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf3 A SG CYS 58 A CYS 58 1_555 A SG CYS 110 A CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf4 A SG CYS 65 A CYS 65 1_555 A SG CYS 72 A CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 B SG CYS 26 B CYS 26 1_555 B SG CYS 84 B CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf6 B SG CYS 40 B CYS 40 1_555 B SG CYS 95 B CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf7 B SG CYS 58 B CYS 58 1_555 B SG CYS 110 B CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 B SG CYS 65 B CYS 65 1_555 B SG CYS 72 B CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATR _chem_comp.mon_nstd_flag . _chem_comp.name "2'-MONOPHOSPHOADENOSINE-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 ATR doub 70 n n PB O2B ATR sing 71 n n PB O3B ATR sing 72 n n PB O3A ATR sing 73 n n O2B HOB2 ATR sing 74 n n O3B HOB3 ATR sing 75 n n PA O1A ATR doub 76 n n PA O2A ATR sing 77 n n PA O3A ATR sing 78 n n PA O5' ATR sing 79 n n O2A HOA2 ATR sing 80 n n O5' C5' ATR sing 81 n n C5' C4' ATR sing 82 n n C5' "H5'1" ATR sing 83 n n C5' "H5'2" ATR sing 84 n n C4' O4' ATR sing 85 n n C4' C3' ATR sing 86 n n C4' H4' ATR sing 87 n n O4' C1' ATR sing 88 n n C3' O3' ATR sing 89 n n C3' C2' ATR sing 90 n n C3' H3' ATR sing 91 n n O3' HO3' ATR sing 92 n n C2' O2' ATR sing 93 n n C2' C1' ATR sing 94 n n C2' H2' ATR sing 95 n n O2' P2' ATR sing 96 n n P2' O1P ATR doub 97 n n P2' O2P ATR sing 98 n n P2' O3P ATR sing 99 n n O2P HOP2 ATR sing 100 n n O3P HOP3 ATR sing 101 n n C1' N9 ATR sing 102 n n C1' H1' ATR sing 103 n n N9 C8 ATR sing 104 n y N9 C4 ATR sing 105 n y C8 N7 ATR doub 106 n y C8 H8 ATR sing 107 n n N7 C5 ATR sing 108 n y C5 C6 ATR sing 109 n y C5 C4 ATR doub 110 n y C6 N6 ATR sing 111 n n C6 N1 ATR doub 112 n y N6 HN61 ATR sing 113 n n N6 HN62 ATR sing 114 n n N1 C2 ATR sing 115 n y C2 N3 ATR doub 116 n y C2 H2 ATR sing 117 n n N3 C4 ATR sing 118 n y # _atom_sites.entry_id 1AFL _atom_sites.fract_transf_matrix[1][1] 0.009811 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000014 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.029904 _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] 0.01357 _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 ATR A 1 125 125 ATR ATR . D 3 CIT A 1 999 999 CIT CIT . E 2 ATR B 1 125 125 ATR ATR . F 3 CIT B 1 998 998 CIT CIT . G 4 HOH A 1 1000 1 HOH HOH . G 4 HOH A 2 1001 2 HOH HOH . G 4 HOH A 3 1002 3 HOH HOH . G 4 HOH A 4 1003 4 HOH HOH . G 4 HOH A 5 1004 5 HOH HOH . G 4 HOH A 6 1005 6 HOH HOH . G 4 HOH A 7 1006 7 HOH HOH . G 4 HOH A 8 1007 8 HOH HOH . G 4 HOH A 9 1008 9 HOH HOH . G 4 HOH A 10 1009 10 HOH HOH . G 4 HOH A 11 1010 11 HOH HOH . G 4 HOH A 12 1011 13 HOH HOH . G 4 HOH A 13 1012 15 HOH HOH . G 4 HOH A 14 1013 16 HOH HOH . G 4 HOH A 15 1014 18 HOH HOH . G 4 HOH A 16 1015 19 HOH HOH . G 4 HOH A 17 1016 20 HOH HOH . G 4 HOH A 18 1017 21 HOH HOH . G 4 HOH A 19 1018 22 HOH HOH . G 4 HOH A 20 1019 23 HOH HOH . G 4 HOH A 21 1020 24 HOH HOH . G 4 HOH A 22 1021 37 HOH HOH . G 4 HOH A 23 1022 53 HOH HOH . G 4 HOH A 24 1023 56 HOH HOH . G 4 HOH A 25 1024 57 HOH HOH . G 4 HOH A 26 1025 58 HOH HOH . G 4 HOH A 27 1026 60 HOH HOH . G 4 HOH A 28 1027 63 HOH HOH . G 4 HOH A 29 1028 64 HOH HOH . G 4 HOH A 30 1029 65 HOH HOH . G 4 HOH A 31 1030 70 HOH HOH . G 4 HOH A 32 1031 71 HOH HOH . G 4 HOH A 33 1032 74 HOH HOH . G 4 HOH A 34 1033 75 HOH HOH . G 4 HOH A 35 1034 78 HOH HOH . G 4 HOH A 36 1035 80 HOH HOH . G 4 HOH A 37 1036 81 HOH HOH . G 4 HOH A 38 1037 83 HOH HOH . G 4 HOH A 39 1038 84 HOH HOH . G 4 HOH A 40 1039 85 HOH HOH . G 4 HOH A 41 1040 86 HOH HOH . G 4 HOH A 42 1041 87 HOH HOH . G 4 HOH A 43 1042 88 HOH HOH . G 4 HOH A 44 1043 90 HOH HOH . G 4 HOH A 45 1044 91 HOH HOH . G 4 HOH A 46 1045 92 HOH HOH . G 4 HOH A 47 1046 93 HOH HOH . G 4 HOH A 48 1047 94 HOH HOH . G 4 HOH A 49 1048 96 HOH HOH . G 4 HOH A 50 1049 97 HOH HOH . G 4 HOH A 51 1050 98 HOH HOH . G 4 HOH A 52 1051 99 HOH HOH . G 4 HOH A 53 1052 101 HOH HOH . G 4 HOH A 54 1053 102 HOH HOH . G 4 HOH A 55 1054 103 HOH HOH . G 4 HOH A 56 1055 104 HOH HOH . G 4 HOH A 57 1056 106 HOH HOH . G 4 HOH A 58 1057 107 HOH HOH . G 4 HOH A 59 1058 108 HOH HOH . G 4 HOH A 60 1059 109 HOH HOH . G 4 HOH A 61 1060 110 HOH HOH . G 4 HOH A 62 1061 111 HOH HOH . G 4 HOH A 63 1062 116 HOH HOH . G 4 HOH A 64 1063 118 HOH HOH . G 4 HOH A 65 1064 119 HOH HOH . G 4 HOH A 66 1065 120 HOH HOH . G 4 HOH A 67 1066 122 HOH HOH . H 4 HOH B 1 999 12 HOH HOH . H 4 HOH B 2 1000 14 HOH HOH . H 4 HOH B 3 1001 17 HOH HOH . H 4 HOH B 4 1002 25 HOH HOH . H 4 HOH B 5 1003 26 HOH HOH . H 4 HOH B 6 1004 27 HOH HOH . H 4 HOH B 7 1005 28 HOH HOH . H 4 HOH B 8 1006 29 HOH HOH . H 4 HOH B 9 1007 30 HOH HOH . H 4 HOH B 10 1008 31 HOH HOH . H 4 HOH B 11 1009 32 HOH HOH . H 4 HOH B 12 1010 33 HOH HOH . H 4 HOH B 13 1011 34 HOH HOH . H 4 HOH B 14 1012 35 HOH HOH . H 4 HOH B 15 1013 36 HOH HOH . H 4 HOH B 16 1014 38 HOH HOH . H 4 HOH B 17 1015 39 HOH HOH . H 4 HOH B 18 1016 40 HOH HOH . H 4 HOH B 19 1017 41 HOH HOH . H 4 HOH B 20 1018 42 HOH HOH . H 4 HOH B 21 1019 43 HOH HOH . H 4 HOH B 22 1020 44 HOH HOH . H 4 HOH B 23 1021 45 HOH HOH . H 4 HOH B 24 1022 46 HOH HOH . H 4 HOH B 25 1023 47 HOH HOH . H 4 HOH B 26 1024 48 HOH HOH . H 4 HOH B 27 1025 49 HOH HOH . H 4 HOH B 28 1026 50 HOH HOH . H 4 HOH B 29 1027 51 HOH HOH . H 4 HOH B 30 1028 52 HOH HOH . H 4 HOH B 31 1029 54 HOH HOH . H 4 HOH B 32 1030 55 HOH HOH . H 4 HOH B 33 1031 59 HOH HOH . H 4 HOH B 34 1032 61 HOH HOH . H 4 HOH B 35 1033 62 HOH HOH . H 4 HOH B 36 1034 66 HOH HOH . H 4 HOH B 37 1035 67 HOH HOH . H 4 HOH B 38 1036 68 HOH HOH . H 4 HOH B 39 1037 69 HOH HOH . H 4 HOH B 40 1038 72 HOH HOH . H 4 HOH B 41 1039 73 HOH HOH . H 4 HOH B 42 1040 76 HOH HOH . H 4 HOH B 43 1041 77 HOH HOH . H 4 HOH B 44 1042 79 HOH HOH . H 4 HOH B 45 1043 82 HOH HOH . H 4 HOH B 46 1044 89 HOH HOH . H 4 HOH B 47 1045 95 HOH HOH . H 4 HOH B 48 1046 100 HOH HOH . H 4 HOH B 49 1047 105 HOH HOH . H 4 HOH B 50 1048 112 HOH HOH . H 4 HOH B 51 1049 113 HOH HOH . H 4 HOH B 52 1050 114 HOH HOH . H 4 HOH B 53 1051 115 HOH HOH . H 4 HOH B 54 1052 117 HOH HOH . H 4 HOH B 55 1053 121 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 ATR . . . C 2 37.241 -2.786 23.066 1 29.31 ? PB ATR 125 A 1 HETATM 2 O O1B ATR . . . C 2 37.837 -2.284 24.299 1 30.16 ? O1B ATR 125 A 1 HETATM 3 O O2B ATR . . . C 2 35.775 -2.898 23.126 1 26.88 ? O2B ATR 125 A 1 HETATM 4 O O3B ATR . . . C 2 37.813 -2.183 21.857 1 30.2 ? O3B ATR 125 A 1 HETATM 5 P PA ATR . . . C 2 38.965 -5.325 22.76 1 47.63 ? PA ATR 125 A 1 HETATM 6 O O1A ATR . . . C 2 38.398 -6.729 22.747 1 45.29 ? O1A ATR 125 A 1 HETATM 7 O O2A ATR . . . C 2 40.197 -4.969 23.613 1 45.68 ? O2A ATR 125 A 1 HETATM 8 O O3A ATR . . . C 2 37.564 -4.325 22.985 1 37.41 ? O3A ATR 125 A 1 HETATM 9 O O5' ATR . . . C 2 39.291 -5.001 21.157 1 45.57 ? O5' ATR 125 A 1 HETATM 10 C C5' ATR . . . C 2 38.008 -5.048 20.509 1 45.48 ? C5' ATR 125 A 1 HETATM 11 C C4' ATR . . . C 2 37.768 -6.304 19.848 1 44.91 ? C4' ATR 125 A 1 HETATM 12 O O4' ATR . . . C 2 36.874 -5.722 18.93 1 44.28 ? O4' ATR 125 A 1 HETATM 13 C C3' ATR . . . C 2 38.946 -7.041 19.057 1 46.1 ? C3' ATR 125 A 1 HETATM 14 O O3' ATR . . . C 2 39.537 -8.285 19.694 1 46.78 ? O3' ATR 125 A 1 HETATM 15 C C2' ATR . . . C 2 38.108 -7.472 17.868 1 46.81 ? C2' ATR 125 A 1 HETATM 16 O O2' ATR . . . C 2 37.476 -8.698 18.18 1 51.7 ? O2' ATR 125 A 1 HETATM 17 P P2' ATR . . . C 2 36.704 -9.46 16.942 1 55.77 ? P2' ATR 125 A 1 HETATM 18 O O1P ATR . . . C 2 35.579 -8.594 16.496 1 53.17 ? O1P ATR 125 A 1 HETATM 19 O O2P ATR . . . C 2 37.779 -9.688 15.918 1 53.98 ? O2P ATR 125 A 1 HETATM 20 O O3P ATR . . . C 2 36.362 -10.597 17.85 1 53.47 ? O3P ATR 125 A 1 HETATM 21 C C1' ATR . . . C 2 36.947 -6.48 17.756 1 42.75 ? C1' ATR 125 A 1 HETATM 22 N N9 ATR . . . C 2 36.905 -5.648 16.467 1 40.87 ? N9 ATR 125 A 1 HETATM 23 C C8 ATR . . . C 2 36.134 -6.034 15.355 1 39.11 ? C8 ATR 125 A 1 HETATM 24 N N7 ATR . . . C 2 36.017 -5.159 14.405 1 37.33 ? N7 ATR 125 A 1 HETATM 25 C C5 ATR . . . C 2 36.796 -4.054 14.909 1 37.44 ? C5 ATR 125 A 1 HETATM 26 C C6 ATR . . . C 2 37.043 -2.74 14.385 1 37.05 ? C6 ATR 125 A 1 HETATM 27 N N6 ATR . . . C 2 36.628 -2.386 13.143 1 34.32 ? N6 ATR 125 A 1 HETATM 28 N N1 ATR . . . C 2 37.794 -1.89 15.179 1 35.77 ? N1 ATR 125 A 1 HETATM 29 C C2 ATR . . . C 2 38.267 -2.318 16.346 1 35.45 ? C2 ATR 125 A 1 HETATM 30 N N3 ATR . . . C 2 38.125 -3.494 16.933 1 37.08 ? N3 ATR 125 A 1 HETATM 31 C C4 ATR . . . C 2 37.354 -4.343 16.162 1 38.11 ? C4 ATR 125 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #