data_3E8N # _model_server_result.job_id JSVDi80XM-LAGynUrxgpxw _model_server_result.datetime_utc '2024-11-26 20:34:11' _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 3e8n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":600}' # _entry.id 3E8N # _exptl.entry_id 3E8N _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 1 _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 3E8N _cell.length_a 82.261 _cell.length_b 82.261 _cell.length_c 129.778 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3E8N _symmetry.cell_setting ? _symmetry.Int_Tables_number 171 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62' # 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 PISA dimeric 2 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,B,C,D,E 1 1 A,B,C,D,E 2 1,2 # 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' 4_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 41.1305 71.240116 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 OD1 ASN 135 A ASN 195 1_555 B MG MG . A MG 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.889 ? metalc ? metalc2 A OD1 ASP 148 A ASP 208 1_555 B MG MG . A MG 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc3 B MG MG . A MG 500 1_555 C O2A ATP . A ATP 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc4 B MG MG . A MG 500 1_555 C O1B ATP . A ATP 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc5 B MG MG . A MG 500 1_555 E O HOH . A HOH 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc6 B MG MG . A MG 500 1_555 E O HOH . A HOH 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.98 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 PG O1G ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 3E8N _atom_sites.fract_transf_matrix[1][1] 0.012156 _atom_sites.fract_transf_matrix[1][2] 0.007019 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014037 _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] 0.007705 _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 B 2 MG A 1 500 500 MG MG . C 3 ATP A 1 600 600 ATP ATP . D 4 VRA A 1 1001 1001 VRA VRX . E 5 HOH A 1 1002 1 HOH TIP . E 5 HOH A 2 1003 2 HOH TIP . E 5 HOH A 3 1004 3 HOH TIP . E 5 HOH A 4 1005 4 HOH TIP . E 5 HOH A 5 1006 5 HOH TIP . E 5 HOH A 6 1007 6 HOH TIP . E 5 HOH A 7 1008 7 HOH TIP . E 5 HOH A 8 1009 8 HOH TIP . E 5 HOH A 9 1010 9 HOH TIP . E 5 HOH A 10 1011 10 HOH TIP . E 5 HOH A 11 1012 11 HOH TIP . E 5 HOH A 12 1013 12 HOH TIP . E 5 HOH A 13 1014 13 HOH TIP . E 5 HOH A 14 1015 14 HOH TIP . E 5 HOH A 15 1016 15 HOH TIP . E 5 HOH A 16 1017 16 HOH TIP . E 5 HOH A 17 1018 17 HOH TIP . E 5 HOH A 18 1019 18 HOH TIP . E 5 HOH A 19 1020 19 HOH TIP . E 5 HOH A 20 1021 20 HOH TIP . E 5 HOH A 21 1022 21 HOH TIP . E 5 HOH A 22 1023 22 HOH TIP . E 5 HOH A 23 1024 23 HOH TIP . E 5 HOH A 24 1025 24 HOH TIP . E 5 HOH A 25 1026 25 HOH TIP . E 5 HOH A 26 1027 26 HOH TIP . E 5 HOH A 27 1028 27 HOH TIP . E 5 HOH A 28 1029 28 HOH TIP . E 5 HOH A 29 1030 29 HOH TIP . E 5 HOH A 30 1031 30 HOH TIP . E 5 HOH A 31 1032 31 HOH TIP . E 5 HOH A 32 1033 32 HOH TIP . E 5 HOH A 33 1034 33 HOH TIP . E 5 HOH A 34 1035 34 HOH TIP . E 5 HOH A 35 1036 35 HOH TIP . E 5 HOH A 36 1037 36 HOH TIP . E 5 HOH A 37 1038 37 HOH TIP . E 5 HOH A 38 1039 38 HOH TIP . E 5 HOH A 39 1040 39 HOH TIP . E 5 HOH A 40 1041 40 HOH TIP . E 5 HOH A 41 1042 41 HOH TIP . E 5 HOH A 42 1043 42 HOH TIP . E 5 HOH A 43 1044 43 HOH TIP . E 5 HOH A 44 1045 44 HOH TIP . E 5 HOH A 45 1046 45 HOH TIP . E 5 HOH A 46 1047 46 HOH TIP . E 5 HOH A 47 1048 47 HOH TIP . E 5 HOH A 48 1049 48 HOH TIP . E 5 HOH A 49 1050 49 HOH TIP . E 5 HOH A 50 1051 50 HOH TIP . E 5 HOH A 51 1052 51 HOH TIP . E 5 HOH A 52 1053 52 HOH TIP . E 5 HOH A 53 1054 53 HOH TIP . E 5 HOH A 54 1055 54 HOH TIP . E 5 HOH A 55 1056 55 HOH TIP . E 5 HOH A 56 1057 56 HOH TIP . E 5 HOH A 57 1058 57 HOH TIP . E 5 HOH A 58 1059 58 HOH TIP . E 5 HOH A 59 1060 59 HOH TIP . E 5 HOH A 60 1061 60 HOH TIP . E 5 HOH A 61 1062 61 HOH TIP . E 5 HOH A 62 1063 62 HOH TIP . E 5 HOH A 63 1064 63 HOH TIP . E 5 HOH A 64 1065 64 HOH TIP . E 5 HOH A 65 1066 65 HOH TIP . # 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 PG ATP . . . C 3 28.949 36.182 37.391 1 50.63 ? PG ATP 600 A 1 HETATM 2 O O1G ATP . . . C 3 27.666 36.892 37.038 1 52.32 ? O1G ATP 600 A 1 HETATM 3 O O2G ATP . . . C 3 29.706 35.679 36.184 1 50.41 ? O2G ATP 600 A 1 HETATM 4 O O3G ATP . . . C 3 28.701 35.124 38.405 1 43.75 ? O3G ATP 600 A 1 HETATM 5 P PB ATP . . . C 3 30.99 37.222 39.137 1 43.56 ? PB ATP 600 A 1 HETATM 6 O O1B ATP . . . C 3 32.012 36.255 38.645 1 44.9 ? O1B ATP 600 A 1 HETATM 7 O O2B ATP . . . C 3 31.404 38.613 39.474 1 44.62 ? O2B ATP 600 A 1 HETATM 8 O O3B ATP . . . C 3 29.822 37.368 38.059 1 48.99 ? O3B ATP 600 A 1 HETATM 9 P PA ATP . . . C 3 30.865 35.739 41.589 1 44.26 ? PA ATP 600 A 1 HETATM 10 O O1A ATP . . . C 3 29.753 35.355 42.528 1 43.06 ? O1A ATP 600 A 1 HETATM 11 O O2A ATP . . . C 3 31.701 34.635 41.001 1 42.94 ? O2A ATP 600 A 1 HETATM 12 O O3A ATP . . . C 3 30.219 36.603 40.397 1 43.72 ? O3A ATP 600 A 1 HETATM 13 O O5' ATP . . . C 3 31.818 36.749 42.382 1 42.41 ? O5' ATP 600 A 1 HETATM 14 C C5' ATP . . . C 3 31.389 38.05 42.778 1 43.01 ? C5' ATP 600 A 1 HETATM 15 C C4' ATP . . . C 3 32.578 38.95 43.133 1 45.58 ? C4' ATP 600 A 1 HETATM 16 O O4' ATP . . . C 3 33.199 38.459 44.333 1 45.15 ? O4' ATP 600 A 1 HETATM 17 C C3' ATP . . . C 3 33.698 38.995 42.077 1 46.92 ? C3' ATP 600 A 1 HETATM 18 O O3' ATP . . . C 3 33.551 40.055 41.115 1 47.52 ? O3' ATP 600 A 1 HETATM 19 C C2' ATP . . . C 3 34.976 39.093 42.89 1 46.26 ? C2' ATP 600 A 1 HETATM 20 O O2' ATP . . . C 3 35.488 40.415 42.901 1 49.07 ? O2' ATP 600 A 1 HETATM 21 C C1' ATP . . . C 3 34.622 38.636 44.291 1 44.34 ? C1' ATP 600 A 1 HETATM 22 N N9 ATP . . . C 3 35.311 37.353 44.625 1 42.79 ? N9 ATP 600 A 1 HETATM 23 C C8 ATP . . . C 3 34.946 36.117 44.221 1 43.68 ? C8 ATP 600 A 1 HETATM 24 N N7 ATP . . . C 3 35.798 35.182 44.7 1 43.49 ? N7 ATP 600 A 1 HETATM 25 C C5 ATP . . . C 3 36.73 35.798 45.418 1 42.47 ? C5 ATP 600 A 1 HETATM 26 C C6 ATP . . . C 3 37.947 35.403 46.208 1 43.36 ? C6 ATP 600 A 1 HETATM 27 N N6 ATP . . . C 3 38.323 34.098 46.314 1 37.64 ? N6 ATP 600 A 1 HETATM 28 N N1 ATP . . . C 3 38.662 36.39 46.818 1 40.51 ? N1 ATP 600 A 1 HETATM 29 C C2 ATP . . . C 3 38.324 37.698 46.738 1 39.16 ? C2 ATP 600 A 1 HETATM 30 N N3 ATP . . . C 3 37.232 38.111 46.04 1 44.29 ? N3 ATP 600 A 1 HETATM 31 C C4 ATP . . . C 3 36.422 37.241 45.369 1 43.02 ? C4 ATP 600 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 249 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #