data_1ZFN # _model_server_result.job_id s1Pb0cXNUgpLUUN7f8qkkA _model_server_result.datetime_utc '2025-01-03 00:34:16' _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 1zfn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":346}' # _entry.id 1ZFN # _exptl.entry_id 1ZFN _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 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 1ZFN _cell.length_a 360.3 _cell.length_b 360.3 _cell.length_c 360.3 _cell.Z_PDB 384 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1ZFN _symmetry.cell_setting ? _symmetry.Int_Tables_number 210 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'F 41 3 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dodecameric 12 software_defined_assembly 3 PISA octameric 8 software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H 1 1 C,D,I,J,K,L 2 1 A,B,C,D,E,F,G,H,I,J,K,L 3 1,2,3 A,B,C,D,E,F,G,H,I,J,K,L 4 1,4 # 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' 7_554 -z,-x+1/2,y-1/2 0 0 -1 -1 0 0 0 1 0 0 180.15 -180.15 3 'crystal symmetry operation' 10_555 -y+1/2,z+1/2,-x 0 -1 0 0 0 1 -1 0 0 180.15 180.15 0 4 'crystal symmetry operation' 14_555 -y+1/4,-x+1/4,-z+1/4 0 -1 0 -1 0 0 0 0 -1 90.075 90.075 90.075 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 F N N ? 3 H N N ? 3 J 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 SG CYS 171 A CYS 169 1_555 E ZN ZN . A ZN 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? metalc ? metalc2 A SG CYS 174 A CYS 172 1_555 E ZN ZN . A ZN 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc3 A SG CYS 242 A CYS 240 1_555 E ZN ZN . A ZN 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? metalc ? metalc4 B SG CYS 171 B CYS 169 1_555 G ZN ZN . B ZN 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? metalc ? metalc5 B SG CYS 174 B CYS 172 1_555 G ZN ZN . B ZN 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc6 B SG CYS 242 B CYS 240 1_555 G ZN ZN . B ZN 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.678 ? metalc ? metalc7 B SG CYS 245 B CYS 243 1_555 G ZN ZN . B ZN 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.393 ? metalc ? metalc8 C SG CYS 171 C CYS 169 1_555 I ZN ZN . C ZN 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? metalc ? metalc9 C SG CYS 174 C CYS 172 1_555 I ZN ZN . C ZN 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? metalc ? metalc10 C SG CYS 242 C CYS 240 1_555 I ZN ZN . C ZN 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc11 C SG CYS 245 C CYS 243 1_555 I ZN ZN . C ZN 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.514 ? metalc ? metalc12 D SG CYS 171 D CYS 169 1_555 K ZN ZN . D ZN 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc13 D SG CYS 174 D CYS 172 1_555 K ZN ZN . D ZN 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? metalc ? metalc14 D SG CYS 242 D CYS 240 1_555 K ZN ZN . D ZN 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.545 ? metalc ? metalc15 D SG CYS 245 D CYS 243 1_555 K ZN ZN . D ZN 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? # _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 1ZFN _atom_sites.fract_transf_matrix[1][1] 0.002775 _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] 0.002775 _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] 0.002775 _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 E 2 ZN A 1 252 245 ZN ZN . F 3 ATP A 1 253 3 ATP ATP . G 2 ZN B 1 252 245 ZN ZN . H 3 ATP B 1 253 4 ATP ATP . I 2 ZN C 1 345 245 ZN ZN . J 3 ATP C 1 346 1 ATP ATP . K 2 ZN D 1 445 245 ZN ZN . L 3 ATP D 1 446 2 ATP ATP . # 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 . . . J 3 -70.008 180.911 67.179 1 94.64 ? PG ATP 346 C 1 HETATM 2 O O1G ATP . . . J 3 -71.163 181.588 67.797 1 92.14 ? O1G ATP 346 C 1 HETATM 3 O O2G ATP . . . J 3 -69.53 179.453 67.733 1 93.17 ? O2G ATP 346 C 1 HETATM 4 O O3G ATP . . . J 3 -70.384 181.041 65.69 1 92.37 ? O3G ATP 346 C 1 HETATM 5 P PB ATP . . . J 3 -68.521 183.16 68.23 1 85.61 ? PB ATP 346 C 1 HETATM 6 O O1B ATP . . . J 3 -69.492 184.297 68.042 1 85.38 ? O1B ATP 346 C 1 HETATM 7 O O2B ATP . . . J 3 -67.625 183.237 69.462 1 86.73 ? O2B ATP 346 C 1 HETATM 8 O O3B ATP . . . J 3 -68.675 181.791 67.404 1 89.9 ? O3B ATP 346 C 1 HETATM 9 P PA ATP . . . J 3 -66.965 184.651 66.208 1 69.83 ? PA ATP 346 C 1 HETATM 10 O O1A ATP . . . J 3 -65.583 184.591 65.846 1 67.42 ? O1A ATP 346 C 1 HETATM 11 O O2A ATP . . . J 3 -68.098 184.898 65.122 1 71.12 ? O2A ATP 346 C 1 HETATM 12 O O3A ATP . . . J 3 -67.204 183.41 67.231 1 78.5 ? O3A ATP 346 C 1 HETATM 13 O O5' ATP . . . J 3 -67.12 185.818 67.262 1 67.42 ? O5' ATP 346 C 1 HETATM 14 C C5' ATP . . . J 3 -66.108 186.662 67.609 1 63.36 ? C5' ATP 346 C 1 HETATM 15 C C4' ATP . . . J 3 -66.108 187.172 69.073 1 61.32 ? C4' ATP 346 C 1 HETATM 16 O O4' ATP . . . J 3 -66.44 188.486 69.431 1 59.59 ? O4' ATP 346 C 1 HETATM 17 C C3' ATP . . . J 3 -66.853 186.22 70.116 1 60.54 ? C3' ATP 346 C 1 HETATM 18 O O3' ATP . . . J 3 -65.983 185.49 70.968 1 60.54 ? O3' ATP 346 C 1 HETATM 19 C C2' ATP . . . J 3 -67.899 187.218 70.585 1 59.89 ? C2' ATP 346 C 1 HETATM 20 O O2' ATP . . . J 3 -68.256 186.825 71.889 1 59.82 ? O2' ATP 346 C 1 HETATM 21 C C1' ATP . . . J 3 -67.227 188.532 70.574 1 59.5 ? C1' ATP 346 C 1 HETATM 22 N N9 ATP . . . J 3 -68.075 189.743 70.511 1 58.87 ? N9 ATP 346 C 1 HETATM 23 C C8 ATP . . . J 3 -69.216 189.98 69.807 1 60.13 ? C8 ATP 346 C 1 HETATM 24 N N7 ATP . . . J 3 -69.648 191.241 70.043 1 60.45 ? N7 ATP 346 C 1 HETATM 25 C C5 ATP . . . J 3 -68.778 191.817 70.905 1 58.85 ? C5 ATP 346 C 1 HETATM 26 C C6 ATP . . . J 3 -68.708 193.118 71.52 1 57.77 ? C6 ATP 346 C 1 HETATM 27 N N6 ATP . . . J 3 -69.575 194.118 71.351 1 54.11 ? N6 ATP 346 C 1 HETATM 28 N N1 ATP . . . J 3 -67.653 193.363 72.37 1 57.86 ? N1 ATP 346 C 1 HETATM 29 C C2 ATP . . . J 3 -66.684 192.402 72.64 1 59.14 ? C2 ATP 346 C 1 HETATM 30 N N3 ATP . . . J 3 -66.771 191.159 72.039 1 58.42 ? N3 ATP 346 C 1 HETATM 31 C C4 ATP . . . J 3 -67.795 190.872 71.197 1 58.65 ? C4 ATP 346 C 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 31 #