data_7CYF # _model_server_result.job_id 3OTkZRM9Lsa2252EqYJXAw _model_server_result.datetime_utc '2025-08-31 23:10:35' _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 7cyf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":201}' # _entry.id 7CYF # _exptl.entry_id 7CYF _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 347.221 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ADENOSINE MONOPHOSPHATE' _entity.pdbx_number_of_molecules 3 _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 7CYF _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7CYF _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details author_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 _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 ? _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 J N N ? 4 K N N ? 4 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 disulf ? disulf1 D SG CYS 105 D CYS 105 1_555 D SG CYS 110 D CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf2 E SG CYS 105 E CYS 105 1_555 E SG CYS 110 E CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf3 F SG CYS 105 F CYS 105 1_555 F SG CYS 110 F CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? metalc ? metalc1 A O PHE 110 A PHE 110 1_555 G NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? metalc ? metalc2 A O GLY 111 A GLY 111 1_555 G NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.933 ? metalc ? metalc3 A O ALA 112 A ALA 112 1_555 G NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.744 ? metalc ? metalc4 A O ALA 320 A ALA 320 1_555 G NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.648 ? metalc ? metalc5 A O SER 322 A SER 322 1_555 G NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? metalc ? metalc6 B O PHE 110 B PHE 110 1_555 H NA NA . B NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc7 B O GLY 111 B GLY 111 1_555 H NA NA . B NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.861 ? metalc ? metalc8 B O ALA 112 B ALA 112 1_555 H NA NA . B NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc9 B O ALA 320 B ALA 320 1_555 H NA NA . B NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.731 ? metalc ? metalc10 B O SER 322 B SER 322 1_555 H NA NA . B NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.741 ? metalc ? metalc11 C O PHE 110 C PHE 110 1_555 I NA NA . C NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? metalc ? metalc12 C O GLY 111 C GLY 111 1_555 I NA NA . C NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.927 ? metalc ? metalc13 C O ALA 112 C ALA 112 1_555 I NA NA . C NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.616 ? metalc ? metalc14 C O ALA 320 C ALA 320 1_555 I NA NA . C NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.703 ? metalc ? metalc15 C O SER 322 C SER 322 1_555 I NA NA . C NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.494 ? # _chem_comp.formula 'C10 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id AMP _chem_comp.mon_nstd_flag . _chem_comp.name 'ADENOSINE MONOPHOSPHATE' _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 P O1P AMP doub 13 n n P O2P AMP sing 14 n n P O3P AMP sing 15 n n P O5' AMP sing 16 n n O2P HOP2 AMP sing 17 n n O3P HOP3 AMP sing 18 n n O5' C5' AMP sing 19 n n C5' C4' AMP sing 20 n n C5' "H5'1" AMP sing 21 n n C5' "H5'2" AMP sing 22 n n C4' O4' AMP sing 23 n n C4' C3' AMP sing 24 n n C4' H4' AMP sing 25 n n O4' C1' AMP sing 26 n n C3' O3' AMP sing 27 n n C3' C2' AMP sing 28 n n C3' H3' AMP sing 29 n n O3' HO3' AMP sing 30 n n C2' O2' AMP sing 31 n n C2' C1' AMP sing 32 n n C2' H2' AMP sing 33 n n O2' HO2' AMP sing 34 n n C1' N9 AMP sing 35 n n C1' H1' AMP sing 36 n n N9 C8 AMP sing 37 n y N9 C4 AMP sing 38 n y C8 N7 AMP doub 39 n y C8 H8 AMP sing 40 n n N7 C5 AMP sing 41 n y C5 C6 AMP sing 42 n y C5 C4 AMP doub 43 n y C6 N6 AMP sing 44 n n C6 N1 AMP doub 45 n y N6 HN61 AMP sing 46 n n N6 HN62 AMP sing 47 n n N1 C2 AMP sing 48 n y C2 N3 AMP doub 49 n y C2 H2 AMP sing 50 n n N3 C4 AMP sing 51 n y # _atom_sites.entry_id 7CYF _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 3 NA A 1 401 1 NA NA . H 3 NA B 1 401 2 NA NA . I 3 NA C 1 401 3 NA NA . J 4 AMP D 1 201 201 AMP AMP . K 4 AMP E 1 201 201 AMP AMP . L 4 AMP F 1 201 201 AMP AMP . # 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 P AMP . . . J 4 121.186 100.618 126.336 1 39.51 ? P AMP 201 D 1 HETATM 2 O O1P AMP . . . J 4 121.944 101.046 125.122 1 39.51 -1 O1P AMP 201 D 1 HETATM 3 O O2P AMP . . . J 4 121.023 99.132 126.472 1 39.51 ? O2P AMP 201 D 1 HETATM 4 O O3P AMP . . . J 4 121.543 101.32 127.613 1 39.51 ? O3P AMP 201 D 1 HETATM 5 O O5' AMP . . . J 4 119.729 101.129 125.979 1 39.51 ? O5' AMP 201 D 1 HETATM 6 C C5' AMP . . . J 4 118.752 100.233 125.474 1 39.51 ? C5' AMP 201 D 1 HETATM 7 C C4' AMP . . . J 4 117.369 100.823 125.531 1 39.51 ? C4' AMP 201 D 1 HETATM 8 O O4' AMP . . . J 4 117.098 101.244 126.887 1 39.51 ? O4' AMP 201 D 1 HETATM 9 C C3' AMP . . . J 4 117.135 102.04 124.643 1 39.51 ? C3' AMP 201 D 1 HETATM 10 O O3' AMP . . . J 4 115.819 101.984 124.107 1 39.51 ? O3' AMP 201 D 1 HETATM 11 C C2' AMP . . . J 4 117.207 103.203 125.613 1 39.51 ? C2' AMP 201 D 1 HETATM 12 O O2' AMP . . . J 4 116.436 104.315 125.23 1 39.51 ? O2' AMP 201 D 1 HETATM 13 C C1' AMP . . . J 4 116.676 102.584 126.895 1 39.51 ? C1' AMP 201 D 1 HETATM 14 N N9 AMP . . . J 4 117.228 103.21 128.087 1 39.51 ? N9 AMP 201 D 1 HETATM 15 C C8 AMP . . . J 4 118.47 103.028 128.549 1 39.51 ? C8 AMP 201 D 1 HETATM 16 N N7 AMP . . . J 4 118.687 103.762 129.659 1 39.51 ? N7 AMP 201 D 1 HETATM 17 C C5 AMP . . . J 4 117.56 104.438 129.906 1 39.51 ? C5 AMP 201 D 1 HETATM 18 C C6 AMP . . . J 4 117.108 105.393 130.921 1 39.51 ? C6 AMP 201 D 1 HETATM 19 N N6 AMP . . . J 4 117.926 105.781 131.919 1 39.51 ? N6 AMP 201 D 1 HETATM 20 N N1 AMP . . . J 4 115.859 105.862 130.815 1 39.51 ? N1 AMP 201 D 1 HETATM 21 C C2 AMP . . . J 4 115.035 105.482 129.834 1 39.51 ? C2 AMP 201 D 1 HETATM 22 N N3 AMP . . . J 4 115.377 104.616 128.878 1 39.51 ? N3 AMP 201 D 1 HETATM 23 C C4 AMP . . . J 4 116.605 104.074 128.865 1 39.51 ? C4 AMP 201 D 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 394 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 23 #