data_8SLF # _model_server_result.job_id xYwlTJW69vALfbt2sxcIVw _model_server_result.datetime_utc '2025-07-21 05:38:12' _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 8slf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 8SLF # _exptl.entry_id 8SLF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ADENOSINE MONOPHOSPHATE' _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 104.2 _cell.angle_gamma 90 _cell.entry_id 8SLF _cell.length_a 173.757 _cell.length_b 86.297 _cell.length_c 98.986 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8SLF _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 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 482 A CYS 461 1_555 B SG CYS 482 B CYS 461 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? metalc ? metalc1 A O VAL 75 A VAL 54 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.616 ? metalc ? metalc2 A O ARG 78 A ARG 57 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.996 ? metalc ? metalc3 A O VAL 81 A VAL 60 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.748 ? metalc ? metalc4 B O VAL 75 B VAL 54 1_555 G MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? metalc ? metalc5 B O ARG 78 B ARG 57 1_555 G MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.766 ? metalc ? metalc6 B O VAL 81 B VAL 60 1_555 G MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.766 ? metalc ? metalc7 B SG CYS 111 B CYS 90 1_555 F ZN ZN . B ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc8 B SG CYS 114 B CYS 93 1_555 F ZN ZN . B ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc9 B SG CYS 146 B CYS 125 1_555 F ZN ZN . B ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.358 ? metalc ? metalc10 B SG CYS 149 B CYS 128 1_555 F ZN ZN . B ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? # _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 8SLF _atom_sites.fract_transf_matrix[1][1] 0.005755 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001457 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011588 _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] 0.010421 _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 AMP A 1 501 1 AMP AMP . D 3 MG A 1 502 3 MG MG . E 2 AMP B 1 501 2 AMP AMP . F 4 ZN B 1 502 1 ZN ZN . G 3 MG B 1 503 4 MG MG . # 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 . . . C 2 -22.812 34.964 0.378 1 120.66 ? P AMP 501 A 1 HETATM 2 O O1P AMP . . . C 2 -21.79 35.235 -0.7 1 121.85 ? O1P AMP 501 A 1 HETATM 3 O O2P AMP . . . C 2 -23.294 33.538 0.44 1 109.46 ? O2P AMP 501 A 1 HETATM 4 O O3P AMP . . . C 2 -23.898 36.01 0.51 1 93.82 ? O3P AMP 501 A 1 HETATM 5 O O5' AMP . . . C 2 -21.976 35.003 1.734 1 115.58 ? O5' AMP 501 A 1 HETATM 6 C C5' AMP . . . C 2 -21.18 36.124 2.099 1 107.38 ? C5' AMP 501 A 1 HETATM 7 C C4' AMP . . . C 2 -20.335 35.827 3.316 1 104.18 ? C4' AMP 501 A 1 HETATM 8 O O4' AMP . . . C 2 -21.183 35.415 4.418 1 103.3 ? O4' AMP 501 A 1 HETATM 9 C C3' AMP . . . C 2 -19.352 34.677 3.162 1 102.12 ? C3' AMP 501 A 1 HETATM 10 O O3' AMP . . . C 2 -18.163 35.044 2.483 1 88.18 ? O3' AMP 501 A 1 HETATM 11 C C2' AMP . . . C 2 -19.125 34.22 4.603 1 101.65 ? C2' AMP 501 A 1 HETATM 12 O O2' AMP . . . C 2 -18.121 34.992 5.249 1 96.45 ? O2' AMP 501 A 1 HETATM 13 C C1' AMP . . . C 2 -20.477 34.525 5.259 1 109.8 ? C1' AMP 501 A 1 HETATM 14 N N9 AMP . . . C 2 -21.281 33.301 5.446 1 107.1 ? N9 AMP 501 A 1 HETATM 15 C C8 AMP . . . C 2 -22.181 32.794 4.574 1 100.65 ? C8 AMP 501 A 1 HETATM 16 N N7 AMP . . . C 2 -22.73 31.653 5.065 1 97.71 ? N7 AMP 501 A 1 HETATM 17 C C5 AMP . . . C 2 -22.173 31.417 6.264 1 105.77 ? C5 AMP 501 A 1 HETATM 18 C C6 AMP . . . C 2 -22.306 30.374 7.299 1 113.57 ? C6 AMP 501 A 1 HETATM 19 N N6 AMP . . . C 2 -23.177 29.346 7.12 1 106.09 ? N6 AMP 501 A 1 HETATM 20 N N1 AMP . . . C 2 -21.534 30.506 8.405 1 106.49 ? N1 AMP 501 A 1 HETATM 21 C C2 AMP . . . C 2 -20.67 31.529 8.581 1 91.61 ? C2 AMP 501 A 1 HETATM 22 N N3 AMP . . . C 2 -20.504 32.505 7.672 1 96.12 ? N3 AMP 501 A 1 HETATM 23 C C4 AMP . . . C 2 -21.216 32.504 6.516 1 107.77 ? C4 AMP 501 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 246 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 23 #