data_8F5B # _model_server_result.job_id m_MmAvj3utNlYyzxscHC-g _model_server_result.datetime_utc '2024-12-26 12:57:39' _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 8f5b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":2305}' # _entry.id 8F5B # _exptl.entry_id 8F5B _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 506.196 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 _cell.angle_gamma 90 _cell.entry_id 8F5B _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8F5B _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,H _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 ? 5 G N N ? 5 H N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 B 1 NAG B 1 NAG 2 n B NAG 2 B 2 NAG B 2 NAG 2 n B BMA 3 B 3 BMA B 3 BMA 2 n C NAG 1 C 1 NAG C 1 NAG 2 n C NAG 2 C 2 NAG C 2 NAG 2 n C BMA 3 C 3 BMA C 3 BMA # 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 54 A CYS 54 1_555 A SG CYS 81 A CYS 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 A SG CYS 75 A CYS 75 1_555 A SG CYS 324 A CYS 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf3 A SG CYS 370 A CYS 370 1_555 A SG CYS 519 A CYS 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 2133 A CYS 2133 1_555 A SG CYS 2137 A CYS 2137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 98 A ASN 98 1_555 D C1 NAG . A NAG 2301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale2 A ND2 ASN 415 A ASN 415 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale3 A ND2 ASN 1529 A ASN 1529 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale4 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.392 ? covale ? covale5 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.392 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.393 ? covale ? covale7 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.393 ? metalc ? metalc1 A OG1 THR 970 A THR 970 1_555 F MG MG . A MG 2303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? metalc ? metalc2 A OE1 GLN 1010 A GLN 1010 1_555 F MG MG . A MG 2303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc3 A OG1 THR 1979 A THR 1979 1_555 E MG MG . A MG 2302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? metalc ? metalc4 A OE1 GLN 2019 A GLN 2019 1_555 E MG MG . A MG 2302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.746 ? metalc ? metalc5 E MG MG . A MG 2302 1_555 G O2G ANP . A ANP 2304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? metalc ? metalc6 E MG MG . A MG 2302 1_555 G O3G ANP . A ANP 2304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? metalc ? metalc7 E MG MG . A MG 2302 1_555 G O1B ANP . A ANP 2304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.748 ? metalc ? metalc8 F MG MG . A MG 2303 1_555 H O2B ANP . A ANP 2305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3 ? metalc ? metalc9 F MG MG . A MG 2303 1_555 H O1G ANP . A ANP 2305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.863 ? metalc ? metalc10 F MG MG . A MG 2303 1_555 H O1B ANP . A ANP 2305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.885 ? # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id ANP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 ANP doub 13 n n PG O2G ANP sing 14 n n PG O3G ANP sing 15 n n PG N3B ANP sing 16 n n O2G HOG2 ANP sing 17 n n O3G HOG3 ANP sing 18 n n PB O1B ANP doub 19 n n PB O2B ANP sing 20 n n PB N3B ANP sing 21 n n PB O3A ANP sing 22 n n O2B HOB2 ANP sing 23 n n N3B HNB1 ANP sing 24 n n PA O1A ANP doub 25 n n PA O2A ANP sing 26 n n PA O3A ANP sing 27 n n PA O5' ANP sing 28 n n O2A HOA2 ANP sing 29 n n O5' C5' ANP sing 30 n n C5' C4' ANP sing 31 n n C5' "H5'1" ANP sing 32 n n C5' "H5'2" ANP sing 33 n n C4' O4' ANP sing 34 n n C4' C3' ANP sing 35 n n C4' H4' ANP sing 36 n n O4' C1' ANP sing 37 n n C3' O3' ANP sing 38 n n C3' C2' ANP sing 39 n n C3' H3' ANP sing 40 n n O3' HO3' ANP sing 41 n n C2' O2' ANP sing 42 n n C2' C1' ANP sing 43 n n C2' H2' ANP sing 44 n n O2' HO2' ANP sing 45 n n C1' N9 ANP sing 46 n n C1' H1' ANP sing 47 n n N9 C8 ANP sing 48 n y N9 C4 ANP sing 49 n y C8 N7 ANP doub 50 n y C8 H8 ANP sing 51 n n N7 C5 ANP sing 52 n y C5 C6 ANP sing 53 n y C5 C4 ANP doub 54 n y C6 N6 ANP sing 55 n n C6 N1 ANP doub 56 n y N6 HN61 ANP sing 57 n n N6 HN62 ANP sing 58 n n N1 C2 ANP sing 59 n y C2 N3 ANP doub 60 n y C2 H2 ANP sing 61 n n N3 C4 ANP sing 62 n y # _atom_sites.entry_id 8F5B _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 D 3 NAG A 1 2301 2301 NAG NAG . E 4 MG A 1 2302 2307 MG MG . F 4 MG A 1 2303 2308 MG MG . G 5 ANP A 1 2304 2309 ANP ANP . H 5 ANP A 1 2305 2310 ANP ANP . # 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 ANP . . . H 5 181.227 189.66 239.227 1 204.97 ? PG ANP 2305 A 1 HETATM 2 O O1G ANP . . . H 5 182.291 190.601 239.733 1 204.97 ? O1G ANP 2305 A 1 HETATM 3 O O2G ANP . . . H 5 181.66 188.24 239.48 1 204.97 ? O2G ANP 2305 A 1 HETATM 4 O O3G ANP . . . H 5 179.984 189.969 240 1 204.97 ? O3G ANP 2305 A 1 HETATM 5 P PB ANP . . . H 5 180.21 191.276 237.221 1 204.97 ? PB ANP 2305 A 1 HETATM 6 O O1B ANP . . . H 5 180.577 192.326 238.225 1 204.97 ? O1B ANP 2305 A 1 HETATM 7 O O2B ANP . . . H 5 180.337 191.583 235.76 1 204.97 ? O2B ANP 2305 A 1 HETATM 8 N N3B ANP . . . H 5 180.902 189.889 237.661 1 204.97 ? N3B ANP 2305 A 1 HETATM 9 P PA ANP . . . H 5 177.753 192.23 238.193 1 204.97 ? PA ANP 2305 A 1 HETATM 10 O O1A ANP . . . H 5 178.071 193.534 237.559 1 204.97 ? O1A ANP 2305 A 1 HETATM 11 O O2A ANP . . . H 5 177.921 192.055 239.657 1 204.97 ? O2A ANP 2305 A 1 HETATM 12 O O3A ANP . . . H 5 178.654 191.122 237.479 1 204.97 ? O3A ANP 2305 A 1 HETATM 13 O O5' ANP . . . H 5 176.282 191.786 237.763 1 204.97 ? O5' ANP 2305 A 1 HETATM 14 C C5' ANP . . . H 5 175.973 191.894 236.364 1 204.97 ? C5' ANP 2305 A 1 HETATM 15 C C4' ANP . . . H 5 175.002 190.804 235.993 1 204.97 ? C4' ANP 2305 A 1 HETATM 16 O O4' ANP . . . H 5 174.568 190.999 234.629 1 204.97 ? O4' ANP 2305 A 1 HETATM 17 C C3' ANP . . . H 5 175.576 189.386 236.037 1 204.97 ? C3' ANP 2305 A 1 HETATM 18 O O3' ANP . . . H 5 174.542 188.457 236.331 1 204.97 ? O3' ANP 2305 A 1 HETATM 19 C C2' ANP . . . H 5 176.112 189.222 234.614 1 204.97 ? C2' ANP 2305 A 1 HETATM 20 O O2' ANP . . . H 5 176.252 187.876 234.213 1 204.97 ? O2' ANP 2305 A 1 HETATM 21 C C1' ANP . . . H 5 174.995 189.903 233.829 1 204.97 ? C1' ANP 2305 A 1 HETATM 22 N N9 ANP . . . H 5 175.438 190.415 232.537 1 204.97 ? N9 ANP 2305 A 1 HETATM 23 C C8 ANP . . . H 5 176.631 191.02 232.242 1 204.97 ? C8 ANP 2305 A 1 HETATM 24 N N7 ANP . . . H 5 176.742 191.375 230.986 1 204.97 ? N7 ANP 2305 A 1 HETATM 25 C C5 ANP . . . H 5 175.541 190.975 230.419 1 204.97 ? C5 ANP 2305 A 1 HETATM 26 C C6 ANP . . . H 5 175.043 191.072 229.11 1 204.97 ? C6 ANP 2305 A 1 HETATM 27 N N6 ANP . . . H 5 175.718 191.622 228.103 1 204.97 ? N6 ANP 2305 A 1 HETATM 28 N N1 ANP . . . H 5 173.803 190.579 228.876 1 204.97 ? N1 ANP 2305 A 1 HETATM 29 C C2 ANP . . . H 5 173.13 190.03 229.893 1 204.97 ? C2 ANP 2305 A 1 HETATM 30 N N3 ANP . . . H 5 173.498 189.884 231.161 1 204.97 ? N3 ANP 2305 A 1 HETATM 31 C C4 ANP . . . H 5 174.728 190.383 231.364 1 204.97 ? C4 ANP 2305 A 1 # _model_server_stats.io_time_ms 73 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 337 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 31 #