data_8USC # _model_server_result.job_id UZ9Ga6-_bRkLib9WlJlrVg _model_server_result.datetime_utc '2024-11-07 05:36:12' _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 8usc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"KA","auth_seq_id":401}' # _entry.id 8USC # _exptl.entry_id 8USC _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 31 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 8USC _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8USC _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 28-meric _pdbx_struct_assembly.oligomeric_count 28 _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,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA _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 ? 31 HA N N ? 31 IA N N ? 31 KA 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 137 H CYS 137 1_555 A SG CYS 213 H CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 E SG CYS 633 U CYS 633 1_555 E SG CYS 659 U CYS 659 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf3 P SG CYS 115 G CYS 115 1_555 P SG CYS 154 G CYS 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 U SG CYS 42 M CYS 41 1_555 U SG CYS 187 M CYS 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc1 I OG1 THR 223 A THR 223 1_555 CA MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? metalc ? metalc2 CA MG MG . A MG 501 1_555 DA O2G ATP . B ATP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc3 CA MG MG . A MG 501 1_555 DA O1B ATP . B ATP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc4 CA MG MG . A MG 501 1_555 DA O3B ATP . B ATP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.841 ? metalc ? metalc5 CA MG MG . A MG 501 1_555 DA O3A ATP . B ATP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.932 ? metalc ? metalc6 J OG1 THR 233 B THR 233 1_555 FA MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? metalc ? metalc7 EA O2G ATP . B ATP 502 1_555 FA MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? metalc ? metalc8 EA O2B ATP . B ATP 502 1_555 FA MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? metalc ? metalc9 EA O3B ATP . B ATP 502 1_555 FA MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.851 ? metalc ? metalc10 GA MG MG . C MG 501 1_555 HA O1B ADP . C ADP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc11 GA MG MG . C MG 501 1_555 HA O2B ADP . C ADP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc12 GA MG MG . C MG 501 1_555 HA O2A ADP . C ADP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.682 ? metalc ? metalc13 L OG1 THR 213 D THR 213 1_555 JA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc14 IA O1B ADP . D ADP 501 1_555 JA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.259 ? metalc ? metalc15 IA O3B ADP . D ADP 501 1_555 JA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? metalc ? metalc16 IA O1A ADP . D ADP 501 1_555 JA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.224 ? metalc ? metalc17 N OG1 THR 234 F THR 234 1_555 MA MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.42 ? metalc ? metalc18 LA O3G ATP . F ATP 501 1_555 MA MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? metalc ? metalc19 LA O2B ATP . F ATP 501 1_555 MA MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc20 LA O3B ATP . F ATP 501 1_555 MA MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? metalc ? metalc21 LA O2A ATP . F ATP 501 1_555 MA MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? metalc ? metalc22 LA O3A ATP . F ATP 501 1_555 MA MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.962 ? metalc ? metalc23 BA NE2 HIS 113 c HIS 113 1_555 NA ZN ZN . c ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc24 BA NE2 HIS 115 c HIS 115 1_555 NA ZN ZN . c ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc25 BA OD1 ASP 126 c ASP 126 1_555 NA ZN ZN . c ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc26 BA OD2 ASP 126 c ASP 126 1_555 NA ZN ZN . c ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 8USC _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 CA 29 MG A 1 501 502 MG MG . DA 30 ATP B 1 501 501 ATP ATP . EA 30 ATP B 1 502 501 ATP ATP . FA 29 MG B 1 503 502 MG MG . GA 29 MG C 1 501 502 MG MG . HA 31 ADP C 1 502 503 ADP ADP . IA 31 ADP D 1 501 501 ADP ADP . JA 29 MG D 1 502 502 MG MG . KA 31 ADP E 1 401 401 ADP ADP . LA 30 ATP F 1 501 501 ATP ATP . MA 29 MG F 1 502 502 MG MG . NA 32 ZN c 1 501 401 ZN ZN . # 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 PB ADP . . . KA 31 158.426 135.241 119.515 1 112.06 ? PB ADP 401 E 1 HETATM 2 O O1B ADP . . . KA 31 157.064 135.13 118.875 1 112.06 ? O1B ADP 401 E 1 HETATM 3 O O2B ADP . . . KA 31 158.966 136.645 119.646 1 112.06 ? O2B ADP 401 E 1 HETATM 4 O O3B ADP . . . KA 31 158.593 134.398 120.756 1 112.06 ? O3B ADP 401 E 1 HETATM 5 P PA ADP . . . KA 31 159.123 134.752 116.857 1 112.06 ? PA ADP 401 E 1 HETATM 6 O O1A ADP . . . KA 31 158.137 133.691 116.431 1 112.06 ? O1A ADP 401 E 1 HETATM 7 O O2A ADP . . . KA 31 158.821 136.202 116.563 1 112.06 ? O2A ADP 401 E 1 HETATM 8 O O3A ADP . . . KA 31 159.402 134.563 118.431 1 112.06 ? O3A ADP 401 E 1 HETATM 9 O O5' ADP . . . KA 31 160.552 134.405 116.202 1 112.06 ? O5' ADP 401 E 1 HETATM 10 C C5' ADP . . . KA 31 160.593 133.95 114.855 1 112.06 ? C5' ADP 401 E 1 HETATM 11 C C4' ADP . . . KA 31 162.011 133.884 114.304 1 112.06 ? C4' ADP 401 E 1 HETATM 12 O O4' ADP . . . KA 31 162.029 132.861 113.312 1 112.06 ? O4' ADP 401 E 1 HETATM 13 C C3' ADP . . . KA 31 162.401 135.18 113.619 1 112.06 ? C3' ADP 401 E 1 HETATM 14 O O3' ADP . . . KA 31 163.757 135.511 113.929 1 112.06 ? O3' ADP 401 E 1 HETATM 15 C C2' ADP . . . KA 31 162.257 134.91 112.134 1 112.06 ? C2' ADP 401 E 1 HETATM 16 O O2' ADP . . . KA 31 163.429 135.344 111.438 1 112.06 ? O2' ADP 401 E 1 HETATM 17 C C1' ADP . . . KA 31 162.091 133.405 111.993 1 112.06 ? C1' ADP 401 E 1 HETATM 18 N N9 ADP . . . KA 31 160.82 133.044 111.312 1 112.06 ? N9 ADP 401 E 1 HETATM 19 C C8 ADP . . . KA 31 159.753 132.502 111.93 1 112.06 ? C8 ADP 401 E 1 HETATM 20 N N7 ADP . . . KA 31 158.739 132.265 111.063 1 112.06 ? N7 ADP 401 E 1 HETATM 21 C C5 ADP . . . KA 31 159.157 132.657 109.848 1 112.06 ? C5 ADP 401 E 1 HETATM 22 C C6 ADP . . . KA 31 158.574 132.683 108.488 1 112.06 ? C6 ADP 401 E 1 HETATM 23 N N6 ADP . . . KA 31 157.317 132.231 108.262 1 112.06 ? N6 ADP 401 E 1 HETATM 24 N N1 ADP . . . KA 31 159.337 133.171 107.487 1 112.06 ? N1 ADP 401 E 1 HETATM 25 C C2 ADP . . . KA 31 160.586 133.621 107.709 1 112.06 ? C2 ADP 401 E 1 HETATM 26 N N3 ADP . . . KA 31 161.175 133.627 108.918 1 112.06 ? N3 ADP 401 E 1 HETATM 27 C C4 ADP . . . KA 31 160.529 133.164 110.013 1 112.06 ? C4 ADP 401 E 1 # _model_server_stats.io_time_ms 34 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 289 _model_server_stats.query_time_ms 409 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 27 #