data_8SU9 # _model_server_result.job_id 0pxFoU35zGPRskJafh80Dg _model_server_result.datetime_utc '2024-11-14 18:49:08' _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 8su9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"GA","auth_seq_id":701}' # _entry.id 8SU9 # _exptl.entry_id 8SU9 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 5 _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 8SU9 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8SU9 _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 octadecameric _pdbx_struct_assembly.oligomeric_count 18 _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,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 ? _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 EA N N ? 4 GA N N ? 4 IA N N ? 4 KA N N ? 4 MA 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 M OG SER 184 M SER 184 1_555 FA MG MG . M MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.619 ? metalc ? metalc2 EA O3B ADP . M ADP 701 1_555 FA MG MG . M MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? metalc ? metalc3 N OG SER 184 N SER 184 1_555 HA MG MG . N MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc4 GA O3B ADP . N ADP 701 1_555 HA MG MG . N MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? metalc ? metalc5 O OG SER 184 O SER 184 1_555 JA MG MG . O MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.788 ? metalc ? metalc6 IA O3B ADP . O ADP 701 1_555 JA MG MG . O MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? metalc ? metalc7 P OG SER 184 P SER 184 1_555 LA MG MG . P MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.64 ? metalc ? metalc8 MA O2B ADP . Q ADP 701 1_555 NA MG MG . Q MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? # _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 8SU9 _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 S 3 AR6 A 1 501 501 AR6 AR6 . T 3 AR6 B 1 501 501 AR6 AR6 . U 3 AR6 C 1 501 501 AR6 AR6 . V 3 AR6 D 1 501 501 AR6 AR6 . W 3 AR6 E 1 501 501 AR6 AR6 . X 3 AR6 F 1 501 501 AR6 AR6 . Y 3 AR6 G 1 501 501 AR6 AR6 . Z 3 AR6 H 1 501 501 AR6 AR6 . AA 3 AR6 I 1 501 501 AR6 AR6 . BA 3 AR6 J 1 501 501 AR6 AR6 . CA 3 AR6 K 1 501 501 AR6 AR6 . DA 3 AR6 L 1 501 501 AR6 AR6 . EA 4 ADP M 1 701 701 ADP ADP . FA 5 MG M 1 702 703 MG MG . GA 4 ADP N 1 701 701 ADP ADP . HA 5 MG N 1 702 704 MG MG . IA 4 ADP O 1 701 701 ADP ADP . JA 5 MG O 1 702 705 MG MG . KA 4 ADP P 1 701 701 ADP ADP . LA 5 MG P 1 702 702 MG MG . MA 4 ADP Q 1 701 701 ADP ADP . NA 5 MG Q 1 702 706 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 PB ADP . . . GA 4 176.314 137.86 212.671 1 45.5 ? PB ADP 701 N 1 HETATM 2 O O1B ADP . . . GA 4 177.146 138.789 211.827 1 48.28 ? O1B ADP 701 N 1 HETATM 3 O O2B ADP . . . GA 4 175.318 138.565 213.556 1 55.86 ? O2B ADP 701 N 1 HETATM 4 O O3B ADP . . . GA 4 177.099 136.771 213.358 1 49.26 ? O3B ADP 701 N 1 HETATM 5 P PA ADP . . . GA 4 174.587 135.762 212.008 1 50.16 ? PA ADP 701 N 1 HETATM 6 O O1A ADP . . . GA 4 175.422 134.559 211.657 1 50.85 ? O1A ADP 701 N 1 HETATM 7 O O2A ADP . . . GA 4 174.081 135.958 213.418 1 61.9 ? O2A ADP 701 N 1 HETATM 8 O O3A ADP . . . GA 4 175.399 137.087 211.599 1 43.43 ? O3A ADP 701 N 1 HETATM 9 O O5' ADP . . . GA 4 173.317 135.799 211.024 1 42.38 ? O5' ADP 701 N 1 HETATM 10 C C5' ADP . . . GA 4 172.054 135.382 211.536 1 50.72 ? C5' ADP 701 N 1 HETATM 11 C C4' ADP . . . GA 4 171.025 135.197 210.43 1 48.16 ? C4' ADP 701 N 1 HETATM 12 O O4' ADP . . . GA 4 171.535 135.609 209.163 1 55.14 ? O4' ADP 701 N 1 HETATM 13 C C3' ADP . . . GA 4 170.636 133.736 210.293 1 48.37 ? C3' ADP 701 N 1 HETATM 14 O O3' ADP . . . GA 4 169.31 133.538 210.787 1 52.99 ? O3' ADP 701 N 1 HETATM 15 C C2' ADP . . . GA 4 170.683 133.434 208.812 1 51 ? C2' ADP 701 N 1 HETATM 16 O O2' ADP . . . GA 4 169.407 132.966 208.368 1 60.29 ? O2' ADP 701 N 1 HETATM 17 C C1' ADP . . . GA 4 171.01 134.756 208.143 1 53.22 ? C1' ADP 701 N 1 HETATM 18 N N9 ADP . . . GA 4 172.002 134.548 207.061 1 52.91 ? N9 ADP 701 N 1 HETATM 19 C C8 ADP . . . GA 4 173.278 134.969 207.062 1 56.91 ? C8 ADP 701 N 1 HETATM 20 N N7 ADP . . . GA 4 173.909 134.619 205.913 1 58.65 ? N7 ADP 701 N 1 HETATM 21 C C5 ADP . . . GA 4 173.02 133.962 205.149 1 52.99 ? C5 ADP 701 N 1 HETATM 22 C C6 ADP . . . GA 4 173.026 133.319 203.816 1 51.45 ? C6 ADP 701 N 1 HETATM 23 N N6 ADP . . . GA 4 174.14 133.31 203.048 1 52.5 ? N6 ADP 701 N 1 HETATM 24 N N1 ADP . . . GA 4 171.882 132.743 203.391 1 53.1 ? N1 ADP 701 N 1 HETATM 25 C C2 ADP . . . GA 4 170.769 132.745 204.144 1 52.3 ? C2 ADP 701 N 1 HETATM 26 N N3 ADP . . . GA 4 170.693 133.306 205.361 1 48.19 ? N3 ADP 701 N 1 HETATM 27 C C4 ADP . . . GA 4 171.765 133.922 205.909 1 48.85 ? C4 ADP 701 N 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 143 _model_server_stats.query_time_ms 418 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #