data_8Q3P # _model_server_result.job_id 9NS3RhsjCRAOfYcwC32VKA _model_server_result.datetime_utc '2024-10-11 02:24:52' _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 8q3p # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"MA","auth_seq_id":1000}' # _entry.id 8Q3P # _exptl.entry_id 8Q3P _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 18 _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 8Q3P _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8Q3P _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 18-meric _pdbx_struct_assembly.oligomeric_count 18 _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,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB _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 S N N ? 2 U N N ? 2 W N N ? 2 Y N N ? 2 AA N N ? 2 CA N N ? 2 EA N N ? 2 GA N N ? 2 IA N N ? 2 KA N N ? 2 MA N N ? 2 OA N N ? 2 QA N N ? 2 SA N N ? 2 UA N N ? 2 WA N N ? 2 YA N N ? 2 AB 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 A OG1 THR 188 a THR 185 1_555 T MG MG . a MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc2 S O1B ADP . a ADP 1000 1_555 T MG MG . a MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc3 B OG1 THR 188 r THR 185 1_555 V MG MG . r MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc4 U O1B ADP . r ADP 1000 1_555 V MG MG . r MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc5 C OG1 THR 188 q THR 185 1_555 X MG MG . q MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc6 W O1B ADP . q ADP 1000 1_555 X MG MG . q MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc7 D OG1 THR 188 p THR 185 1_555 Z MG MG . p MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc8 Y O1B ADP . p ADP 1000 1_555 Z MG MG . p MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc9 E OG1 THR 188 o THR 185 1_555 BA MG MG . o MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc10 AA O1B ADP . o ADP 1000 1_555 BA MG MG . o MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc11 F OG1 THR 188 n THR 185 1_555 DA MG MG . n MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc12 CA O1B ADP . n ADP 1000 1_555 DA MG MG . n MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc13 G OG1 THR 188 m THR 185 1_555 FA MG MG . m MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc14 EA O1B ADP . m ADP 1000 1_555 FA MG MG . m MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc15 H OG1 THR 188 l THR 185 1_555 HA MG MG . l MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc16 GA O1B ADP . l ADP 1000 1_555 HA MG MG . l MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc17 I OG1 THR 188 k THR 185 1_555 JA MG MG . k MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc18 IA O1B ADP . k ADP 1000 1_555 JA MG MG . k MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc19 J OG1 THR 188 j THR 185 1_555 LA MG MG . j MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc20 KA O1B ADP . j ADP 1000 1_555 LA MG MG . j MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc21 K OG1 THR 188 b THR 185 1_555 NA MG MG . b MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc22 MA O1B ADP . b ADP 1000 1_555 NA MG MG . b MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc23 L OG1 THR 188 c THR 185 1_555 PA MG MG . c MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc24 OA O1B ADP . c ADP 1000 1_555 PA MG MG . c MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc25 M OG1 THR 188 d THR 185 1_555 RA MG MG . d MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc26 QA O1B ADP . d ADP 1000 1_555 RA MG MG . d MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc27 N OG1 THR 188 e THR 185 1_555 TA MG MG . e MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc28 SA O1B ADP . e ADP 1000 1_555 TA MG MG . e MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc29 O OG1 THR 188 f THR 185 1_555 VA MG MG . f MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc30 UA O1B ADP . f ADP 1000 1_555 VA MG MG . f MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc31 P OG1 THR 188 g THR 185 1_555 XA MG MG . g MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc32 WA O1B ADP . g ADP 1000 1_555 XA MG MG . g MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc33 Q OG1 THR 188 h THR 185 1_555 ZA MG MG . h MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc34 YA O1B ADP . h ADP 1000 1_555 ZA MG MG . h MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc35 R OG1 THR 188 i THR 185 1_555 BB MG MG . i MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc36 AB O1B ADP . i ADP 1000 1_555 BB MG MG . i MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? # _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 8Q3P _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 2 ADP a 1 1000 1000 ADP ADP . T 3 MG a 1 1001 1001 MG MG . U 2 ADP r 1 1000 1000 ADP ADP . V 3 MG r 1 1001 1001 MG MG . W 2 ADP q 1 1000 1000 ADP ADP . X 3 MG q 1 1001 1001 MG MG . Y 2 ADP p 1 1000 1000 ADP ADP . Z 3 MG p 1 1001 1001 MG MG . AA 2 ADP o 1 1000 1000 ADP ADP . BA 3 MG o 1 1001 1001 MG MG . CA 2 ADP n 1 1000 1000 ADP ADP . DA 3 MG n 1 1001 1001 MG MG . EA 2 ADP m 1 1000 1000 ADP ADP . FA 3 MG m 1 1001 1001 MG MG . GA 2 ADP l 1 1000 1000 ADP ADP . HA 3 MG l 1 1001 1001 MG MG . IA 2 ADP k 1 1000 1000 ADP ADP . JA 3 MG k 1 1001 1001 MG MG . KA 2 ADP j 1 1000 1000 ADP ADP . LA 3 MG j 1 1001 1001 MG MG . MA 2 ADP b 1 1000 1000 ADP ADP . NA 3 MG b 1 1001 1001 MG MG . OA 2 ADP c 1 1000 1000 ADP ADP . PA 3 MG c 1 1001 1001 MG MG . QA 2 ADP d 1 1000 1000 ADP ADP . RA 3 MG d 1 1001 1001 MG MG . SA 2 ADP e 1 1000 1000 ADP ADP . TA 3 MG e 1 1001 1001 MG MG . UA 2 ADP f 1 1000 1000 ADP ADP . VA 3 MG f 1 1001 1001 MG MG . WA 2 ADP g 1 1000 1000 ADP ADP . XA 3 MG g 1 1001 1001 MG MG . YA 2 ADP h 1 1000 1000 ADP ADP . ZA 3 MG h 1 1001 1001 MG MG . AB 2 ADP i 1 1000 1000 ADP ADP . BB 3 MG i 1 1001 1001 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 . . . MA 2 158.438 191.947 228.446 1 142.18 ? PB ADP 1000 b 1 HETATM 2 O O1B ADP . . . MA 2 157.415 192.767 229.192 1 135.02 ? O1B ADP 1000 b 1 HETATM 3 O O2B ADP . . . MA 2 157.888 190.693 227.812 1 134.75 ? O2B ADP 1000 b 1 HETATM 4 O O3B ADP . . . MA 2 159.741 191.754 229.183 1 136.4 ? O3B ADP 1000 b 1 HETATM 5 P PA ADP . . . MA 2 159.142 194.436 227.416 1 137.12 ? PA ADP 1000 b 1 HETATM 6 O O1A ADP . . . MA 2 157.841 195.195 227.337 1 120.84 ? O1A ADP 1000 b 1 HETATM 7 O O2A ADP . . . MA 2 160.024 194.572 228.633 1 139.77 ? O2A ADP 1000 b 1 HETATM 8 O O3A ADP . . . MA 2 158.833 192.874 227.192 1 134.22 ? O3A ADP 1000 b 1 HETATM 9 O O5' ADP . . . MA 2 160.018 194.82 226.124 1 133.59 ? O5' ADP 1000 b 1 HETATM 10 C C5' ADP . . . MA 2 160.64 196.1 226.057 1 126.79 ? C5' ADP 1000 b 1 HETATM 11 C C4' ADP . . . MA 2 161.328 196.283 224.712 1 126.23 ? C4' ADP 1000 b 1 HETATM 12 O O4' ADP . . . MA 2 160.427 195.979 223.645 1 124.83 ? O4' ADP 1000 b 1 HETATM 13 C C3' ADP . . . MA 2 161.778 197.722 224.536 1 131.28 ? C3' ADP 1000 b 1 HETATM 14 O O3' ADP . . . MA 2 163.206 197.786 224.478 1 136.68 ? O3' ADP 1000 b 1 HETATM 15 C C2' ADP . . . MA 2 161.186 198.182 223.221 1 131.27 ? C2' ADP 1000 b 1 HETATM 16 O O2' ADP . . . MA 2 162.225 198.636 222.35 1 137.3 ? O2' ADP 1000 b 1 HETATM 17 C C1' ADP . . . MA 2 160.498 196.97 222.618 1 129.26 ? C1' ADP 1000 b 1 HETATM 18 N N9 ADP . . . MA 2 159.124 197.327 222.189 1 127.95 ? N9 ADP 1000 b 1 HETATM 19 C C8 ADP . . . MA 2 158.001 196.695 222.578 1 130.89 ? C8 ADP 1000 b 1 HETATM 20 N N7 ADP . . . MA 2 156.902 197.254 222.013 1 130.01 ? N7 ADP 1000 b 1 HETATM 21 C C5 ADP . . . MA 2 157.321 198.267 221.234 1 127.7 ? C5 ADP 1000 b 1 HETATM 22 C C6 ADP . . . MA 2 156.677 199.27 220.355 1 129.73 ? C6 ADP 1000 b 1 HETATM 23 N N6 ADP . . . MA 2 155.333 199.297 220.192 1 131.22 ? N6 ADP 1000 b 1 HETATM 24 N N1 ADP . . . MA 2 157.476 200.154 219.719 1 132.47 ? N1 ADP 1000 b 1 HETATM 25 C C2 ADP . . . MA 2 158.812 200.136 219.873 1 131.47 ? C2 ADP 1000 b 1 HETATM 26 N N3 ADP . . . MA 2 159.461 199.256 220.654 1 129.91 ? N3 ADP 1000 b 1 HETATM 27 C C4 ADP . . . MA 2 158.786 198.309 221.349 1 127.08 ? C4 ADP 1000 b 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 76 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #