data_7QXX # _model_server_result.job_id 73bfETP7cLNhtg24Zn2eUw _model_server_result.datetime_utc '2024-12-26 11:56:17' _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 7qxx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"EB","auth_seq_id":501}' # _entry.id 7QXX # _exptl.entry_id 7QXX _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 36 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 7QXX _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7QXX _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 46-meric _pdbx_struct_assembly.oligomeric_count 46 _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,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB _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 ? 36 ZA N N ? 36 EB 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 M SG CYS 236 A CYS 236 1_555 M SG CYS 270 A CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? disulf ? disulf2 Y SG CYS 41 M CYS 41 1_555 Y SG CYS 186 M CYS 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 EA SG CYS 70 S CYS 43 1_555 EA SG CYS 223 S CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 MA SG CYS 41 m CYS 41 1_555 MA SG CYS 186 m CYS 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 SA SG CYS 70 s CYS 43 1_555 SA SG CYS 223 s CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc1 I OE2 GLU 51 c GLU 52 1_555 UA ZN ZN . c ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc2 I ND1 HIS 112 c HIS 113 1_555 UA ZN ZN . c ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.65 ? metalc ? metalc3 I NE2 HIS 114 c HIS 115 1_555 UA ZN ZN . c ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? metalc ? metalc4 I OD2 ASP 125 c ASP 126 1_555 UA ZN ZN . c ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? metalc ? metalc5 M OG1 THR 223 A THR 223 1_555 WA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? metalc ? metalc6 VA O1G ATP . A ATP 501 1_555 WA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? metalc ? metalc7 VA O3G ATP . A ATP 501 1_555 WA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc8 VA O2B ATP . A ATP 501 1_555 WA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? metalc ? metalc9 VA O2A ATP . A ATP 501 1_555 WA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.79 ? metalc ? metalc10 N OG1 THR 233 B THR 233 1_555 YA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.616 ? metalc ? metalc11 XA O1G ATP . B ATP 501 1_555 YA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc12 XA O1B ATP . B ATP 501 1_555 YA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? metalc ? metalc13 XA O3B ATP . B ATP 501 1_555 YA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc14 XA O2A ATP . B ATP 501 1_555 YA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc15 P OG1 THR 213 D THR 213 1_555 BB MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? metalc ? metalc16 AB O1G ATP . D ATP 501 1_555 BB MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? metalc ? metalc17 AB O2G ATP . D ATP 501 1_555 BB MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc18 AB O1B ATP . D ATP 501 1_555 BB MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? metalc ? metalc19 Q OG1 THR 195 E THR 181 1_555 DB MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc20 CB O2G ATP . E ATP 401 1_555 DB MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc21 CB O3G ATP . E ATP 401 1_555 DB MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc22 CB O1B ATP . E ATP 401 1_555 DB MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? metalc ? metalc23 R OG1 THR 234 F THR 234 1_555 FB MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? metalc ? metalc24 EB O3B ADP . F ADP 501 1_555 FB MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? # _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 7QXX _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 UA 33 ZN c 1 401 401 ZN ZN . VA 34 ATP A 1 501 501 ATP ATP . WA 35 MG A 1 502 502 MG MG . XA 34 ATP B 1 501 501 ATP ATP . YA 35 MG B 1 502 502 MG MG . ZA 36 ADP C 1 501 501 ADP ADP . AB 34 ATP D 1 501 501 ATP ATP . BB 35 MG D 1 502 502 MG MG . CB 34 ATP E 1 401 401 ATP ATP . DB 35 MG E 1 402 402 MG MG . EB 36 ADP F 1 501 501 ADP ADP . FB 35 MG F 1 502 502 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 . . . EB 36 243.354 179.224 206.197 1 258.19 ? PB ADP 501 F 1 HETATM 2 O O1B ADP . . . EB 36 242.287 179.066 205.143 1 258.19 ? O1B ADP 501 F 1 HETATM 3 O O2B ADP . . . EB 36 242.898 179.903 207.461 1 258.19 ? O2B ADP 501 F 1 HETATM 4 O O3B ADP . . . EB 36 244.668 179.716 205.667 1 258.19 ? O3B ADP 501 F 1 HETATM 5 P PA ADP . . . EB 36 243.063 176.538 205.758 1 258.19 ? PA ADP 501 F 1 HETATM 6 O O1A ADP . . . EB 36 243.64 176.659 204.388 1 258.19 ? O1A ADP 501 F 1 HETATM 7 O O2A ADP . . . EB 36 241.591 176.384 205.994 1 258.19 ? O2A ADP 501 F 1 HETATM 8 O O3A ADP . . . EB 36 243.661 177.719 206.654 1 258.19 ? O3A ADP 501 F 1 HETATM 9 O O5' ADP . . . EB 36 243.699 175.191 206.294 1 258.19 ? O5' ADP 501 F 1 HETATM 10 C C5' ADP . . . EB 36 243.357 174.085 205.484 1 258.19 ? C5' ADP 501 F 1 HETATM 11 C C4' ADP . . . EB 36 242.513 173.204 206.371 1 258.19 ? C4' ADP 501 F 1 HETATM 12 O O4' ADP . . . EB 36 241.385 172.666 205.695 1 258.19 ? O4' ADP 501 F 1 HETATM 13 C C3' ADP . . . EB 36 243.344 172.036 206.835 1 258.19 ? C3' ADP 501 F 1 HETATM 14 O O3' ADP . . . EB 36 243.793 172.306 208.157 1 258.19 ? O3' ADP 501 F 1 HETATM 15 C C2' ADP . . . EB 36 242.41 170.85 206.817 1 258.19 ? C2' ADP 501 F 1 HETATM 16 O O2' ADP . . . EB 36 242.204 170.362 208.141 1 258.19 ? O2' ADP 501 F 1 HETATM 17 C C1' ADP . . . EB 36 241.11 171.385 206.256 1 258.19 ? C1' ADP 501 F 1 HETATM 18 N N9 ADP . . . EB 36 240.652 170.481 205.193 1 258.19 ? N9 ADP 501 F 1 HETATM 19 C C8 ADP . . . EB 36 241.09 169.238 204.946 1 258.19 ? C8 ADP 501 F 1 HETATM 20 N N7 ADP . . . EB 36 240.439 168.702 203.888 1 258.19 ? N7 ADP 501 F 1 HETATM 21 C C5 ADP . . . EB 36 239.56 169.614 203.466 1 258.19 ? C5 ADP 501 F 1 HETATM 22 C C6 ADP . . . EB 36 238.569 169.695 202.389 1 258.19 ? C6 ADP 501 F 1 HETATM 23 N N6 ADP . . . EB 36 238.388 168.65 201.558 1 258.19 ? N6 ADP 501 F 1 HETATM 24 N N1 ADP . . . EB 36 237.864 170.837 202.275 1 258.19 ? N1 ADP 501 F 1 HETATM 25 C C2 ADP . . . EB 36 238.05 171.872 203.111 1 258.19 ? C2 ADP 501 F 1 HETATM 26 N N3 ADP . . . EB 36 238.942 171.869 204.11 1 258.19 ? N3 ADP 501 F 1 HETATM 27 C C4 ADP . . . EB 36 239.706 170.784 204.327 1 258.19 ? C4 ADP 501 F 1 # _model_server_stats.io_time_ms 34 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 129 _model_server_stats.query_time_ms 242 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #