data_7W4O # _model_server_result.job_id Gq6h3O6vgkT4Nlw6Lb8Nig _model_server_result.datetime_utc '2024-11-04 23:18:49' _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 7w4o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"X","auth_seq_id":1601}' # _entry.id 7W4O # _exptl.entry_id 7W4O _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 4 _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 7W4O _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7W4O _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 octameric _pdbx_struct_assembly.oligomeric_count 8 _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 _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 ? 3 I N N ? 3 N N N ? 3 S N N ? 3 X 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 110 A CYS 110 1_555 A SG CYS 142 A CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 B SG CYS 6 B CYS 6 1_555 B SG CYS 26 B CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf3 C SG CYS 110 C CYS 110 1_555 C SG CYS 142 C CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 D SG CYS 6 D CYS 6 1_555 D SG CYS 26 D CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf5 E SG CYS 110 E CYS 110 1_555 E SG CYS 142 E CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 F SG CYS 6 F CYS 6 1_555 F SG CYS 26 F CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf7 G SG CYS 110 G CYS 110 1_555 G SG CYS 142 G CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 H SG CYS 6 H CYS 6 1_555 H SG CYS 26 H CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? metalc ? metalc1 B OE1 GLN 775 B GLN 775 1_555 J MG MG . B MG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc2 B OD2 ASP 854 B ASP 854 1_555 J MG MG . B MG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.894 ? metalc ? metalc3 I O2B ADP . B ADP 1601 1_555 K MG MG . B MG 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc4 I O3B ADP . B ADP 1601 1_555 K MG MG . B MG 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.922 ? metalc ? metalc5 J MG MG . B MG 1602 1_555 M O1B ATP . B ATP 1605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc6 D OE1 GLN 775 D GLN 775 1_555 O MG MG . D MG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc7 D OD2 ASP 854 D ASP 854 1_555 O MG MG . D MG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.894 ? metalc ? metalc8 N O2B ADP . D ADP 1601 1_555 P MG MG . D MG 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc9 N O3B ADP . D ADP 1601 1_555 P MG MG . D MG 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.922 ? metalc ? metalc10 O MG MG . D MG 1602 1_555 R O1B ATP . D ATP 1605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc11 F OE1 GLN 775 F GLN 775 1_555 T MG MG . F MG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc12 F OD2 ASP 854 F ASP 854 1_555 T MG MG . F MG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.894 ? metalc ? metalc13 S O2B ADP . F ADP 1601 1_555 U MG MG . F MG 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc14 S O3B ADP . F ADP 1601 1_555 U MG MG . F MG 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.922 ? metalc ? metalc15 T MG MG . F MG 1602 1_555 W O1B ATP . F ATP 1605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc16 H OE1 GLN 775 H GLN 775 1_555 Y MG MG . H MG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc17 H OD2 ASP 854 H ASP 854 1_555 Y MG MG . H MG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.894 ? metalc ? metalc18 X O2B ADP . H ADP 1601 1_555 Z MG MG . H MG 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc19 X O3B ADP . H ADP 1601 1_555 Z MG MG . H MG 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.922 ? metalc ? metalc20 Y MG MG . H MG 1602 1_555 BA O1B ATP . H ATP 1605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? # _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 7W4O _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 I 3 ADP B 1 1601 2002 ADP ADP . J 4 MG B 1 1602 2003 MG MG . K 4 MG B 1 1603 2004 MG MG . L 5 E2H B 1 1604 2005 E2H LIG . M 6 ATP B 1 1605 3004 ATP ATP . N 3 ADP D 1 1601 2002 ADP ADP . O 4 MG D 1 1602 2003 MG MG . P 4 MG D 1 1603 2004 MG MG . Q 5 E2H D 1 1604 2005 E2H LIG . R 6 ATP D 1 1605 3004 ATP ATP . S 3 ADP F 1 1601 2002 ADP ADP . T 4 MG F 1 1602 2003 MG MG . U 4 MG F 1 1603 2004 MG MG . V 5 E2H F 1 1604 2005 E2H LIG . W 6 ATP F 1 1605 3004 ATP ATP . X 3 ADP H 1 1601 2002 ADP ADP . Y 4 MG H 1 1602 2003 MG MG . Z 4 MG H 1 1603 2004 MG MG . AA 5 E2H H 1 1604 2005 E2H LIG . BA 6 ATP H 1 1605 3004 ATP ATP . # 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 . . . X 3 79.508 191.344 69.635 1 62.76 ? PB ADP 1601 H 1 HETATM 2 O O1B ADP . . . X 3 79.685 190.941 68.191 1 67.49 ? O1B ADP 1601 H 1 HETATM 3 O O2B ADP . . . X 3 78.908 190.269 70.508 1 68.44 ? O2B ADP 1601 H 1 HETATM 4 O O3B ADP . . . X 3 78.911 192.711 69.838 1 65.15 ? O3B ADP 1601 H 1 HETATM 5 P PA ADP . . . X 3 81.337 192.003 71.671 1 65.02 ? PA ADP 1601 H 1 HETATM 6 O O1A ADP . . . X 3 81.009 193.47 71.815 1 68.18 ? O1A ADP 1601 H 1 HETATM 7 O O2A ADP . . . X 3 80.743 190.992 72.622 1 59.81 ? O2A ADP 1601 H 1 HETATM 8 O O3A ADP . . . X 3 81.015 191.526 70.166 1 64.53 ? O3A ADP 1601 H 1 HETATM 9 O O5' ADP . . . X 3 82.932 191.803 71.69 1 67.26 ? O5' ADP 1601 H 1 HETATM 10 C C5' ADP . . . X 3 83.421 190.466 71.695 1 67.07 ? C5' ADP 1601 H 1 HETATM 11 C C4' ADP . . . X 3 84.759 190.375 72.405 1 58.9 ? C4' ADP 1601 H 1 HETATM 12 O O4' ADP . . . X 3 84.677 191.098 73.63 1 63.48 ? O4' ADP 1601 H 1 HETATM 13 C C3' ADP . . . X 3 85.075 188.926 72.737 1 63.53 ? C3' ADP 1601 H 1 HETATM 14 O O3' ADP . . . X 3 86.302 188.538 72.115 1 71.54 ? O3' ADP 1601 H 1 HETATM 15 C C2' ADP . . . X 3 85.211 188.864 74.245 1 65.01 ? C2' ADP 1601 H 1 HETATM 16 O O2' ADP . . . X 3 86.465 188.279 74.603 1 73.41 ? O2' ADP 1601 H 1 HETATM 17 C C1' ADP . . . X 3 85.151 190.306 74.718 1 61.59 ? C1' ADP 1601 H 1 HETATM 18 N N9 ADP . . . X 3 84.217 190.445 75.858 1 61.5 ? N9 ADP 1601 H 1 HETATM 19 C C8 ADP . . . X 3 82.882 190.6 75.772 1 64.8 ? C8 ADP 1601 H 1 HETATM 20 N N7 ADP . . . X 3 82.324 190.701 77.005 1 66.09 ? N7 ADP 1601 H 1 HETATM 21 C C5 ADP . . . X 3 83.322 190.609 77.904 1 61.37 ? C5 ADP 1601 H 1 HETATM 22 C C6 ADP . . . X 3 83.437 190.638 79.378 1 66.32 ? C6 ADP 1601 H 1 HETATM 23 N N6 ADP . . . X 3 82.339 190.788 80.153 1 72.09 ? N6 ADP 1601 H 1 HETATM 24 N N1 ADP . . . X 3 84.668 190.509 79.92 1 69.43 ? N1 ADP 1601 H 1 HETATM 25 C C2 ADP . . . X 3 85.765 190.359 79.155 1 68.87 ? C2 ADP 1601 H 1 HETATM 26 N N3 ADP . . . X 3 85.736 190.324 77.812 1 66.37 ? N3 ADP 1601 H 1 HETATM 27 C C4 ADP . . . X 3 84.566 190.442 77.142 1 60.26 ? C4 ADP 1601 H 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 84 _model_server_stats.query_time_ms 287 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #