data_2W8R # _model_server_result.job_id yz1GRIRbB7lEI86kTbeFyw _model_server_result.datetime_utc '2024-10-19 09:38:09' _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 2w8r # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":702}' # _entry.id 2W8R # _exptl.entry_id 2W8R _exptl.method 'X-RAY DIFFRACTION' # _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 1 _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 2W8R _cell.length_a 265.925 _cell.length_b 265.925 _cell.length_c 265.925 _cell.Z_PDB 96 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2W8R _symmetry.cell_setting ? _symmetry.Int_Tables_number 209 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'F 4 3 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PQS dodecameric 12 author_and_software_defined_assembly 1 PQS tetrameric 4 author_and_software_defined_assembly 2 PQS dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 1 1,2,3,4,5,6,7,8,9,10,11,12 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 2 1,13,2,14 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 3 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 28_544 x,-y-1/2,-z-1/2 1 0 0 0 -1 0 0 0 -1 0 -132.9625 -132.9625 3 'crystal symmetry operation' 10_555 -y,z,-x 0 -1 0 0 0 1 -1 0 0 0 0 0 4 'crystal symmetry operation' 83_545 y+1/2,-z-1/2,-x 0 1 0 0 0 -1 -1 0 0 132.9625 -132.9625 0 5 'crystal symmetry operation' 7_555 -z,-x,y 0 0 -1 -1 0 0 0 1 0 0 0 0 6 'crystal symmetry operation' 54_554 z+1/2,-x,-y-1/2 0 0 1 -1 0 0 0 -1 0 132.9625 0 -132.9625 7 'crystal symmetry operation' 32_544 -z,x-1/2,-y-1/2 0 0 -1 1 0 0 0 -1 0 0 -132.9625 -132.9625 8 'crystal symmetry operation' 77_545 z+1/2,x-1/2,y 0 0 1 1 0 0 0 1 0 132.9625 -132.9625 0 9 'crystal symmetry operation' 36_544 -y,-z-1/2,x-1/2 0 -1 0 0 0 -1 1 0 0 0 -132.9625 -132.9625 10 'crystal symmetry operation' 57_554 y+1/2,z,x-1/2 0 1 0 0 0 1 1 0 0 132.9625 0 -132.9625 11 'crystal symmetry operation' 51_554 -x+1/2,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 132.9625 0 -132.9625 12 'crystal symmetry operation' 74_545 -x+1/2,-y-1/2,z -1 0 0 0 -1 0 0 0 1 132.9625 -132.9625 0 13 'crystal symmetry operation' 18_555 -x,z,y -1 0 0 0 0 1 0 1 0 0 0 0 14 'crystal symmetry operation' 43_544 -x,-z-1/2,-y-1/2 -1 0 0 0 0 -1 0 -1 0 0 -132.9625 -132.9625 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _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 2W8R _atom_sites.fract_transf_matrix[1][1] 0.00376 _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] 0.00376 _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] 0.00376 _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 B 2 ADP A 1 702 702 ADP ADP . C 3 SO4 A 1 1001 1001 SO4 SO4 . D 3 SO4 A 1 1002 1002 SO4 SO4 . E 3 SO4 A 1 1003 1003 SO4 SO4 . F 3 SO4 A 1 1004 1004 SO4 SO4 . G 3 SO4 A 1 1005 1005 SO4 SO4 . H 3 SO4 A 1 1006 1006 SO4 SO4 . I 3 SO4 A 1 1007 1007 SO4 SO4 . J 3 SO4 A 1 1008 1008 SO4 SO4 . K 3 SO4 A 1 1009 1009 SO4 SO4 . L 3 SO4 A 1 1010 1010 SO4 SO4 . M 4 GOL A 1 1101 1101 GOL GOL . N 4 GOL A 1 1102 1102 GOL GOL . O 5 HOH A 1 2001 2001 HOH HOH . O 5 HOH A 2 2002 2002 HOH HOH . O 5 HOH A 3 2003 2003 HOH HOH . O 5 HOH A 4 2004 2004 HOH HOH . O 5 HOH A 5 2005 2005 HOH HOH . O 5 HOH A 6 2006 2006 HOH HOH . O 5 HOH A 7 2007 2007 HOH HOH . O 5 HOH A 8 2008 2008 HOH HOH . O 5 HOH A 9 2009 2009 HOH HOH . O 5 HOH A 10 2010 2010 HOH HOH . O 5 HOH A 11 2011 2011 HOH HOH . O 5 HOH A 12 2012 2012 HOH HOH . O 5 HOH A 13 2013 2013 HOH HOH . O 5 HOH A 14 2014 2014 HOH HOH . O 5 HOH A 15 2015 2015 HOH HOH . O 5 HOH A 16 2016 2016 HOH HOH . O 5 HOH A 17 2017 2017 HOH HOH . O 5 HOH A 18 2018 2018 HOH HOH . O 5 HOH A 19 2019 2019 HOH HOH . O 5 HOH A 20 2020 2020 HOH HOH . O 5 HOH A 21 2021 2021 HOH HOH . O 5 HOH A 22 2022 2022 HOH HOH . O 5 HOH A 23 2023 2023 HOH HOH . O 5 HOH A 24 2024 2024 HOH HOH . O 5 HOH A 25 2025 2025 HOH HOH . O 5 HOH A 26 2026 2026 HOH HOH . O 5 HOH A 27 2027 2027 HOH HOH . O 5 HOH A 28 2028 2028 HOH HOH . O 5 HOH A 29 2029 2029 HOH HOH . O 5 HOH A 30 2030 2030 HOH HOH . O 5 HOH A 31 2031 2031 HOH HOH . O 5 HOH A 32 2032 2032 HOH HOH . O 5 HOH A 33 2033 2033 HOH HOH . O 5 HOH A 34 2034 2034 HOH HOH . O 5 HOH A 35 2035 2035 HOH HOH . O 5 HOH A 36 2036 2036 HOH HOH . O 5 HOH A 37 2037 2037 HOH HOH . O 5 HOH A 38 2038 2038 HOH HOH . O 5 HOH A 39 2039 2039 HOH HOH . O 5 HOH A 40 2040 2040 HOH HOH . O 5 HOH A 41 2041 2041 HOH HOH . O 5 HOH A 42 2042 2042 HOH HOH . O 5 HOH A 43 2043 2043 HOH HOH . O 5 HOH A 44 2044 2044 HOH HOH . O 5 HOH A 45 2045 2045 HOH HOH . O 5 HOH A 46 2046 2046 HOH HOH . O 5 HOH A 47 2047 2047 HOH HOH . O 5 HOH A 48 2048 2048 HOH HOH . # 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 . . . B 2 30.756 -46.281 -64.82 1 64.42 ? PB ADP 702 A 1 HETATM 2 O O1B ADP . . . B 2 29.556 -45.873 -63.888 1 64.9 ? O1B ADP 702 A 1 HETATM 3 O O2B ADP . . . B 2 32 -45.67 -64.288 1 63.32 ? O2B ADP 702 A 1 HETATM 4 O O3B ADP . . . B 2 30.461 -45.996 -66.237 1 65.35 ? O3B ADP 702 A 1 HETATM 5 P PA ADP . . . B 2 31.76 -48.925 -63.96 1 57.42 ? PA ADP 702 A 1 HETATM 6 O O1A ADP . . . B 2 32.875 -48.221 -63.303 1 59.28 ? O1A ADP 702 A 1 HETATM 7 O O2A ADP . . . B 2 32.138 -50.007 -64.909 1 58.34 ? O2A ADP 702 A 1 HETATM 8 O O3A ADP . . . B 2 30.791 -47.91 -64.75 1 60.87 ? O3A ADP 702 A 1 HETATM 9 O O5' ADP . . . B 2 30.741 -49.566 -62.943 1 56.59 ? O5' ADP 702 A 1 HETATM 10 C C5' ADP . . . B 2 30.173 -48.767 -61.88 1 53.92 ? C5' ADP 702 A 1 HETATM 11 C C4' ADP . . . B 2 30.14 -49.586 -60.554 1 51.64 ? C4' ADP 702 A 1 HETATM 12 O O4' ADP . . . B 2 30.972 -50.748 -60.693 1 51.35 ? O4' ADP 702 A 1 HETATM 13 C C3' ADP . . . B 2 30.652 -48.833 -59.345 1 51.57 ? C3' ADP 702 A 1 HETATM 14 O O3' ADP . . . B 2 29.88 -49.176 -58.185 1 50.79 ? O3' ADP 702 A 1 HETATM 15 C C2' ADP . . . B 2 32.113 -49.343 -59.253 1 50.74 ? C2' ADP 702 A 1 HETATM 16 O O2' ADP . . . B 2 32.797 -49.229 -58.036 1 51.75 ? O2' ADP 702 A 1 HETATM 17 C C1' ADP . . . B 2 31.938 -50.785 -59.677 1 49.93 ? C1' ADP 702 A 1 HETATM 18 N N9 ADP . . . B 2 33.176 -51.405 -60.249 1 49.02 ? N9 ADP 702 A 1 HETATM 19 C C8 ADP . . . B 2 34.041 -50.853 -61.179 1 49.78 ? C8 ADP 702 A 1 HETATM 20 N N7 ADP . . . B 2 35.039 -51.687 -61.465 1 49.54 ? N7 ADP 702 A 1 HETATM 21 C C5 ADP . . . B 2 34.8 -52.824 -60.683 1 48.94 ? C5 ADP 702 A 1 HETATM 22 C C6 ADP . . . B 2 35.497 -54.045 -60.547 1 49.14 ? C6 ADP 702 A 1 HETATM 23 N N6 ADP . . . B 2 36.587 -54.354 -61.183 1 50.36 ? N6 ADP 702 A 1 HETATM 24 N N1 ADP . . . B 2 34.926 -54.922 -59.66 1 47.91 ? N1 ADP 702 A 1 HETATM 25 C C2 ADP . . . B 2 33.794 -54.657 -58.971 1 48.02 ? C2 ADP 702 A 1 HETATM 26 N N3 ADP . . . B 2 33.072 -53.525 -59.043 1 47.5 ? N3 ADP 702 A 1 HETATM 27 C C4 ADP . . . B 2 33.656 -52.684 -59.92 1 48.65 ? C4 ADP 702 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #