data_2C9O # _model_server_result.job_id DLUTS9EUdlTQJMh0l4pAqg _model_server_result.datetime_utc '2024-11-23 08:55:31' _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 2c9o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1450}' # _entry.id 2C9O # _exptl.entry_id 2C9O _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 3 _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 120 _cell.entry_id 2C9O _cell.length_a 207.08 _cell.length_b 207.08 _cell.length_c 60.71 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2C9O _symmetry.cell_setting ? _symmetry.Int_Tables_number 168 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 6' # 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 hexameric 6 author_and_software_defined_assembly 1 PQS hexameric 6 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,G 1 1,2,3,4,5,6 B,C,E,F,H,I 2 1,7,8 # 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' 5_555 y,-x+y,z 0.5 0.866025 0 -0.866025 0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 6_555 x-y,x,z 0.5 -0.866025 0 0.866025 0.5 0 0 0 1 0 0 0 4 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 5 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 6 'crystal symmetry operation' 4_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 7 'crystal symmetry operation' 2_665 -y+1,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 103.54 179.336541 0 8 'crystal symmetry operation' 3_565 -x+y,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -103.54 179.336541 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 E N N ? 2 F N 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 2C9O _atom_sites.fract_transf_matrix[1][1] 0.004829 _atom_sites.fract_transf_matrix[1][2] 0.002788 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005576 _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] 0.016472 _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 D 2 ADP A 1 1450 1450 ADP ADP . E 2 ADP B 1 1449 1449 ADP ADP . F 2 ADP C 1 1450 1450 ADP ADP . G 3 HOH A 1 2001 2001 HOH HOH . G 3 HOH A 2 2002 2002 HOH HOH . G 3 HOH A 3 2003 2003 HOH HOH . G 3 HOH A 4 2004 2004 HOH HOH . G 3 HOH A 5 2005 2005 HOH HOH . G 3 HOH A 6 2006 2006 HOH HOH . G 3 HOH A 7 2007 2007 HOH HOH . G 3 HOH A 8 2008 2008 HOH HOH . G 3 HOH A 9 2009 2009 HOH HOH . G 3 HOH A 10 2010 2010 HOH HOH . G 3 HOH A 11 2011 2011 HOH HOH . G 3 HOH A 12 2012 2012 HOH HOH . G 3 HOH A 13 2013 2013 HOH HOH . G 3 HOH A 14 2014 2014 HOH HOH . G 3 HOH A 15 2015 2015 HOH HOH . G 3 HOH A 16 2016 2016 HOH HOH . G 3 HOH A 17 2017 2017 HOH HOH . G 3 HOH A 18 2018 2018 HOH HOH . G 3 HOH A 19 2019 2019 HOH HOH . G 3 HOH A 20 2020 2020 HOH HOH . G 3 HOH A 21 2021 2021 HOH HOH . G 3 HOH A 22 2022 2022 HOH HOH . G 3 HOH A 23 2023 2023 HOH HOH . G 3 HOH A 24 2024 2024 HOH HOH . G 3 HOH A 25 2025 2025 HOH HOH . G 3 HOH A 26 2026 2026 HOH HOH . G 3 HOH A 27 2027 2027 HOH HOH . G 3 HOH A 28 2028 2028 HOH HOH . G 3 HOH A 29 2029 2029 HOH HOH . G 3 HOH A 30 2030 2030 HOH HOH . G 3 HOH A 31 2031 2031 HOH HOH . G 3 HOH A 32 2032 2032 HOH HOH . G 3 HOH A 33 2033 2033 HOH HOH . G 3 HOH A 34 2034 2034 HOH HOH . G 3 HOH A 35 2035 2035 HOH HOH . G 3 HOH A 36 2036 2036 HOH HOH . G 3 HOH A 37 2037 2037 HOH HOH . G 3 HOH A 38 2038 2038 HOH HOH . G 3 HOH A 39 2039 2039 HOH HOH . G 3 HOH A 40 2040 2040 HOH HOH . G 3 HOH A 41 2041 2041 HOH HOH . G 3 HOH A 42 2042 2042 HOH HOH . G 3 HOH A 43 2043 2043 HOH HOH . G 3 HOH A 44 2044 2044 HOH HOH . G 3 HOH A 45 2045 2045 HOH HOH . G 3 HOH A 46 2046 2046 HOH HOH . G 3 HOH A 47 2047 2047 HOH HOH . G 3 HOH A 48 2048 2048 HOH HOH . G 3 HOH A 49 2049 2049 HOH HOH . G 3 HOH A 50 2050 2050 HOH HOH . G 3 HOH A 51 2051 2051 HOH HOH . G 3 HOH A 52 2052 2052 HOH HOH . G 3 HOH A 53 2053 2053 HOH HOH . G 3 HOH A 54 2054 2054 HOH HOH . G 3 HOH A 55 2055 2055 HOH HOH . G 3 HOH A 56 2056 2056 HOH HOH . G 3 HOH A 57 2057 2057 HOH HOH . G 3 HOH A 58 2058 2058 HOH HOH . G 3 HOH A 59 2059 2059 HOH HOH . G 3 HOH A 60 2060 2060 HOH HOH . G 3 HOH A 61 2061 2061 HOH HOH . G 3 HOH A 62 2062 2062 HOH HOH . G 3 HOH A 63 2063 2063 HOH HOH . G 3 HOH A 64 2064 2064 HOH HOH . G 3 HOH A 65 2065 2065 HOH HOH . G 3 HOH A 66 2066 2066 HOH HOH . G 3 HOH A 67 2067 2067 HOH HOH . G 3 HOH A 68 2068 2068 HOH HOH . G 3 HOH A 69 2069 2069 HOH HOH . G 3 HOH A 70 2070 2070 HOH HOH . G 3 HOH A 71 2071 2071 HOH HOH . G 3 HOH A 72 2072 2072 HOH HOH . G 3 HOH A 73 2073 2073 HOH HOH . G 3 HOH A 74 2074 2074 HOH HOH . G 3 HOH A 75 2075 2075 HOH HOH . G 3 HOH A 76 2076 2076 HOH HOH . G 3 HOH A 77 2077 2077 HOH HOH . G 3 HOH A 78 2078 2078 HOH HOH . G 3 HOH A 79 2079 2079 HOH HOH . G 3 HOH A 80 2080 2080 HOH HOH . G 3 HOH A 81 2081 2081 HOH HOH . G 3 HOH A 82 2082 2082 HOH HOH . G 3 HOH A 83 2083 2083 HOH HOH . G 3 HOH A 84 2084 2084 HOH HOH . G 3 HOH A 85 2085 2085 HOH HOH . G 3 HOH A 86 2086 2086 HOH HOH . G 3 HOH A 87 2087 2087 HOH HOH . G 3 HOH A 88 2088 2088 HOH HOH . G 3 HOH A 89 2089 2089 HOH HOH . G 3 HOH A 90 2090 2090 HOH HOH . G 3 HOH A 91 2091 2091 HOH HOH . H 3 HOH B 1 2001 2001 HOH HOH . H 3 HOH B 2 2002 2002 HOH HOH . H 3 HOH B 3 2003 2003 HOH HOH . H 3 HOH B 4 2004 2004 HOH HOH . H 3 HOH B 5 2005 2005 HOH HOH . H 3 HOH B 6 2006 2006 HOH HOH . H 3 HOH B 7 2007 2007 HOH HOH . H 3 HOH B 8 2008 2008 HOH HOH . H 3 HOH B 9 2009 2009 HOH HOH . H 3 HOH B 10 2010 2010 HOH HOH . H 3 HOH B 11 2011 2011 HOH HOH . H 3 HOH B 12 2012 2012 HOH HOH . H 3 HOH B 13 2013 2013 HOH HOH . H 3 HOH B 14 2014 2014 HOH HOH . H 3 HOH B 15 2015 2015 HOH HOH . H 3 HOH B 16 2016 2016 HOH HOH . H 3 HOH B 17 2017 2017 HOH HOH . H 3 HOH B 18 2018 2018 HOH HOH . H 3 HOH B 19 2019 2019 HOH HOH . H 3 HOH B 20 2020 2020 HOH HOH . H 3 HOH B 21 2021 2021 HOH HOH . H 3 HOH B 22 2022 2022 HOH HOH . H 3 HOH B 23 2023 2023 HOH HOH . H 3 HOH B 24 2024 2024 HOH HOH . H 3 HOH B 25 2025 2025 HOH HOH . H 3 HOH B 26 2026 2026 HOH HOH . H 3 HOH B 27 2027 2027 HOH HOH . H 3 HOH B 28 2028 2028 HOH HOH . H 3 HOH B 29 2029 2029 HOH HOH . H 3 HOH B 30 2030 2030 HOH HOH . H 3 HOH B 31 2031 2031 HOH HOH . H 3 HOH B 32 2032 2032 HOH HOH . H 3 HOH B 33 2033 2033 HOH HOH . H 3 HOH B 34 2034 2034 HOH HOH . H 3 HOH B 35 2035 2035 HOH HOH . H 3 HOH B 36 2036 2036 HOH HOH . H 3 HOH B 37 2037 2037 HOH HOH . H 3 HOH B 38 2038 2038 HOH HOH . H 3 HOH B 39 2039 2039 HOH HOH . H 3 HOH B 40 2040 2040 HOH HOH . H 3 HOH B 41 2041 2041 HOH HOH . H 3 HOH B 42 2042 2042 HOH HOH . H 3 HOH B 43 2043 2043 HOH HOH . H 3 HOH B 44 2044 2044 HOH HOH . H 3 HOH B 45 2045 2045 HOH HOH . I 3 HOH C 1 2001 2001 HOH HOH . I 3 HOH C 2 2002 2002 HOH HOH . I 3 HOH C 3 2003 2003 HOH HOH . I 3 HOH C 4 2004 2004 HOH HOH . I 3 HOH C 5 2005 2005 HOH HOH . I 3 HOH C 6 2006 2006 HOH HOH . I 3 HOH C 7 2007 2007 HOH HOH . I 3 HOH C 8 2008 2008 HOH HOH . I 3 HOH C 9 2009 2009 HOH HOH . I 3 HOH C 10 2010 2010 HOH HOH . I 3 HOH C 11 2011 2011 HOH HOH . I 3 HOH C 12 2012 2012 HOH HOH . I 3 HOH C 13 2013 2013 HOH HOH . I 3 HOH C 14 2014 2014 HOH HOH . I 3 HOH C 15 2015 2015 HOH HOH . I 3 HOH C 16 2016 2016 HOH HOH . I 3 HOH C 17 2017 2017 HOH HOH . I 3 HOH C 18 2018 2018 HOH HOH . I 3 HOH C 19 2019 2019 HOH HOH . I 3 HOH C 20 2020 2020 HOH HOH . I 3 HOH C 21 2021 2021 HOH HOH . I 3 HOH C 22 2022 2022 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 . . . D 2 9.632 32.04 37.324 1 25.14 ? PB ADP 1450 A 1 HETATM 2 O O1B ADP . . . D 2 9.977 31.858 35.888 1 18 ? O1B ADP 1450 A 1 HETATM 3 O O2B ADP . . . D 2 10.641 31.603 38.305 1 20.21 ? O2B ADP 1450 A 1 HETATM 4 O O3B ADP . . . D 2 8.258 31.514 37.763 1 20.72 ? O3B ADP 1450 A 1 HETATM 5 P PA ADP . . . D 2 9.508 34.812 36.408 1 28.17 ? PA ADP 1450 A 1 HETATM 6 O O1A ADP . . . D 2 10.791 35.063 35.669 1 28.45 ? O1A ADP 1450 A 1 HETATM 7 O O2A ADP . . . D 2 8.349 34.487 35.546 1 27.11 ? O2A ADP 1450 A 1 HETATM 8 O O3A ADP . . . D 2 9.577 33.668 37.565 1 23.38 ? O3A ADP 1450 A 1 HETATM 9 O O5' ADP . . . D 2 9.237 36.053 37.395 1 25.75 ? O5' ADP 1450 A 1 HETATM 10 C C5' ADP . . . D 2 7.928 36.598 37.634 1 27.87 ? C5' ADP 1450 A 1 HETATM 11 C C4' ADP . . . D 2 7.806 38.049 37.174 1 25.85 ? C4' ADP 1450 A 1 HETATM 12 O O4' ADP . . . D 2 8.706 38.814 37.997 1 28.61 ? O4' ADP 1450 A 1 HETATM 13 C C3' ADP . . . D 2 8.233 38.337 35.747 1 27.63 ? C3' ADP 1450 A 1 HETATM 14 O O3' ADP . . . D 2 7.508 39.462 35.219 1 33.43 ? O3' ADP 1450 A 1 HETATM 15 C C2' ADP . . . D 2 9.711 38.718 35.83 1 25.94 ? C2' ADP 1450 A 1 HETATM 16 O O2' ADP . . . D 2 10.132 39.597 34.77 1 25.47 ? O2' ADP 1450 A 1 HETATM 17 C C1' ADP . . . D 2 9.803 39.327 37.16 1 26.93 ? C1' ADP 1450 A 1 HETATM 18 N N9 ADP . . . D 2 11.015 39.104 37.976 1 28.82 ? N9 ADP 1450 A 1 HETATM 19 C C8 ADP . . . D 2 11.35 38.033 38.686 1 27.98 ? C8 ADP 1450 A 1 HETATM 20 N N7 ADP . . . D 2 12.465 38.25 39.391 1 28.91 ? N7 ADP 1450 A 1 HETATM 21 C C5 ADP . . . D 2 12.82 39.525 39.141 1 29.97 ? C5 ADP 1450 A 1 HETATM 22 C C6 ADP . . . D 2 13.897 40.429 39.574 1 29.69 ? C6 ADP 1450 A 1 HETATM 23 N N6 ADP . . . D 2 14.834 39.952 40.422 1 27.84 ? N6 ADP 1450 A 1 HETATM 24 N N1 ADP . . . D 2 13.906 41.687 39.098 1 28.07 ? N1 ADP 1450 A 1 HETATM 25 C C2 ADP . . . D 2 12.991 42.156 38.248 1 28.25 ? C2 ADP 1450 A 1 HETATM 26 N N3 ADP . . . D 2 11.999 41.403 37.811 1 28.93 ? N3 ADP 1450 A 1 HETATM 27 C C4 ADP . . . D 2 11.872 40.098 38.232 1 30.22 ? C4 ADP 1450 A 1 # _model_server_stats.io_time_ms 43 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 27 #