data_4BLT # _model_server_result.job_id A7OF6pQS-uVqSQe7HeVaWg _model_server_result.datetime_utc '2025-03-06 02:15:17' _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 4blt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":400}' # _entry.id 4BLT # _exptl.entry_id 4BLT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER' _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 90 _cell.entry_id 4BLT _cell.length_a 104.352 _cell.length_b 131.727 _cell.length_c 159.285 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4BLT _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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' 3_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 104.352 0 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 'C11 H18 N5 O12 P3' _chem_comp.formula_weight 505.208 _chem_comp.id APC _chem_comp.mon_nstd_flag . _chem_comp.name 'DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE" # 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 PG O1G APC doub 13 n n PG O2G APC sing 14 n n PG O3G APC sing 15 n n PG O3B APC sing 16 n n O2G HOG2 APC sing 17 n n O3G HOG3 APC sing 18 n n PB O1B APC doub 19 n n PB O2B APC sing 20 n n PB O3B APC sing 21 n n PB C3A APC sing 22 n n O2B HOB2 APC sing 23 n n PA O1A APC doub 24 n n PA O2A APC sing 25 n n PA C3A APC sing 26 n n PA O5' APC sing 27 n n O2A HOA2 APC sing 28 n n C3A H3A1 APC sing 29 n n C3A H3A2 APC sing 30 n n O5' C5' APC sing 31 n n C5' C4' APC sing 32 n n C5' "H5'1" APC sing 33 n n C5' "H5'2" APC sing 34 n n C4' O4' APC sing 35 n n C4' C3' APC sing 36 n n C4' H4' APC sing 37 n n O4' C1' APC sing 38 n n C3' O3' APC sing 39 n n C3' C2' APC sing 40 n n C3' H3' APC sing 41 n n O3' HO3' APC sing 42 n n C2' O2' APC sing 43 n n C2' C1' APC sing 44 n n C2' H2' APC sing 45 n n O2' HO2' APC sing 46 n n C1' N9 APC sing 47 n n C1' H1' APC sing 48 n n N9 C8 APC sing 49 n y N9 C4 APC sing 50 n y C8 N7 APC doub 51 n y C8 H8 APC sing 52 n n N7 C5 APC sing 53 n y C5 C6 APC sing 54 n y C5 C4 APC doub 55 n y C6 N6 APC sing 56 n n C6 N1 APC doub 57 n y N6 HN61 APC sing 58 n n N6 HN62 APC sing 59 n n N1 C2 APC sing 60 n y C2 N3 APC doub 61 n y C2 H2 APC sing 62 n n N3 C4 APC sing 63 n y # _atom_sites.entry_id 4BLT _atom_sites.fract_transf_matrix[1][1] 0.009583 _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] 0.007591 _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] 0.006278 _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 APC A 1 400 400 APC APC . E 2 APC B 1 400 400 APC APC . F 2 APC C 1 400 400 APC APC . 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 . 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 . I 3 HOH C 1 2001 2001 HOH HOH . I 3 HOH C 2 2002 2002 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 PG APC . . . D 2 80.506 49.453 2.148 1 72.63 ? PG APC 400 A 1 HETATM 2 O O1G APC . . . D 2 81.003 50.751 1.552 1 73.91 ? O1G APC 400 A 1 HETATM 3 O O2G APC . . . D 2 79.545 49.633 3.3 1 71.65 ? O2G APC 400 A 1 HETATM 4 O O3G APC . . . D 2 80.065 48.432 1.121 1 71.8 ? O3G APC 400 A 1 HETATM 5 P PB APC . . . D 2 82.977 49.674 3.504 1 66.83 ? PB APC 400 A 1 HETATM 6 O O1B APC . . . D 2 84.129 48.82 3.878 1 65.31 ? O1B APC 400 A 1 HETATM 7 O O2B APC . . . D 2 83.465 50.793 2.449 1 66.2 ? O2B APC 400 A 1 HETATM 8 O O3B APC . . . D 2 81.809 48.787 2.833 1 69.3 ? O3B APC 400 A 1 HETATM 9 P PA APC . . . D 2 83.15 52.028 5.267 1 60.92 ? PA APC 400 A 1 HETATM 10 O O1A APC . . . D 2 82.467 52.761 6.521 1 59.41 ? O1A APC 400 A 1 HETATM 11 O O2A APC . . . D 2 82.983 52.879 4.067 1 62.83 ? O2A APC 400 A 1 HETATM 12 C C3A APC . . . D 2 82.326 50.442 5.009 1 63.04 ? C3A APC 400 A 1 HETATM 13 O O5' APC . . . D 2 84.719 51.784 5.561 1 59.46 ? O5' APC 400 A 1 HETATM 14 C C5' APC . . . D 2 85.75 52.195 4.655 1 57.7 ? C5' APC 400 A 1 HETATM 15 C C4' APC . . . D 2 85.993 53.701 4.755 1 57.05 ? C4' APC 400 A 1 HETATM 16 O O4' APC . . . D 2 87.083 53.99 5.637 1 55.37 ? O4' APC 400 A 1 HETATM 17 C C3' APC . . . D 2 86.351 54.327 3.415 1 57.72 ? C3' APC 400 A 1 HETATM 18 O O3' APC . . . D 2 85.2 54.93 2.81 1 58.79 ? O3' APC 400 A 1 HETATM 19 C C2' APC . . . D 2 87.431 55.348 3.724 1 57.22 ? C2' APC 400 A 1 HETATM 20 O O2' APC . . . D 2 86.956 56.679 3.498 1 58.54 ? O2' APC 400 A 1 HETATM 21 C C1' APC . . . D 2 87.813 55.135 5.185 1 55.35 ? C1' APC 400 A 1 HETATM 22 N N9 APC . . . D 2 89.279 54.905 5.318 1 54.07 ? N9 APC 400 A 1 HETATM 23 C C8 APC . . . D 2 89.892 53.705 5.238 1 52.79 ? C8 APC 400 A 1 HETATM 24 N N7 APC . . . D 2 91.237 53.827 5.393 1 52.05 ? N7 APC 400 A 1 HETATM 25 C C5 APC . . . D 2 91.503 55.132 5.574 1 52.52 ? C5 APC 400 A 1 HETATM 26 C C6 APC . . . D 2 92.718 55.951 5.801 1 52.84 ? C6 APC 400 A 1 HETATM 27 N N6 APC . . . D 2 93.939 55.371 5.861 1 52.61 ? N6 APC 400 A 1 HETATM 28 N N1 APC . . . D 2 92.564 57.291 5.945 1 53.47 ? N1 APC 400 A 1 HETATM 29 C C2 APC . . . D 2 91.35 57.881 5.888 1 53.74 ? C2 APC 400 A 1 HETATM 30 N N3 APC . . . D 2 90.206 57.192 5.686 1 53.17 ? N3 APC 400 A 1 HETATM 31 C C4 APC . . . D 2 90.212 55.843 5.526 1 53.24 ? C4 APC 400 A 1 # _model_server_stats.io_time_ms 175 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #