data_1H8H # _model_server_result.job_id oVytCCQCiOddV3Wmrb5xKQ _model_server_result.datetime_utc '2024-11-24 09:42:36' _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 1h8h # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":600}' # _entry.id 1H8H # _exptl.entry_id 1H8H _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 7 _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 1H8H _cell.length_a 280 _cell.length_b 107 _cell.length_c 139.1 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1H8H _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PQS _pdbx_struct_assembly.oligomeric_details heptameric _pdbx_struct_assembly.oligomeric_count 7 _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,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z _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 x,y,z _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 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id O _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 metalc ? metalc1 A OG1 THR 176 A THR 176 1_555 I MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc2 H O2G ATP . A ATP 600 1_555 I MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc3 H O2B ATP . A ATP 600 1_555 I MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc4 I MG MG . A MG 601 1_555 T O HOH . A HOH 2023 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? metalc ? metalc5 I MG MG . A MG 601 1_555 T O HOH . A HOH 2024 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc6 B OG1 THR 176 B THR 176 1_555 K MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.139 ? metalc ? metalc7 J O2G ATP . B ATP 600 1_555 K MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? metalc ? metalc8 J O2B ATP . B ATP 600 1_555 K MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc9 K MG MG . B MG 601 1_555 U O HOH . B HOH 2026 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? metalc ? metalc10 C OG1 THR 176 C THR 176 1_555 N MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc11 M O2G ATP . C ATP 600 1_555 N MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? metalc ? metalc12 M O2B ATP . C ATP 600 1_555 N MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? metalc ? metalc13 N MG MG . C MG 601 1_555 V O HOH . C HOH 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.589 ? metalc ? metalc14 N MG MG . C MG 601 1_555 V O HOH . C HOH 2014 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.799 ? metalc ? metalc15 D OG1 THR 167 D THR 163 1_555 P MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? metalc ? metalc16 O O2B ADP . D ADP 600 1_555 P MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc17 F OG1 THR 167 F THR 163 1_555 S MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc18 R O2B ATP . F ATP 600 1_555 S MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? metalc ? metalc19 R O2G ATP . F ATP 600 1_555 S MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc20 S MG MG . F MG 601 1_555 Y O HOH . F HOH 2008 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? # _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 1H8H _atom_sites.fract_transf_matrix[1][1] 0.003571 _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] 0.009346 _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] 0.007189 _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 H 4 ATP A 1 600 600 ATP ATP . I 5 MG A 1 601 601 MG MG . J 4 ATP B 1 600 600 ATP ATP . K 5 MG B 1 601 601 MG MG . L 6 GOL B 1 701 701 GOL GOL . M 4 ATP C 1 600 600 ATP ATP . N 5 MG C 1 601 601 MG MG . O 7 ADP D 1 600 600 ADP ADP . P 5 MG D 1 601 601 MG MG . Q 8 PO4 E 1 602 602 PO4 PO4 . R 4 ATP F 1 600 600 ATP ATP . S 5 MG F 1 601 601 MG MG . T 9 HOH A 1 2001 2001 HOH HOH . T 9 HOH A 2 2002 2002 HOH HOH . T 9 HOH A 3 2003 2003 HOH HOH . T 9 HOH A 4 2004 2004 HOH HOH . T 9 HOH A 5 2005 2005 HOH HOH . T 9 HOH A 6 2006 2006 HOH HOH . T 9 HOH A 7 2007 2007 HOH HOH . T 9 HOH A 8 2008 2008 HOH HOH . T 9 HOH A 9 2009 2009 HOH HOH . T 9 HOH A 10 2010 2010 HOH HOH . T 9 HOH A 11 2011 2011 HOH HOH . T 9 HOH A 12 2012 2012 HOH HOH . T 9 HOH A 13 2013 2013 HOH HOH . T 9 HOH A 14 2014 2014 HOH HOH . T 9 HOH A 15 2015 2015 HOH HOH . T 9 HOH A 16 2016 2016 HOH HOH . T 9 HOH A 17 2017 2017 HOH HOH . T 9 HOH A 18 2018 2018 HOH HOH . T 9 HOH A 19 2019 2019 HOH HOH . T 9 HOH A 20 2020 2020 HOH HOH . T 9 HOH A 21 2021 2021 HOH HOH . T 9 HOH A 22 2022 2022 HOH HOH . T 9 HOH A 23 2023 2023 HOH HOH . T 9 HOH A 24 2024 2024 HOH HOH . U 9 HOH B 1 2001 2001 HOH HOH . U 9 HOH B 2 2002 2002 HOH HOH . U 9 HOH B 3 2003 2003 HOH HOH . U 9 HOH B 4 2004 2004 HOH HOH . U 9 HOH B 5 2005 2005 HOH HOH . U 9 HOH B 6 2006 2006 HOH HOH . U 9 HOH B 7 2007 2007 HOH HOH . U 9 HOH B 8 2008 2008 HOH HOH . U 9 HOH B 9 2009 2009 HOH HOH . U 9 HOH B 10 2010 2010 HOH HOH . U 9 HOH B 11 2011 2011 HOH HOH . U 9 HOH B 12 2012 2012 HOH HOH . U 9 HOH B 13 2013 2013 HOH HOH . U 9 HOH B 14 2014 2014 HOH HOH . U 9 HOH B 15 2015 2015 HOH HOH . U 9 HOH B 16 2016 2016 HOH HOH . U 9 HOH B 17 2017 2017 HOH HOH . U 9 HOH B 18 2018 2018 HOH HOH . U 9 HOH B 19 2019 2019 HOH HOH . U 9 HOH B 20 2020 2020 HOH HOH . U 9 HOH B 21 2021 2021 HOH HOH . U 9 HOH B 22 2022 2022 HOH HOH . U 9 HOH B 23 2023 2023 HOH HOH . U 9 HOH B 24 2024 2024 HOH HOH . U 9 HOH B 25 2025 2025 HOH HOH . U 9 HOH B 26 2026 2026 HOH HOH . V 9 HOH C 1 2001 2001 HOH HOH . V 9 HOH C 2 2002 2002 HOH HOH . V 9 HOH C 3 2003 2003 HOH HOH . V 9 HOH C 4 2004 2004 HOH HOH . V 9 HOH C 5 2005 2005 HOH HOH . V 9 HOH C 6 2006 2006 HOH HOH . V 9 HOH C 7 2007 2007 HOH HOH . V 9 HOH C 8 2008 2008 HOH HOH . V 9 HOH C 9 2009 2009 HOH HOH . V 9 HOH C 10 2010 2010 HOH HOH . V 9 HOH C 11 2011 2011 HOH HOH . V 9 HOH C 12 2012 2012 HOH HOH . V 9 HOH C 13 2013 2013 HOH HOH . V 9 HOH C 14 2014 2014 HOH HOH . W 9 HOH D 1 2001 2001 HOH HOH . W 9 HOH D 2 2002 2002 HOH HOH . W 9 HOH D 3 2003 2003 HOH HOH . W 9 HOH D 4 2004 2004 HOH HOH . W 9 HOH D 5 2005 2005 HOH HOH . W 9 HOH D 6 2006 2006 HOH HOH . W 9 HOH D 7 2007 2007 HOH HOH . W 9 HOH D 8 2008 2008 HOH HOH . W 9 HOH D 9 2009 2009 HOH HOH . W 9 HOH D 10 2010 2010 HOH HOH . W 9 HOH D 11 2011 2011 HOH HOH . W 9 HOH D 12 2012 2012 HOH HOH . W 9 HOH D 13 2013 2013 HOH HOH . W 9 HOH D 14 2014 2014 HOH HOH . W 9 HOH D 15 2015 2015 HOH HOH . X 9 HOH E 1 2001 2001 HOH HOH . X 9 HOH E 2 2002 2002 HOH HOH . X 9 HOH E 3 2003 2003 HOH HOH . X 9 HOH E 4 2004 2004 HOH HOH . X 9 HOH E 5 2005 2005 HOH HOH . X 9 HOH E 6 2006 2006 HOH HOH . X 9 HOH E 7 2007 2007 HOH HOH . X 9 HOH E 8 2008 2008 HOH HOH . X 9 HOH E 9 2009 2009 HOH HOH . X 9 HOH E 10 2010 2010 HOH HOH . X 9 HOH E 11 2011 2011 HOH HOH . X 9 HOH E 12 2012 2012 HOH HOH . X 9 HOH E 13 2013 2013 HOH HOH . Y 9 HOH F 1 2001 2001 HOH HOH . Y 9 HOH F 2 2002 2002 HOH HOH . Y 9 HOH F 3 2003 2003 HOH HOH . Y 9 HOH F 4 2004 2004 HOH HOH . Y 9 HOH F 5 2005 2005 HOH HOH . Y 9 HOH F 6 2006 2006 HOH HOH . Y 9 HOH F 7 2007 2007 HOH HOH . Y 9 HOH F 8 2008 2008 HOH HOH . Y 9 HOH F 9 2009 2009 HOH HOH . Y 9 HOH F 10 2010 2010 HOH HOH . Y 9 HOH F 11 2011 2011 HOH HOH . Y 9 HOH F 12 2012 2012 HOH HOH . Y 9 HOH F 13 2013 2013 HOH HOH . Y 9 HOH F 14 2014 2014 HOH HOH . Y 9 HOH F 15 2015 2015 HOH HOH . Y 9 HOH F 16 2016 2016 HOH HOH . Y 9 HOH F 17 2017 2017 HOH HOH . Z 9 HOH G 1 2001 2001 HOH HOH . Z 9 HOH G 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 PB ADP . . . O 7 103.581 47.742 68.514 1 24.6 ? PB ADP 600 D 1 HETATM 2 O O1B ADP . . . O 7 102.775 48.409 67.516 1 22.08 ? O1B ADP 600 D 1 HETATM 3 O O2B ADP . . . O 7 104.398 46.657 67.841 1 26.27 ? O2B ADP 600 D 1 HETATM 4 O O3B ADP . . . O 7 104.463 48.543 69.377 1 27.17 ? O3B ADP 600 D 1 HETATM 5 P PA ADP . . . O 7 101.86 45.606 69.366 1 15.3 ? PA ADP 600 D 1 HETATM 6 O O1A ADP . . . O 7 101.709 45.2 67.937 1 8.65 ? O1A ADP 600 D 1 HETATM 7 O O2A ADP . . . O 7 102.635 44.636 70.125 1 11.16 ? O2A ADP 600 D 1 HETATM 8 O O3A ADP . . . O 7 102.502 47.103 69.552 1 17.67 ? O3A ADP 600 D 1 HETATM 9 O O5' ADP . . . O 7 100.407 45.786 70.05 1 10.09 ? O5' ADP 600 D 1 HETATM 10 C C5' ADP . . . O 7 100.383 46.214 71.484 1 14.92 ? C5' ADP 600 D 1 HETATM 11 C C4' ADP . . . O 7 99.267 45.513 72.24 1 18.04 ? C4' ADP 600 D 1 HETATM 12 O O4' ADP . . . O 7 97.997 46.068 71.819 1 19.29 ? O4' ADP 600 D 1 HETATM 13 C C3' ADP . . . O 7 99.082 43.995 71.995 1 17.8 ? C3' ADP 600 D 1 HETATM 14 O O3' ADP . . . O 7 99.798 43.219 72.933 1 18.09 ? O3' ADP 600 D 1 HETATM 15 C C2' ADP . . . O 7 97.594 43.798 72.278 1 17.34 ? C2' ADP 600 D 1 HETATM 16 O O2' ADP . . . O 7 97.291 43.691 73.669 1 23.22 ? O2' ADP 600 D 1 HETATM 17 C C1' ADP . . . O 7 97 45.085 71.729 1 16.97 ? C1' ADP 600 D 1 HETATM 18 N N9 ADP . . . O 7 96.645 44.881 70.343 1 18.73 ? N9 ADP 600 D 1 HETATM 19 C C8 ADP . . . O 7 97.401 45.063 69.237 1 20.22 ? C8 ADP 600 D 1 HETATM 20 N N7 ADP . . . O 7 96.704 44.701 68.128 1 24.95 ? N7 ADP 600 D 1 HETATM 21 C C5 ADP . . . O 7 95.48 44.297 68.587 1 22.6 ? C5 ADP 600 D 1 HETATM 22 C C6 ADP . . . O 7 94.368 43.8 67.907 1 23.6 ? C6 ADP 600 D 1 HETATM 23 N N6 ADP . . . O 7 94.403 43.697 66.592 1 28.03 ? N6 ADP 600 D 1 HETATM 24 N N1 ADP . . . O 7 93.3 43.44 68.646 1 24.59 ? N1 ADP 600 D 1 HETATM 25 C C2 ADP . . . O 7 93.379 43.578 70.01 1 25.29 ? C2 ADP 600 D 1 HETATM 26 N N3 ADP . . . O 7 94.372 44.04 70.749 1 23.64 ? N3 ADP 600 D 1 HETATM 27 C C4 ADP . . . O 7 95.407 44.388 69.955 1 21.93 ? C4 ADP 600 D 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 114 _model_server_stats.query_time_ms 490 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #