data_1W5T # _model_server_result.job_id 4d6cW3xL-ch__Ai-Rmkx3g _model_server_result.datetime_utc '2024-11-14 17:01:47' _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 1w5t # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":700}' # _entry.id 1W5T # _exptl.entry_id 1W5T _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 4 _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 120 _cell.entry_id 1W5T _cell.length_a 61.489 _cell.length_b 61.489 _cell.length_c 267.865 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1W5T _symmetry.cell_setting ? _symmetry.Int_Tables_number 144 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31' # 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 monomeric 1 author_and_software_defined_assembly 1 PQS monomeric 1 author_and_software_defined_assembly 2 PQS monomeric 1 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,D,E,J 1 1 B,F,G,K 2 1 C,H,I,L 3 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 4 _struct_asym.id H _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 66 A THR 66 1_555 E MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc2 D O2G ANP . A ANP 700 1_555 E MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc3 D O1B ANP . A ANP 700 1_555 E MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc4 E MG MG . A MG 701 1_555 J O HOH . A HOH 2029 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc5 E MG MG . A MG 701 1_555 J O HOH . A HOH 2063 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? metalc ? metalc6 B OG1 THR 66 B THR 66 1_555 G MG MG . B MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? metalc ? metalc7 F O1B ANP . B ANP 700 1_555 G MG MG . B MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? metalc ? metalc8 F O2G ANP . B ANP 700 1_555 G MG MG . B MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc9 G MG MG . B MG 701 1_555 K O HOH . B HOH 2014 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc10 G MG MG . B MG 701 1_555 K O HOH . B HOH 2015 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? metalc ? metalc11 G MG MG . B MG 701 1_555 K O HOH . B HOH 2040 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.965 ? metalc ? metalc12 C OG1 THR 66 C THR 66 1_555 I MG MG . C MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.441 ? metalc ? metalc13 H O3B ADP . C ADP 700 1_555 I MG MG . C MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? # _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 1W5T _atom_sites.fract_transf_matrix[1][1] 0.016263 _atom_sites.fract_transf_matrix[1][2] 0.009389 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018779 _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] 0.003733 _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 ANP A 1 700 700 ANP ANP . E 3 MG A 1 701 701 MG MG . F 2 ANP B 1 700 700 ANP ANP . G 3 MG B 1 701 701 MG MG . H 4 ADP C 1 700 700 ADP ADP . I 3 MG C 1 701 701 MG MG . J 5 HOH A 1 2001 2001 HOH HOH . J 5 HOH A 2 2002 2002 HOH HOH . J 5 HOH A 3 2003 2003 HOH HOH . J 5 HOH A 4 2004 2004 HOH HOH . J 5 HOH A 5 2005 2005 HOH HOH . J 5 HOH A 6 2006 2006 HOH HOH . J 5 HOH A 7 2007 2007 HOH HOH . J 5 HOH A 8 2008 2008 HOH HOH . J 5 HOH A 9 2009 2009 HOH HOH . J 5 HOH A 10 2010 2010 HOH HOH . J 5 HOH A 11 2011 2011 HOH HOH . J 5 HOH A 12 2012 2012 HOH HOH . J 5 HOH A 13 2013 2013 HOH HOH . J 5 HOH A 14 2014 2014 HOH HOH . J 5 HOH A 15 2015 2015 HOH HOH . J 5 HOH A 16 2016 2016 HOH HOH . J 5 HOH A 17 2017 2017 HOH HOH . J 5 HOH A 18 2018 2018 HOH HOH . J 5 HOH A 19 2019 2019 HOH HOH . J 5 HOH A 20 2020 2020 HOH HOH . J 5 HOH A 21 2021 2021 HOH HOH . J 5 HOH A 22 2022 2022 HOH HOH . J 5 HOH A 23 2023 2023 HOH HOH . J 5 HOH A 24 2024 2024 HOH HOH . J 5 HOH A 25 2025 2025 HOH HOH . J 5 HOH A 26 2026 2026 HOH HOH . J 5 HOH A 27 2027 2027 HOH HOH . J 5 HOH A 28 2028 2028 HOH HOH . J 5 HOH A 29 2029 2029 HOH HOH . J 5 HOH A 30 2030 2030 HOH HOH . J 5 HOH A 31 2031 2031 HOH HOH . J 5 HOH A 32 2032 2032 HOH HOH . J 5 HOH A 33 2033 2033 HOH HOH . J 5 HOH A 34 2034 2034 HOH HOH . J 5 HOH A 35 2035 2035 HOH HOH . J 5 HOH A 36 2036 2036 HOH HOH . J 5 HOH A 37 2037 2037 HOH HOH . J 5 HOH A 38 2038 2038 HOH HOH . J 5 HOH A 39 2039 2039 HOH HOH . J 5 HOH A 40 2040 2040 HOH HOH . J 5 HOH A 41 2041 2041 HOH HOH . J 5 HOH A 42 2042 2042 HOH HOH . J 5 HOH A 43 2043 2043 HOH HOH . J 5 HOH A 44 2044 2044 HOH HOH . J 5 HOH A 45 2045 2045 HOH HOH . J 5 HOH A 46 2046 2046 HOH HOH . J 5 HOH A 47 2047 2047 HOH HOH . J 5 HOH A 48 2048 2048 HOH HOH . J 5 HOH A 49 2049 2049 HOH HOH . J 5 HOH A 50 2050 2050 HOH HOH . J 5 HOH A 51 2051 2051 HOH HOH . J 5 HOH A 52 2052 2052 HOH HOH . J 5 HOH A 53 2053 2053 HOH HOH . J 5 HOH A 54 2054 2054 HOH HOH . J 5 HOH A 55 2055 2055 HOH HOH . J 5 HOH A 56 2056 2056 HOH HOH . J 5 HOH A 57 2057 2057 HOH HOH . J 5 HOH A 58 2058 2058 HOH HOH . J 5 HOH A 59 2059 2059 HOH HOH . J 5 HOH A 60 2060 2060 HOH HOH . J 5 HOH A 61 2061 2061 HOH HOH . J 5 HOH A 62 2062 2062 HOH HOH . J 5 HOH A 63 2063 2063 HOH HOH . K 5 HOH B 1 2001 2001 HOH HOH . K 5 HOH B 2 2002 2002 HOH HOH . K 5 HOH B 3 2003 2003 HOH HOH . K 5 HOH B 4 2004 2004 HOH HOH . K 5 HOH B 5 2005 2005 HOH HOH . K 5 HOH B 6 2006 2006 HOH HOH . K 5 HOH B 7 2007 2007 HOH HOH . K 5 HOH B 8 2008 2008 HOH HOH . K 5 HOH B 9 2009 2009 HOH HOH . K 5 HOH B 10 2010 2010 HOH HOH . K 5 HOH B 11 2011 2011 HOH HOH . K 5 HOH B 12 2012 2012 HOH HOH . K 5 HOH B 13 2013 2013 HOH HOH . K 5 HOH B 14 2014 2014 HOH HOH . K 5 HOH B 15 2015 2015 HOH HOH . K 5 HOH B 16 2016 2016 HOH HOH . K 5 HOH B 17 2017 2017 HOH HOH . K 5 HOH B 18 2018 2018 HOH HOH . K 5 HOH B 19 2019 2019 HOH HOH . K 5 HOH B 20 2020 2020 HOH HOH . K 5 HOH B 21 2021 2021 HOH HOH . K 5 HOH B 22 2022 2022 HOH HOH . K 5 HOH B 23 2023 2023 HOH HOH . K 5 HOH B 24 2024 2024 HOH HOH . K 5 HOH B 25 2025 2025 HOH HOH . K 5 HOH B 26 2026 2026 HOH HOH . K 5 HOH B 27 2027 2027 HOH HOH . K 5 HOH B 28 2028 2028 HOH HOH . K 5 HOH B 29 2029 2029 HOH HOH . K 5 HOH B 30 2030 2030 HOH HOH . K 5 HOH B 31 2031 2031 HOH HOH . K 5 HOH B 32 2032 2032 HOH HOH . K 5 HOH B 33 2033 2033 HOH HOH . K 5 HOH B 34 2034 2034 HOH HOH . K 5 HOH B 35 2035 2035 HOH HOH . K 5 HOH B 36 2036 2036 HOH HOH . K 5 HOH B 37 2037 2037 HOH HOH . K 5 HOH B 38 2038 2038 HOH HOH . K 5 HOH B 39 2039 2039 HOH HOH . K 5 HOH B 40 2040 2040 HOH HOH . L 5 HOH C 1 2001 2001 HOH HOH . L 5 HOH C 2 2002 2002 HOH HOH . L 5 HOH C 3 2003 2003 HOH HOH . L 5 HOH C 4 2004 2004 HOH HOH . L 5 HOH C 5 2005 2005 HOH HOH . L 5 HOH C 6 2006 2006 HOH HOH . L 5 HOH C 7 2007 2007 HOH HOH . L 5 HOH C 8 2008 2008 HOH HOH . L 5 HOH C 9 2009 2009 HOH HOH . L 5 HOH C 10 2010 2010 HOH HOH . L 5 HOH C 11 2011 2011 HOH HOH . L 5 HOH C 12 2012 2012 HOH HOH . L 5 HOH C 13 2013 2013 HOH HOH . L 5 HOH C 14 2014 2014 HOH HOH . L 5 HOH C 15 2015 2015 HOH HOH . L 5 HOH C 16 2016 2016 HOH HOH . L 5 HOH C 17 2017 2017 HOH HOH . L 5 HOH C 18 2018 2018 HOH HOH . L 5 HOH C 19 2019 2019 HOH HOH . L 5 HOH C 20 2020 2020 HOH HOH . L 5 HOH C 21 2021 2021 HOH HOH . L 5 HOH C 22 2022 2022 HOH HOH . L 5 HOH C 23 2023 2023 HOH HOH . L 5 HOH C 24 2024 2024 HOH HOH . L 5 HOH C 25 2025 2025 HOH HOH . L 5 HOH C 26 2026 2026 HOH HOH . L 5 HOH C 27 2027 2027 HOH HOH . L 5 HOH C 28 2028 2028 HOH HOH . L 5 HOH C 29 2029 2029 HOH HOH . L 5 HOH C 30 2030 2030 HOH HOH . L 5 HOH C 31 2031 2031 HOH HOH . L 5 HOH C 32 2032 2032 HOH HOH . L 5 HOH C 33 2033 2033 HOH HOH . L 5 HOH C 34 2034 2034 HOH HOH . L 5 HOH C 35 2035 2035 HOH HOH . L 5 HOH C 36 2036 2036 HOH HOH . L 5 HOH C 37 2037 2037 HOH HOH . L 5 HOH C 38 2038 2038 HOH HOH . L 5 HOH C 39 2039 2039 HOH HOH . L 5 HOH C 40 2040 2040 HOH HOH . L 5 HOH C 41 2041 2041 HOH HOH . L 5 HOH C 42 2042 2042 HOH HOH . L 5 HOH C 43 2043 2043 HOH HOH . L 5 HOH C 44 2044 2044 HOH HOH . L 5 HOH C 45 2045 2045 HOH HOH . L 5 HOH C 46 2046 2046 HOH HOH . L 5 HOH C 47 2047 2047 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 . . . H 4 56.394 -14.333 25.93 1 20.11 ? PB ADP 700 C 1 HETATM 2 O O1B ADP . . . H 4 56.741 -15.789 26.166 1 19.26 ? O1B ADP 700 C 1 HETATM 3 O O2B ADP . . . H 4 56.471 -14.047 24.432 1 26.25 ? O2B ADP 700 C 1 HETATM 4 O O3B ADP . . . H 4 55.02 -14.066 26.421 1 21.41 ? O3B ADP 700 C 1 HETATM 5 P PA ADP . . . H 4 57.173 -12.471 27.962 1 21.5 ? PA ADP 700 C 1 HETATM 6 O O1A ADP . . . H 4 56.436 -11.23 27.582 1 21.41 ? O1A ADP 700 C 1 HETATM 7 O O2A ADP . . . H 4 56.443 -13.333 28.981 1 19.92 ? O2A ADP 700 C 1 HETATM 8 O O3A ADP . . . H 4 57.457 -13.321 26.614 1 20.89 ? O3A ADP 700 C 1 HETATM 9 O O5' ADP . . . H 4 58.603 -11.965 28.505 1 22.67 ? O5' ADP 700 C 1 HETATM 10 C C5' ADP . . . H 4 59.606 -12.805 29.03 1 23.35 ? C5' ADP 700 C 1 HETATM 11 C C4' ADP . . . H 4 60.31 -12.025 30.133 1 24.73 ? C4' ADP 700 C 1 HETATM 12 O O4' ADP . . . H 4 61.056 -10.905 29.626 1 23.81 ? O4' ADP 700 C 1 HETATM 13 C C3' ADP . . . H 4 59.303 -11.45 31.12 1 25.31 ? C3' ADP 700 C 1 HETATM 14 O O3' ADP . . . H 4 59.979 -11.464 32.347 1 28.31 ? O3' ADP 700 C 1 HETATM 15 C C2' ADP . . . H 4 59.182 -10.003 30.716 1 25.01 ? C2' ADP 700 C 1 HETATM 16 O O2' ADP . . . H 4 59.05 -9.179 31.832 1 28.21 ? O2' ADP 700 C 1 HETATM 17 C C1' ADP . . . H 4 60.519 -9.671 30.075 1 21.76 ? C1' ADP 700 C 1 HETATM 18 N N9 ADP . . . H 4 60.402 -8.818 28.889 1 19.49 ? N9 ADP 700 C 1 HETATM 19 C C8 ADP . . . H 4 60.018 -9.242 27.642 1 17.18 ? C8 ADP 700 C 1 HETATM 20 N N7 ADP . . . H 4 60.08 -8.187 26.811 1 15.7 ? N7 ADP 700 C 1 HETATM 21 C C5 ADP . . . H 4 60.509 -7.12 27.503 1 16.08 ? C5 ADP 700 C 1 HETATM 22 C C6 ADP . . . H 4 60.734 -5.809 27.117 1 18.24 ? C6 ADP 700 C 1 HETATM 23 N N6 ADP . . . H 4 60.351 -5.42 25.889 1 16.67 ? N6 ADP 700 C 1 HETATM 24 N N1 ADP . . . H 4 61.188 -4.895 28.074 1 19.36 ? N1 ADP 700 C 1 HETATM 25 C C2 ADP . . . H 4 61.41 -5.303 29.378 1 17.64 ? C2 ADP 700 C 1 HETATM 26 N N3 ADP . . . H 4 61.159 -6.617 29.73 1 16.51 ? N3 ADP 700 C 1 HETATM 27 C C4 ADP . . . H 4 60.721 -7.497 28.81 1 16.51 ? C4 ADP 700 C 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 37 _model_server_stats.query_time_ms 221 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 27 #