data_4AXE # _model_server_result.job_id EWpO3k1U-rg0r5Eh1sb-dQ _model_server_result.datetime_utc '2024-11-27 17:17:56' _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 4axe # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1435}' # _entry.id 4AXE # _exptl.entry_id 4AXE _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 4AXE _cell.length_a 100.62 _cell.length_b 71.92 _cell.length_c 63.72 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4AXE _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_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 _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 2 _struct_asym.id B _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 ND1 HIS 325 A HIS 320 1_555 C ZN ZN . A ZN 1436 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc2 A SG CYS 335 A CYS 330 1_555 C ZN ZN . A ZN 1436 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? metalc ? metalc3 A SG CYS 338 A CYS 333 1_555 C ZN ZN . A ZN 1436 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.485 ? metalc ? metalc4 A NE2 HIS 351 A HIS 346 1_555 C ZN ZN . A ZN 1436 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? # _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 4AXE _atom_sites.fract_transf_matrix[1][1] 0.009938 _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] 0.013904 _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] 0.015694 _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 1435 1435 ADP ADP . C 3 ZN A 1 1436 1436 ZN ZN . D 4 SO4 A 1 1437 1437 SO4 SO4 . E 4 SO4 A 1 1438 1438 SO4 SO4 . F 4 SO4 A 1 1439 1439 SO4 SO4 . G 4 SO4 A 1 1440 1440 SO4 SO4 . H 4 SO4 A 1 1441 1441 SO4 SO4 . I 4 SO4 A 1 1442 1442 SO4 SO4 . 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 . J 5 HOH A 64 2064 2064 HOH HOH . J 5 HOH A 65 2065 2065 HOH HOH . J 5 HOH A 66 2066 2066 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 -20.484 0.268 -22.834 1 42.13 ? PB ADP 1435 A 1 HETATM 2 O O1B ADP . . . B 2 -21.745 0.57 -23.617 1 40.85 ? O1B ADP 1435 A 1 HETATM 3 O O2B ADP . . . B 2 -19.374 1.281 -23.007 1 40.64 ? O2B ADP 1435 A 1 HETATM 4 O O3B ADP . . . B 2 -20.014 -1.167 -22.95 1 38.63 ? O3B ADP 1435 A 1 HETATM 5 P PA ADP . . . B 2 -21.42 1.808 -20.623 1 37.47 ? PA ADP 1435 A 1 HETATM 6 O O1A ADP . . . B 2 -20.186 2.622 -20.318 1 37.17 ? O1A ADP 1435 A 1 HETATM 7 O O2A ADP . . . B 2 -22.559 2.403 -21.417 1 36.6 ? O2A ADP 1435 A 1 HETATM 8 O O3A ADP . . . B 2 -20.939 0.414 -21.288 1 39.5 ? O3A ADP 1435 A 1 HETATM 9 O O5' ADP . . . B 2 -22.026 1.323 -19.216 1 35.16 ? O5' ADP 1435 A 1 HETATM 10 C C5' ADP . . . B 2 -23.048 0.333 -19.172 1 32.46 ? C5' ADP 1435 A 1 HETATM 11 C C4' ADP . . . B 2 -24.035 0.651 -18.059 1 30.92 ? C4' ADP 1435 A 1 HETATM 12 O O4' ADP . . . B 2 -23.354 1.002 -16.845 1 29.98 ? O4' ADP 1435 A 1 HETATM 13 C C3' ADP . . . B 2 -24.91 1.84 -18.425 1 30.25 ? C3' ADP 1435 A 1 HETATM 14 O O3' ADP . . . B 2 -26.107 1.423 -19.101 1 29.61 ? O3' ADP 1435 A 1 HETATM 15 C C2' ADP . . . B 2 -25.165 2.521 -17.091 1 29.13 ? C2' ADP 1435 A 1 HETATM 16 O O2' ADP . . . B 2 -26.335 1.985 -16.479 1 28.69 ? O2' ADP 1435 A 1 HETATM 17 C C1' ADP . . . B 2 -23.979 2.136 -16.228 1 29.32 ? C1' ADP 1435 A 1 HETATM 18 N N9 ADP . . . B 2 -23.043 3.288 -16.129 1 28.85 ? N9 ADP 1435 A 1 HETATM 19 C C8 ADP . . . B 2 -22.067 3.605 -17.005 1 28.72 ? C8 ADP 1435 A 1 HETATM 20 N N7 ADP . . . B 2 -21.399 4.72 -16.612 1 28.3 ? N7 ADP 1435 A 1 HETATM 21 C C5 ADP . . . B 2 -21.948 5.14 -15.458 1 27.66 ? C5 ADP 1435 A 1 HETATM 22 C C6 ADP . . . B 2 -21.721 6.255 -14.504 1 27.31 ? C6 ADP 1435 A 1 HETATM 23 N N6 ADP . . . B 2 -20.752 7.185 -14.693 1 26.74 ? N6 ADP 1435 A 1 HETATM 24 N N1 ADP . . . B 2 -22.524 6.316 -13.419 1 27.87 ? N1 ADP 1435 A 1 HETATM 25 C C2 ADP . . . B 2 -23.503 5.411 -13.199 1 28.17 ? C2 ADP 1435 A 1 HETATM 26 N N3 ADP . . . B 2 -23.761 4.377 -14.023 1 28.06 ? N3 ADP 1435 A 1 HETATM 27 C C4 ADP . . . B 2 -23.031 4.19 -15.147 1 27.92 ? C4 ADP 1435 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 355 _model_server_stats.encode_time_ms 21 _model_server_stats.element_count 27 #