data_4CEG # _model_server_result.job_id WEe7G0UZD3d2Cpt-hfpGXQ _model_server_result.datetime_utc '2024-10-10 03:20:57' _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 4ceg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1392}' # _entry.id 4CEG # _exptl.entry_id 4CEG _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 120 _cell.entry_id 4CEG _cell.length_a 80.95 _cell.length_b 80.95 _cell.length_c 174.53 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4CEG _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 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,K _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 covale ? covale1 A C THR 169 A THR 287 1_555 A N TPO 170 A TPO 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A C TPO 170 A TPO 288 1_555 A N LEU 171 A LEU 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? metalc ? metalc1 A OD1 ASN 143 A ASN 261 1_555 E MG MG . A MG 1395 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? metalc ? metalc2 A OD2 ASP 156 A ASP 274 1_555 E MG MG . A MG 1395 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc3 A OD1 ASP 156 A ASP 274 1_555 F MG MG . A MG 1396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc4 B O3B ADP . A ADP 1392 1_555 E MG MG . A MG 1395 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? metalc ? metalc5 B O2A ADP . A ADP 1392 1_555 E MG MG . A MG 1395 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.96 ? metalc ? metalc6 B O2B ADP . A ADP 1392 1_555 F MG MG . A MG 1396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc7 E MG MG . A MG 1395 1_555 K O HOH . A HOH 2039 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.159 ? metalc ? metalc8 E MG MG . A MG 1395 1_555 K O HOH . A HOH 2040 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc9 F MG MG . A MG 1396 1_555 K O HOH . A HOH 2007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.113 ? metalc ? metalc10 F MG MG . A MG 1396 1_555 K O HOH . A HOH 2010 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? metalc ? metalc11 F MG MG . A MG 1396 1_555 K O HOH . A HOH 2042 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? metalc ? metalc12 F MG MG . A MG 1396 1_555 K O HOH . A HOH 2066 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? # _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 4CEG _atom_sites.fract_transf_matrix[1][1] 0.012353 _atom_sites.fract_transf_matrix[1][2] 0.007132 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014264 _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] 0.00573 _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 1392 1392 ADP ADP . C 3 GOL A 1 1393 1393 GOL GOL . D 3 GOL A 1 1394 1394 GOL GOL . E 4 MG A 1 1395 1395 MG MG . F 4 MG A 1 1396 1396 MG MG . G 5 CL A 1 1397 1397 CL CL . H 5 CL A 1 1398 1398 CL CL . I 5 CL A 1 1399 1399 CL CL . J 5 CL A 1 1400 1400 CL CL . K 6 HOH A 1 2001 2001 HOH HOH . K 6 HOH A 2 2002 2002 HOH HOH . K 6 HOH A 3 2003 2003 HOH HOH . K 6 HOH A 4 2004 2004 HOH HOH . K 6 HOH A 5 2005 2005 HOH HOH . K 6 HOH A 6 2006 2006 HOH HOH . K 6 HOH A 7 2007 2007 HOH HOH . K 6 HOH A 8 2008 2008 HOH HOH . K 6 HOH A 9 2009 2009 HOH HOH . K 6 HOH A 10 2010 2010 HOH HOH . K 6 HOH A 11 2011 2011 HOH HOH . K 6 HOH A 12 2012 2012 HOH HOH . K 6 HOH A 13 2013 2013 HOH HOH . K 6 HOH A 14 2014 2014 HOH HOH . K 6 HOH A 15 2015 2015 HOH HOH . K 6 HOH A 16 2016 2016 HOH HOH . K 6 HOH A 17 2017 2017 HOH HOH . K 6 HOH A 18 2018 2018 HOH HOH . K 6 HOH A 19 2019 2019 HOH HOH . K 6 HOH A 20 2020 2020 HOH HOH . K 6 HOH A 21 2021 2021 HOH HOH . K 6 HOH A 22 2022 2022 HOH HOH . K 6 HOH A 23 2023 2023 HOH HOH . K 6 HOH A 24 2024 2024 HOH HOH . K 6 HOH A 25 2025 2025 HOH HOH . K 6 HOH A 26 2026 2026 HOH HOH . K 6 HOH A 27 2027 2027 HOH HOH . K 6 HOH A 28 2028 2028 HOH HOH . K 6 HOH A 29 2029 2029 HOH HOH . K 6 HOH A 30 2030 2030 HOH HOH . K 6 HOH A 31 2031 2031 HOH HOH . K 6 HOH A 32 2032 2032 HOH HOH . K 6 HOH A 33 2033 2033 HOH HOH . K 6 HOH A 34 2034 2034 HOH HOH . K 6 HOH A 35 2035 2035 HOH HOH . K 6 HOH A 36 2036 2036 HOH HOH . K 6 HOH A 37 2037 2037 HOH HOH . K 6 HOH A 38 2038 2038 HOH HOH . K 6 HOH A 39 2039 2039 HOH HOH . K 6 HOH A 40 2040 2040 HOH HOH . K 6 HOH A 41 2041 2041 HOH HOH . K 6 HOH A 42 2042 2042 HOH HOH . K 6 HOH A 43 2043 2043 HOH HOH . K 6 HOH A 44 2044 2044 HOH HOH . K 6 HOH A 45 2045 2045 HOH HOH . K 6 HOH A 46 2046 2046 HOH HOH . K 6 HOH A 47 2047 2047 HOH HOH . K 6 HOH A 48 2048 2048 HOH HOH . K 6 HOH A 49 2049 2049 HOH HOH . K 6 HOH A 50 2050 2050 HOH HOH . K 6 HOH A 51 2051 2051 HOH HOH . K 6 HOH A 52 2052 2052 HOH HOH . K 6 HOH A 53 2053 2053 HOH HOH . K 6 HOH A 54 2054 2054 HOH HOH . K 6 HOH A 55 2055 2055 HOH HOH . K 6 HOH A 56 2056 2056 HOH HOH . K 6 HOH A 57 2057 2057 HOH HOH . K 6 HOH A 58 2058 2058 HOH HOH . K 6 HOH A 59 2059 2059 HOH HOH . K 6 HOH A 60 2060 2060 HOH HOH . K 6 HOH A 61 2061 2061 HOH HOH . K 6 HOH A 62 2062 2062 HOH HOH . K 6 HOH A 63 2063 2063 HOH HOH . K 6 HOH A 64 2064 2064 HOH HOH . K 6 HOH A 65 2065 2065 HOH HOH . K 6 HOH A 66 2066 2066 HOH HOH . K 6 HOH A 67 2067 2067 HOH HOH . K 6 HOH A 68 2068 2068 HOH HOH . K 6 HOH A 69 2069 2069 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 -12.281 23.458 -6.104 1 34.81 ? PB ADP 1392 A 1 HETATM 2 O O1B ADP . . . B 2 -11.776 22.258 -5.346 1 34.98 ? O1B ADP 1392 A 1 HETATM 3 O O2B ADP . . . B 2 -12.846 23.139 -7.472 1 33.64 ? O2B ADP 1392 A 1 HETATM 4 O O3B ADP . . . B 2 -13.115 24.358 -5.229 1 33.75 ? O3B ADP 1392 A 1 HETATM 5 P PA ADP . . . B 2 -10.866 25.806 -7.03 1 29.95 ? PA ADP 1392 A 1 HETATM 6 O O1A ADP . . . B 2 -10.598 25.833 -8.52 1 29.82 ? O1A ADP 1392 A 1 HETATM 7 O O2A ADP . . . B 2 -12.038 26.549 -6.452 1 30.21 ? O2A ADP 1392 A 1 HETATM 8 O O3A ADP . . . B 2 -10.953 24.296 -6.47 1 35.22 ? O3A ADP 1392 A 1 HETATM 9 O O5' ADP . . . B 2 -9.473 26.295 -6.359 1 30.65 ? O5' ADP 1392 A 1 HETATM 10 C C5' ADP . . . B 2 -9.281 26.262 -4.943 1 30.94 ? C5' ADP 1392 A 1 HETATM 11 C C4' ADP . . . B 2 -8.551 27.517 -4.445 1 29.82 ? C4' ADP 1392 A 1 HETATM 12 O O4' ADP . . . B 2 -7.261 27.677 -5.057 1 31.07 ? O4' ADP 1392 A 1 HETATM 13 C C3' ADP . . . B 2 -9.291 28.803 -4.753 1 30.35 ? C3' ADP 1392 A 1 HETATM 14 O O3' ADP . . . B 2 -10.263 29.087 -3.741 1 30.62 ? O3' ADP 1392 A 1 HETATM 15 C C2' ADP . . . B 2 -8.16 29.811 -4.77 1 32.85 ? C2' ADP 1392 A 1 HETATM 16 O O2' ADP . . . B 2 -7.756 30.041 -3.424 1 27.81 ? O2' ADP 1392 A 1 HETATM 17 C C1' ADP . . . B 2 -7.004 29.05 -5.372 1 29.57 ? C1' ADP 1392 A 1 HETATM 18 N N9 ADP . . . B 2 -6.984 29.145 -6.854 1 29.65 ? N9 ADP 1392 A 1 HETATM 19 C C8 ADP . . . B 2 -7.691 28.355 -7.694 1 28.44 ? C8 ADP 1392 A 1 HETATM 20 N N7 ADP . . . B 2 -7.454 28.681 -8.984 1 30.12 ? N7 ADP 1392 A 1 HETATM 21 C C5 ADP . . . B 2 -6.568 29.696 -8.982 1 26.46 ? C5 ADP 1392 A 1 HETATM 22 C C6 ADP . . . B 2 -5.892 30.498 -10.013 1 27.86 ? C6 ADP 1392 A 1 HETATM 23 N N6 ADP . . . B 2 -6.134 30.254 -11.33 1 27.05 ? N6 ADP 1392 A 1 HETATM 24 N N1 ADP . . . B 2 -5.035 31.471 -9.596 1 29.69 ? N1 ADP 1392 A 1 HETATM 25 C C2 ADP . . . B 2 -4.802 31.708 -8.287 1 29.06 ? C2 ADP 1392 A 1 HETATM 26 N N3 ADP . . . B 2 -5.384 31.001 -7.291 1 27.21 ? N3 ADP 1392 A 1 HETATM 27 C C4 ADP . . . B 2 -6.262 30.003 -7.576 1 29.02 ? C4 ADP 1392 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 43 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #