data_8TK8 # _model_server_result.job_id fZhg5qDfu0PVB27ikbp_kw _model_server_result.datetime_utc '2024-11-21 13:38:00' _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 8tk8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Z","auth_seq_id":2704}' # _entry.id 8TK8 # _exptl.entry_id 8TK8 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 4 _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 8TK8 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8TK8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_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,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA _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 ? _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 G N N ? 4 R N N ? 4 Z N N ? 4 KA N 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 disulf ? disulf1 A SG CYS 2455 A CYS 2455 1_555 A SG CYS 2461 A CYS 2461 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 B SG CYS 2455 B CYS 2455 1_555 B SG CYS 2461 B CYS 2461 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 C SG CYS 2455 C CYS 2455 1_555 C SG CYS 2461 C CYS 2461 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 D SG CYS 2455 D CYS 2455 1_555 D SG CYS 2461 D CYS 2461 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? metalc ? metalc1 A SG CYS 2538 A CYS 2538 1_555 E ZN ZN . A ZN 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc2 A SG CYS 2541 A CYS 2541 1_555 E ZN ZN . A ZN 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc3 A NE2 HIS 2558 A HIS 2558 1_555 E ZN ZN . A ZN 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc4 A ND1 HIS 2563 A HIS 2563 1_555 E ZN ZN . A ZN 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? metalc ? metalc5 B SG CYS 2538 B CYS 2538 1_555 P ZN ZN . B ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc6 B SG CYS 2541 B CYS 2541 1_555 P ZN ZN . B ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc7 B NE2 HIS 2558 B HIS 2558 1_555 P ZN ZN . B ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc8 B ND1 HIS 2563 B HIS 2563 1_555 P ZN ZN . B ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? metalc ? metalc9 C SG CYS 2538 C CYS 2538 1_555 X ZN ZN . C ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc10 C SG CYS 2541 C CYS 2541 1_555 X ZN ZN . C ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc11 C NE2 HIS 2558 C HIS 2558 1_555 X ZN ZN . C ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc12 C ND1 HIS 2563 C HIS 2563 1_555 X ZN ZN . C ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? metalc ? metalc13 D SG CYS 2538 D CYS 2538 1_555 IA ZN ZN . D ZN 2703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc14 D SG CYS 2541 D CYS 2541 1_555 IA ZN ZN . D ZN 2703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc15 D NE2 HIS 2558 D HIS 2558 1_555 IA ZN ZN . D ZN 2703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc16 D ND1 HIS 2563 D HIS 2563 1_555 IA ZN ZN . D ZN 2703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 PG O1G ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 8TK8 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 E 2 ZN A 1 3001 3001 ZN ZN . F 3 I3P A 1 3002 3002 I3P I3P . G 4 ATP A 1 3003 3005 ATP ATP . H 5 PCW A 1 3004 4000 PCW PCW . I 5 PCW A 1 3005 4001 PCW PCW . J 5 PCW A 1 3006 4004 PCW PCW . K 5 PCW A 1 3007 4007 PCW PCW . L 5 PCW A 1 3008 4003 PCW PCW . M 5 PCW A 1 3009 4007 PCW PCW . N 5 PCW A 1 3010 4006 PCW PCW . O 5 PCW B 1 2701 4006 PCW PCW . P 2 ZN B 1 2702 3001 ZN ZN . Q 3 I3P B 1 2703 3002 I3P I3P . R 4 ATP B 1 2704 3005 ATP ATP . S 5 PCW B 1 2705 4000 PCW PCW . T 5 PCW B 1 2706 4001 PCW PCW . U 5 PCW B 1 2707 4004 PCW PCW . V 5 PCW B 1 2708 4003 PCW PCW . W 5 PCW C 1 2701 4006 PCW PCW . X 2 ZN C 1 2702 3001 ZN ZN . Y 3 I3P C 1 2703 3002 I3P I3P . Z 4 ATP C 1 2704 3005 ATP ATP . AA 5 PCW C 1 2705 4000 PCW PCW . BA 5 PCW C 1 2706 4001 PCW PCW . CA 5 PCW C 1 2707 4004 PCW PCW . DA 5 PCW C 1 2708 4007 PCW PCW . EA 5 PCW C 1 2709 4003 PCW PCW . FA 5 PCW C 1 2710 4007 PCW PCW . GA 5 PCW D 1 2701 4003 PCW PCW . HA 5 PCW D 1 2702 4006 PCW PCW . IA 2 ZN D 1 2703 3001 ZN ZN . JA 3 I3P D 1 2704 3002 I3P I3P . KA 4 ATP D 1 2705 3005 ATP ATP . LA 5 PCW D 1 2706 4000 PCW PCW . MA 5 PCW D 1 2707 4001 PCW PCW . NA 5 PCW D 1 2708 4004 PCW PCW . # 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 ATP . . . Z 4 176.614 213.998 241.956 1 90.34 ? PG ATP 2704 C 1 HETATM 2 O O1G ATP . . . Z 4 175.219 213.505 242.14 1 71.42 ? O1G ATP 2704 C 1 HETATM 3 O O2G ATP . . . Z 4 177.199 213.685 240.574 1 71.03 ? O2G ATP 2704 C 1 HETATM 4 O O3G ATP . . . Z 4 176.781 215.494 242.245 1 65.51 ? O3G ATP 2704 C 1 HETATM 5 P PB ATP . . . Z 4 178.438 213.601 244.3 1 79.74 ? PB ATP 2704 C 1 HETATM 6 O O1B ATP . . . Z 4 177.85 212.964 245.495 1 67.57 ? O1B ATP 2704 C 1 HETATM 7 O O2B ATP . . . Z 4 178.604 215.119 244.368 1 66.74 ? O2B ATP 2704 C 1 HETATM 8 O O3B ATP . . . Z 4 177.605 213.277 242.984 1 72.72 ? O3B ATP 2704 C 1 HETATM 9 P PA ATP . . . Z 4 180.418 211.676 243.231 1 75.34 ? PA ATP 2704 C 1 HETATM 10 O O1A ATP . . . Z 4 180.286 211.758 241.763 1 63.89 ? O1A ATP 2704 C 1 HETATM 11 O O2A ATP . . . Z 4 179.71 210.483 243.873 1 62.07 ? O2A ATP 2704 C 1 HETATM 12 O O3A ATP . . . Z 4 179.863 212.987 243.944 1 72.63 ? O3A ATP 2704 C 1 HETATM 13 O O5' ATP . . . Z 4 181.933 211.659 243.674 1 70.64 ? O5' ATP 2704 C 1 HETATM 14 C C5' ATP . . . Z 4 182.409 210.747 244.686 1 66.52 ? C5' ATP 2704 C 1 HETATM 15 C C4' ATP . . . Z 4 183.534 211.382 245.463 1 65.54 ? C4' ATP 2704 C 1 HETATM 16 O O4' ATP . . . Z 4 184.719 210.606 245.178 1 65.21 ? O4' ATP 2704 C 1 HETATM 17 C C3' ATP . . . Z 4 183.873 212.766 244.923 1 67.13 ? C3' ATP 2704 C 1 HETATM 18 O O3' ATP . . . Z 4 184.774 213.335 245.862 1 71.99 ? O3' ATP 2704 C 1 HETATM 19 C C2' ATP . . . Z 4 184.715 212.419 243.701 1 61.97 ? C2' ATP 2704 C 1 HETATM 20 O O2' ATP . . . Z 4 185.619 213.5 243.524 1 63.58 ? O2' ATP 2704 C 1 HETATM 21 C C1' ATP . . . Z 4 185.572 211.299 244.284 1 64.75 ? C1' ATP 2704 C 1 HETATM 22 N N9 ATP . . . Z 4 185.968 210.342 243.258 1 61.11 ? N9 ATP 2704 C 1 HETATM 23 C C8 ATP . . . Z 4 185.146 209.54 242.51 1 60.19 ? C8 ATP 2704 C 1 HETATM 24 N N7 ATP . . . Z 4 185.778 208.774 241.656 1 58.54 ? N7 ATP 2704 C 1 HETATM 25 C C5 ATP . . . Z 4 187.113 209.092 241.855 1 55.07 ? C5 ATP 2704 C 1 HETATM 26 C C6 ATP . . . Z 4 188.301 208.627 241.259 1 52.52 ? C6 ATP 2704 C 1 HETATM 27 N N6 ATP . . . Z 4 188.337 207.7 240.297 1 51.63 ? N6 ATP 2704 C 1 HETATM 28 N N1 ATP . . . Z 4 189.468 209.155 241.689 1 54.15 ? N1 ATP 2704 C 1 HETATM 29 C C2 ATP . . . Z 4 189.44 210.081 242.65 1 57.35 ? C2 ATP 2704 C 1 HETATM 30 N N3 ATP . . . Z 4 188.385 210.596 243.285 1 57.99 ? N3 ATP 2704 C 1 HETATM 31 C C4 ATP . . . Z 4 187.245 210.058 242.84 1 57.31 ? C4 ATP 2704 C 1 HETATM 32 H "H5'1" ATP . . . Z 4 182.731 209.937 244.262 1 62.82 ? "H5'1" ATP 2704 C 1 HETATM 33 H "H5'2" ATP . . . Z 4 181.684 210.529 245.293 1 62.79 ? "H5'2" ATP 2704 C 1 HETATM 34 H H4' ATP . . . Z 4 183.329 211.41 246.41 1 63.36 ? H4' ATP 2704 C 1 HETATM 35 H H3' ATP . . . Z 4 183.105 213.329 244.736 1 63.61 ? H3' ATP 2704 C 1 HETATM 36 H HO3' ATP . . . Z 4 184.684 214.179 245.809 1 64.28 ? HO3' ATP 2704 C 1 HETATM 37 H H2' ATP . . . Z 4 184.21 212.184 242.907 1 62.33 ? H2' ATP 2704 C 1 HETATM 38 H HO2' ATP . . . Z 4 185.916 213.701 244.295 1 63.59 ? HO2' ATP 2704 C 1 HETATM 39 H H1' ATP . . . Z 4 186.351 211.658 244.737 1 63.21 ? H1' ATP 2704 C 1 HETATM 40 H H8 ATP . . . Z 4 184.22 209.541 242.6 1 61.58 ? H8 ATP 2704 C 1 HETATM 41 H HN61 ATP . . . Z 4 187.662 207.183 240.172 1 58.96 ? HN61 ATP 2704 C 1 HETATM 42 H HN62 ATP . . . Z 4 189.037 207.621 239.803 1 59 ? HN62 ATP 2704 C 1 HETATM 43 H H2 ATP . . . Z 4 190.268 210.413 242.912 1 61.62 ? H2 ATP 2704 C 1 # _model_server_stats.io_time_ms 131 _model_server_stats.parse_time_ms 34 _model_server_stats.create_model_time_ms 419 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 43 #