data_7RGD # _model_server_result.job_id CvPfzsip_B2FcSxLpt_0Vw _model_server_result.datetime_utc '2024-10-19 01:38:35' _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 7rgd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"EA","auth_seq_id":603}' # _entry.id 7RGD # _exptl.entry_id 7RGD _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 8 _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 7RGD _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7RGD _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 octameric _pdbx_struct_assembly.oligomeric_count 8 _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,OA,PA,QA,RA,SA,TA,UA,VA _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 ? 3 K N N ? 3 P N N ? 3 U N N ? 3 Z N N ? 3 EA N N ? 3 JA N N ? 3 OA N N ? 3 TA N N # _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 7RGD _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 I 2 GTP A 1 601 601 GTP GTP . J 2 GTP A 1 602 602 GTP GTP . K 3 ATP A 1 603 603 ATP ATP . L 4 IMP A 1 604 604 IMP IMP . M 5 NAD A 1 605 605 NAD NAD . N 2 GTP B 1 601 601 GTP GTP . O 2 GTP B 1 602 602 GTP GTP . P 3 ATP B 1 603 603 ATP ATP . Q 4 IMP B 1 604 604 IMP IMP . R 5 NAD B 1 605 605 NAD NAD . S 2 GTP C 1 601 601 GTP GTP . T 2 GTP C 1 602 602 GTP GTP . U 3 ATP C 1 603 603 ATP ATP . V 4 IMP C 1 604 604 IMP IMP . W 5 NAD C 1 605 605 NAD NAD . X 2 GTP D 1 601 601 GTP GTP . Y 2 GTP D 1 602 602 GTP GTP . Z 3 ATP D 1 603 603 ATP ATP . AA 4 IMP D 1 604 604 IMP IMP . BA 5 NAD D 1 605 605 NAD NAD . CA 2 GTP E 1 601 601 GTP GTP . DA 2 GTP E 1 602 602 GTP GTP . EA 3 ATP E 1 603 603 ATP ATP . FA 4 IMP E 1 604 604 IMP IMP . GA 5 NAD E 1 605 605 NAD NAD . HA 2 GTP F 1 601 601 GTP GTP . IA 2 GTP F 1 602 602 GTP GTP . JA 3 ATP F 1 603 603 ATP ATP . KA 4 IMP F 1 604 604 IMP IMP . LA 5 NAD F 1 605 605 NAD NAD . MA 2 GTP G 1 601 601 GTP GTP . NA 2 GTP G 1 602 602 GTP GTP . OA 3 ATP G 1 603 603 ATP ATP . PA 4 IMP G 1 604 604 IMP IMP . QA 5 NAD G 1 605 605 NAD NAD . RA 2 GTP H 1 601 601 GTP GTP . SA 2 GTP H 1 602 602 GTP GTP . TA 3 ATP H 1 603 603 ATP ATP . UA 4 IMP H 1 604 604 IMP IMP . VA 5 NAD H 1 605 605 NAD NAD . # 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 . . . EA 3 111.354 171.371 167.076 1 59.29 ? PG ATP 603 E 1 HETATM 2 O O1G ATP . . . EA 3 111.936 170.832 168.322 1 59.29 ? O1G ATP 603 E 1 HETATM 3 O O2G ATP . . . EA 3 112.276 172.379 166.494 1 59.29 ? O2G ATP 603 E 1 HETATM 4 O O3G ATP . . . EA 3 111.23 170.233 166.131 1 59.29 ? O3G ATP 603 E 1 HETATM 5 P PB ATP . . . EA 3 109.577 173.098 168.289 1 59.29 ? PB ATP 603 E 1 HETATM 6 O O1B ATP . . . EA 3 110.693 173.478 169.194 1 59.29 ? O1B ATP 603 E 1 HETATM 7 O O2B ATP . . . EA 3 109.045 174.318 167.615 1 59.29 ? O2B ATP 603 E 1 HETATM 8 O O3B ATP . . . EA 3 109.926 171.953 167.271 1 59.29 ? O3B ATP 603 E 1 HETATM 9 P PA ATP . . . EA 3 107.422 172.81 169.985 1 59.29 ? PA ATP 603 E 1 HETATM 10 O O1A ATP . . . EA 3 107.936 173.89 170.861 1 59.29 ? O1A ATP 603 E 1 HETATM 11 O O2A ATP . . . EA 3 106.881 171.706 170.827 1 59.29 ? O2A ATP 603 E 1 HETATM 12 O O3A ATP . . . EA 3 108.495 172.224 169.026 1 59.29 ? O3A ATP 603 E 1 HETATM 13 O O5' ATP . . . EA 3 106.333 173.332 168.928 1 59.29 ? O5' ATP 603 E 1 HETATM 14 C C5' ATP . . . EA 3 105.617 172.411 168.088 1 59.29 ? C5' ATP 603 E 1 HETATM 15 C C4' ATP . . . EA 3 104.21 172.975 167.731 1 59.29 ? C4' ATP 603 E 1 HETATM 16 O O4' ATP . . . EA 3 103.433 173.085 168.946 1 59.29 ? O4' ATP 603 E 1 HETATM 17 C C3' ATP . . . EA 3 104.216 174.393 167.1 1 59.29 ? C3' ATP 603 E 1 HETATM 18 O O3' ATP . . . EA 3 103.237 174.49 166.071 1 59.29 ? O3' ATP 603 E 1 HETATM 19 C C2' ATP . . . EA 3 103.818 175.3 168.268 1 59.29 ? C2' ATP 603 E 1 HETATM 20 O O2' ATP . . . EA 3 103.223 176.544 167.863 1 59.29 ? O2' ATP 603 E 1 HETATM 21 C C1' ATP . . . EA 3 102.881 174.403 169.093 1 59.29 ? C1' ATP 603 E 1 HETATM 22 N N9 ATP . . . EA 3 102.835 174.712 170.514 1 59.29 ? N9 ATP 603 E 1 HETATM 23 C C8 ATP . . . EA 3 103.903 175.003 171.362 1 59.29 ? C8 ATP 603 E 1 HETATM 24 N N7 ATP . . . EA 3 103.532 175.119 172.647 1 59.29 ? N7 ATP 603 E 1 HETATM 25 C C5 ATP . . . EA 3 102.198 174.847 172.579 1 59.29 ? C5 ATP 603 E 1 HETATM 26 C C6 ATP . . . EA 3 101.258 174.794 173.604 1 59.29 ? C6 ATP 603 E 1 HETATM 27 N N6 ATP . . . EA 3 101.549 175.06 174.89 1 59.29 ? N6 ATP 603 E 1 HETATM 28 N N1 ATP . . . EA 3 99.999 174.464 173.388 1 59.29 ? N1 ATP 603 E 1 HETATM 29 C C2 ATP . . . EA 3 99.682 174.203 172.116 1 59.29 ? C2 ATP 603 E 1 HETATM 30 N N3 ATP . . . EA 3 100.499 174.244 171.056 1 59.29 ? N3 ATP 603 E 1 HETATM 31 C C4 ATP . . . EA 3 101.761 174.588 171.327 1 59.29 ? C4 ATP 603 E 1 HETATM 32 H "H5'1" ATP . . . EA 3 106.184 172.23 167.168 1 59.29 ? "H5'1" ATP 603 E 1 HETATM 33 H "H5'2" ATP . . . EA 3 105.485 171.447 168.593 1 59.29 ? "H5'2" ATP 603 E 1 HETATM 34 H H4' ATP . . . EA 3 103.723 172.269 167.048 1 59.29 ? H4' ATP 603 E 1 HETATM 35 H H3' ATP . . . EA 3 105.203 174.652 166.7 1 59.29 ? H3' ATP 603 E 1 HETATM 36 H HO3' ATP . . . EA 3 103.34 175.4 165.746 1 59.29 ? HO3' ATP 603 E 1 HETATM 37 H H2' ATP . . . EA 3 104.725 175.497 168.853 1 59.29 ? H2' ATP 603 E 1 HETATM 38 H HO2' ATP . . . EA 3 103.511 176.7 166.948 1 59.29 ? HO2' ATP 603 E 1 HETATM 39 H H1' ATP . . . EA 3 101.863 174.432 168.689 1 59.29 ? H1' ATP 603 E 1 HETATM 40 H H8 ATP . . . EA 3 104.916 175.097 170.995 1 59.29 ? H8 ATP 603 E 1 HETATM 41 H HN61 ATP . . . EA 3 102.507 174.914 175.176 1 59.29 ? HN61 ATP 603 E 1 HETATM 42 H HN62 ATP . . . EA 3 100.805 174.965 175.567 1 59.29 ? HN62 ATP 603 E 1 HETATM 43 H H2 ATP . . . EA 3 98.648 173.928 171.921 1 59.29 ? H2 ATP 603 E 1 # _model_server_stats.io_time_ms 28 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 76 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #