data_7PUT # _model_server_result.job_id Q1UmG9_oLY6Uo_K0_vyiDA _model_server_result.datetime_utc '2024-11-22 04:09:38' _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 7put # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":606}' # _entry.id 7PUT # _exptl.entry_id 7PUT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-MONOPHOSPHOADENOSINE-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 7PUT _cell.length_a 147.39 _cell.length_b 260.287 _cell.length_c 130.333 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7PUT _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,D,E,F,G,H,I,J,K,L,M,O,P 1 1 C,N 2 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_454 -x-1,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 -147.39 0 -65.1665 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id I _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 disulf ? disulf1 A SG CYS 153 A CYS 153 1_555 A SG CYS 158 A CYS 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.812 ? disulf ? disulf2 B SG CYS 153 B CYS 153 1_555 B SG CYS 158 B CYS 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? disulf ? disulf3 C SG CYS 153 C CYS 153 1_555 C SG CYS 158 C CYS 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? covale ? covale1 A C GLN 344 A GLN 344 1_555 A N 2CO 345 A 2CO 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale2 A C 2CO 345 A 2CO 345 1_555 A N VAL 346 A VAL 346 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale3 B C GLN 344 B GLN 344 1_555 B N 2CO 345 B 2CO 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale4 B C 2CO 345 B 2CO 345 1_555 B N VAL 346 B VAL 346 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATR _chem_comp.mon_nstd_flag . _chem_comp.name "2'-MONOPHOSPHOADENOSINE-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 ATR doub 85 n n PB O2B ATR sing 86 n n PB O3B ATR sing 87 n n PB O3A ATR sing 88 n n O2B HOB2 ATR sing 89 n n O3B HOB3 ATR sing 90 n n PA O1A ATR doub 91 n n PA O2A ATR sing 92 n n PA O3A ATR sing 93 n n PA O5' ATR sing 94 n n O2A HOA2 ATR sing 95 n n O5' C5' ATR sing 96 n n C5' C4' ATR sing 97 n n C5' "H5'1" ATR sing 98 n n C5' "H5'2" ATR sing 99 n n C4' O4' ATR sing 100 n n C4' C3' ATR sing 101 n n C4' H4' ATR sing 102 n n O4' C1' ATR sing 103 n n C3' O3' ATR sing 104 n n C3' C2' ATR sing 105 n n C3' H3' ATR sing 106 n n O3' HO3' ATR sing 107 n n C2' O2' ATR sing 108 n n C2' C1' ATR sing 109 n n C2' H2' ATR sing 110 n n O2' P2' ATR sing 111 n n P2' O1P ATR doub 112 n n P2' O2P ATR sing 113 n n P2' O3P ATR sing 114 n n O2P HOP2 ATR sing 115 n n O3P HOP3 ATR sing 116 n n C1' N9 ATR sing 117 n n C1' H1' ATR sing 118 n n N9 C8 ATR sing 119 n y N9 C4 ATR sing 120 n y C8 N7 ATR doub 121 n y C8 H8 ATR sing 122 n n N7 C5 ATR sing 123 n y C5 C6 ATR sing 124 n y C5 C4 ATR doub 125 n y C6 N6 ATR sing 126 n n C6 N1 ATR doub 127 n y N6 HN61 ATR sing 128 n n N6 HN62 ATR sing 129 n n N1 C2 ATR sing 130 n y C2 N3 ATR doub 131 n y C2 H2 ATR sing 132 n n N3 C4 ATR sing 133 n y # _atom_sites.entry_id 7PUT _atom_sites.fract_transf_matrix[1][1] 0.006785 _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] 0.003842 _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] 0.007673 _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 3 FAD A 1 601 699 FAD FAD . E 4 MPD A 1 602 1 MPD MPD . F 4 MPD A 1 603 3 MPD MPD . G 4 MPD A 1 604 4 MPD MPD . H 4 MPD A 1 605 7 MPD MPD . I 5 ATR A 1 606 1 ATR ATR . J 3 FAD B 1 601 699 FAD FAD . K 4 MPD B 1 602 2 MPD MPD . L 4 MPD B 1 603 5 MPD MPD . M 4 MPD B 1 604 6 MPD MPD . N 3 FAD C 1 601 699 FAD FAD . O 6 HOH A 1 701 2 HOH HOH . O 6 HOH A 2 702 210 HOH HOH . O 6 HOH A 3 703 194 HOH HOH . O 6 HOH A 4 704 186 HOH HOH . O 6 HOH A 5 705 188 HOH HOH . O 6 HOH A 6 706 176 HOH HOH . P 6 HOH B 1 701 223 HOH HOH . P 6 HOH B 2 702 39 HOH HOH . P 6 HOH B 3 703 4 HOH HOH . P 6 HOH B 4 704 204 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 ATR . . . I 5 -39.985 -40.519 -30.267 0.8 103.11 ? PB ATR 606 A 1 HETATM 2 O O1B ATR . . . I 5 -39.6 -41.489 -29.15 0.8 82.77 ? O1B ATR 606 A 1 HETATM 3 O O2B ATR . . . I 5 -39.57 -40.877 -31.693 0.8 92.79 ? O2B ATR 606 A 1 HETATM 4 O O3B ATR . . . I 5 -39.665 -39.079 -29.944 0.8 84.1 ? O3B ATR 606 A 1 HETATM 5 P PA ATR . . . I 5 -42.853 -39.835 -29.895 0.8 94.53 ? PA ATR 606 A 1 HETATM 6 O O1A ATR . . . I 5 -42.748 -38.5 -30.594 0.8 84.96 ? O1A ATR 606 A 1 HETATM 7 O O2A ATR . . . I 5 -43.071 -39.883 -28.388 0.8 94.77 ? O2A ATR 606 A 1 HETATM 8 O O3A ATR . . . I 5 -41.596 -40.75 -30.367 0.8 99.39 ? O3A ATR 606 A 1 HETATM 9 O O5' ATR . . . I 5 -44.063 -40.672 -30.591 0.8 97.31 ? O5' ATR 606 A 1 HETATM 10 C C5' ATR . . . I 5 -44.411 -42.006 -30.189 0.8 87.84 ? C5' ATR 606 A 1 HETATM 11 C C4' ATR . . . I 5 -44.722 -42.977 -31.343 0.8 87.05 ? C4' ATR 606 A 1 HETATM 12 O O4' ATR . . . I 5 -45.9 -42.681 -32.098 0.8 86.03 ? O4' ATR 606 A 1 HETATM 13 C C3' ATR . . . I 5 -43.646 -43.078 -32.406 0.8 89.99 ? C3' ATR 606 A 1 HETATM 14 O O3' ATR . . . I 5 -43.646 -44.438 -32.796 0.8 92.86 ? O3' ATR 606 A 1 HETATM 15 C C2' ATR . . . I 5 -44.103 -42.198 -33.557 0.8 93.88 ? C2' ATR 606 A 1 HETATM 16 O O2' ATR . . . I 5 -43.68 -42.568 -34.872 0.8 95.68 ? O2' ATR 606 A 1 HETATM 17 P P2' ATR . . . I 5 -42.634 -41.645 -35.681 0.8 99.87 ? P2' ATR 606 A 1 HETATM 18 O O1P ATR . . . I 5 -41.311 -42.064 -35.045 0.8 81.86 ? O1P ATR 606 A 1 HETATM 19 O O2P ATR . . . I 5 -42.779 -42.052 -37.133 0.8 85.68 ? O2P ATR 606 A 1 HETATM 20 O O3P ATR . . . I 5 -43.107 -40.221 -35.406 0.8 80.39 ? O3P ATR 606 A 1 HETATM 21 C C1' ATR . . . I 5 -45.6 -42.327 -33.474 0.8 90.8 ? C1' ATR 606 A 1 HETATM 22 N N9 ATR . . . I 5 -46.314 -41.061 -33.806 0.8 88.06 ? N9 ATR 606 A 1 HETATM 23 C C8 ATR . . . I 5 -46.088 -39.823 -33.289 0.8 77.44 ? C8 ATR 606 A 1 HETATM 24 N N7 ATR . . . I 5 -46.983 -38.929 -33.785 0.8 76.75 ? N7 ATR 606 A 1 HETATM 25 C C5 ATR . . . I 5 -47.806 -39.601 -34.63 0.8 82.53 ? C5 ATR 606 A 1 HETATM 26 C C6 ATR . . . I 5 -48.975 -39.282 -35.499 0.8 83.58 ? C6 ATR 606 A 1 HETATM 27 N N6 ATR . . . I 5 -49.468 -38.013 -35.578 0.8 82.65 ? N6 ATR 606 A 1 HETATM 28 N N1 ATR . . . I 5 -49.54 -40.302 -36.2 0.8 82.53 ? N1 ATR 606 A 1 HETATM 29 C C2 ATR . . . I 5 -49.087 -41.57 -36.148 0.8 86.12 ? C2 ATR 606 A 1 HETATM 30 N N3 ATR . . . I 5 -48.022 -41.923 -35.397 0.8 90.95 ? N3 ATR 606 A 1 HETATM 31 C C4 ATR . . . I 5 -47.361 -41.008 -34.634 0.8 86.81 ? C4 ATR 606 A 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 248 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #