data_6BRH # _model_server_result.job_id oKXDHR2kx1_Vc8Hdaaqpcw _model_server_result.datetime_utc '2024-11-21 13:47:10' _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 6brh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":701}' # _entry.id 6BRH # _exptl.entry_id 6BRH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 2 _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 6BRH _cell.length_a 112.031 _cell.length_b 130.053 _cell.length_c 90.765 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6BRH _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 A,B,C,D,E,F,G,H 2 1 B,E,F,H 3 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 E 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 metalc ? metalc1 A OD2 ASP 253 A ASP 239 1_555 C MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? metalc ? metalc2 A OD1 ASP 357 A ASP 343 1_555 C MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.94 ? metalc ? metalc3 A OD2 ASP 357 A ASP 343 1_555 C MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.663 ? metalc ? metalc4 C MG MG . A MG 701 1_555 G O HOH . A HOH 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.647 ? metalc ? metalc5 B OD2 ASP 253 B ASP 239 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc6 B OD1 ASP 357 B ASP 343 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.903 ? metalc ? metalc7 B OD2 ASP 357 B ASP 343 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.746 ? metalc ? metalc8 F MG MG . B MG 702 1_555 H O HOH . B HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.908 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id DGT _chem_comp.mon_nstd_flag . _chem_comp.name "2'-DEOXYGUANOSINE-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 DGT sing 83 n n PG O2G DGT sing 84 n n O1G HO1G DGT sing 85 n n O2G HO2G DGT sing 86 n n O3G PG DGT doub 87 n n O3B PG DGT sing 88 n n PB O3B DGT sing 89 n n PB O1B DGT sing 90 n n PB O3A DGT sing 91 n n O1B HO1B DGT sing 92 n n O2B PB DGT doub 93 n n PA O3A DGT sing 94 n n PA O1A DGT sing 95 n n O1A HO1A DGT sing 96 n n O2A PA DGT doub 97 n n O5' PA DGT sing 98 n n O5' C5' DGT sing 99 n n C5' H5' DGT sing 100 n n C5' "H5'A" DGT sing 101 n n C4' C5' DGT sing 102 n n C4' H4' DGT sing 103 n n O4' C4' DGT sing 104 n n C3' C4' DGT sing 105 n n C3' O3' DGT sing 106 n n C3' H3' DGT sing 107 n n O3' HO3' DGT sing 108 n n C2' C3' DGT sing 109 n n C2' C1' DGT sing 110 n n C2' H2' DGT sing 111 n n C2' "H2'A" DGT sing 112 n n C1' O4' DGT sing 113 n n C1' H1' DGT sing 114 n n N9 C1' DGT sing 115 n n N9 C4 DGT sing 116 n y C8 N9 DGT sing 117 n y C8 H8 DGT sing 118 n n N7 C8 DGT doub 119 n y N7 C5 DGT sing 120 n y C5 C6 DGT sing 121 n n C5 C4 DGT doub 122 n y C6 N1 DGT sing 123 n n O6 C6 DGT doub 124 n n N1 C2 DGT sing 125 n n C2 N3 DGT doub 126 n n C2 N2 DGT sing 127 n n N2 HN2 DGT sing 128 n n N2 HN2A DGT sing 129 n n C4 N3 DGT sing 130 n n N1 H16 DGT sing 131 n n # _atom_sites.entry_id 6BRH _atom_sites.fract_transf_matrix[1][1] 0.008926 _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] 0.007689 _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] 0.011017 _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 C 2 MG A 1 701 750 MG MG . D 3 DGT A 1 702 900 DGT DGT . E 3 DGT B 1 701 900 DGT DGT . F 2 MG B 1 702 750 MG MG . G 4 HOH A 1 801 30 HOH HOH . G 4 HOH A 2 802 3 HOH HOH . G 4 HOH A 3 803 27 HOH HOH . G 4 HOH A 4 804 24 HOH HOH . G 4 HOH A 5 805 29 HOH HOH . G 4 HOH A 6 806 32 HOH HOH . G 4 HOH A 7 807 26 HOH HOH . G 4 HOH A 8 808 28 HOH HOH . G 4 HOH A 9 809 25 HOH HOH . H 4 HOH B 1 801 5 HOH HOH . H 4 HOH B 2 802 1 HOH HOH . H 4 HOH B 3 803 4 HOH HOH . H 4 HOH B 4 804 15 HOH HOH . H 4 HOH B 5 805 13 HOH HOH . H 4 HOH B 6 806 9 HOH HOH . H 4 HOH B 7 807 20 HOH HOH . H 4 HOH B 8 808 22 HOH HOH . H 4 HOH B 9 809 6 HOH HOH . H 4 HOH B 10 810 23 HOH HOH . H 4 HOH B 11 811 31 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 PG DGT . . . E 3 55.285 157.086 125.271 1 178.81 ? PG DGT 701 B 1 HETATM 2 O O1G DGT . . . E 3 54.573 158.157 124.494 1 183.58 ? O1G DGT 701 B 1 HETATM 3 O O2G DGT . . . E 3 56.179 157.691 126.363 1 189.5 ? O2G DGT 701 B 1 HETATM 4 O O3G DGT . . . E 3 56.139 156.183 124.375 1 177.18 ? O3G DGT 701 B 1 HETATM 5 O O3B DGT . . . E 3 54.139 156.27 126.053 1 141.01 ? O3B DGT 701 B 1 HETATM 6 P PB DGT . . . E 3 53.285 155.163 125.26 1 117.92 ? PB DGT 701 B 1 HETATM 7 O O1B DGT . . . E 3 52.973 154.062 126.229 1 121.89 ? O1B DGT 701 B 1 HETATM 8 O O2B DGT . . . E 3 54.044 154.599 124.088 1 117.15 ? O2B DGT 701 B 1 HETATM 9 O O3A DGT . . . E 3 51.929 155.869 124.841 1 97.19 ? O3A DGT 701 B 1 HETATM 10 P PA DGT . . . E 3 51.27 155.985 123.356 1 78.97 ? PA DGT 701 B 1 HETATM 11 O O1A DGT . . . E 3 49.778 156.126 123.546 1 69.59 ? O1A DGT 701 B 1 HETATM 12 O O2A DGT . . . E 3 51.761 157.202 122.628 1 80.27 ? O2A DGT 701 B 1 HETATM 13 O O5' DGT . . . E 3 51.607 154.697 122.497 1 76.13 ? O5' DGT 701 B 1 HETATM 14 C C5' DGT . . . E 3 51.429 153.378 123.094 1 76.53 ? C5' DGT 701 B 1 HETATM 15 C C4' DGT . . . E 3 51.446 152.298 121.944 1 72.57 ? C4' DGT 701 B 1 HETATM 16 O O4' DGT . . . E 3 50.354 152.444 121.27 1 67.8 ? O4' DGT 701 B 1 HETATM 17 C C3' DGT . . . E 3 52.588 152.506 120.956 1 72.56 ? C3' DGT 701 B 1 HETATM 18 O O3' DGT . . . E 3 53.468 151.507 121.111 1 92.16 ? O3' DGT 701 B 1 HETATM 19 C C2' DGT . . . E 3 51.978 152.421 119.558 1 67.64 ? C2' DGT 701 B 1 HETATM 20 C C1' DGT . . . E 3 50.721 151.999 119.775 1 64.86 ? C1' DGT 701 B 1 HETATM 21 N N9 DGT . . . E 3 49.766 152.583 118.883 1 64.74 ? N9 DGT 701 B 1 HETATM 22 C C8 DGT . . . E 3 48.861 151.916 118.188 1 65.93 ? C8 DGT 701 B 1 HETATM 23 N N7 DGT . . . E 3 48.092 152.761 117.472 1 67.2 ? N7 DGT 701 B 1 HETATM 24 C C5 DGT . . . E 3 48.52 154.027 117.732 1 63.16 ? C5 DGT 701 B 1 HETATM 25 C C6 DGT . . . E 3 48.153 155.346 117.314 1 60.17 ? C6 DGT 701 B 1 HETATM 26 O O6 DGT . . . E 3 47.116 155.53 116.418 1 60.59 ? O6 DGT 701 B 1 HETATM 27 N N1 DGT . . . E 3 48.833 156.407 117.794 1 58.63 ? N1 DGT 701 B 1 HETATM 28 C C2 DGT . . . E 3 49.831 156.277 118.647 1 61.77 ? C2 DGT 701 B 1 HETATM 29 N N2 DGT . . . E 3 50.503 157.426 119.113 1 63.52 ? N2 DGT 701 B 1 HETATM 30 N N3 DGT . . . E 3 50.201 155.066 119.059 1 66.58 ? N3 DGT 701 B 1 HETATM 31 C C4 DGT . . . E 3 49.588 153.926 118.639 1 64.71 ? C4 DGT 701 B 1 # _model_server_stats.io_time_ms 101 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 31 #