data_1AN0 # _model_server_result.job_id 3EgRG-UdvTjH43WWpDQW-Q _model_server_result.datetime_utc '2024-11-13 20:59:38' _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 1an0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":200}' # _entry.id 1AN0 # _exptl.entry_id 1AN0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 443.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-DIPHOSPHATE" _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 1AN0 _cell.length_a 99.44 _cell.length_b 99.44 _cell.length_c 102.67 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1AN0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # 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 F 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 105 A CYS 105 1_555 A SG CYS 188 A CYS 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 B SG CYS 105 B CYS 105 1_555 B SG CYS 188 B CYS 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A C MSE 1 A MSE 1 1_555 A N GLN 2 A GLN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale2 A C VAL 44 A VAL 44 1_555 A N MSE 45 A MSE 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.344 ? covale ? covale3 A C MSE 45 A MSE 45 1_555 A N ILE 46 A ILE 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale4 B C MSE 1 B MSE 1 1_555 B N GLN 2 B GLN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale5 B C VAL 44 B VAL 44 1_555 B N MSE 45 B MSE 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.345 ? covale ? covale6 B C MSE 45 B MSE 45 1_555 B N ILE 46 B ILE 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? metalc ? metalc1 A OG1 THR 17 A THR 17 1_555 C MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc2 D O2B GDP . A GDP 200 1_555 C MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc3 B OG1 THR 17 B THR 17 1_555 E MG MG . B MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.707 ? metalc ? metalc4 F O2B GDP . B GDP 700 1_555 E MG MG . B MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc5 F O3B GDP . B GDP 700 1_555 E MG MG . B MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.02 ? # _chem_comp.formula 'C10 H15 N5 O11 P2' _chem_comp.formula_weight 443.201 _chem_comp.id GDP _chem_comp.mon_nstd_flag n _chem_comp.name "GUANOSINE-5'-DIPHOSPHATE" _chem_comp.type 'rna linking' _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 GDP doub 83 n n PB O2B GDP sing 84 n n PB O3B GDP sing 85 n n PB O3A GDP sing 86 n n O2B HOB2 GDP sing 87 n n O3B HOB3 GDP sing 88 n n O3A PA GDP sing 89 n n PA O1A GDP doub 90 n n PA O2A GDP sing 91 n n PA O5' GDP sing 92 n n O2A HOA2 GDP sing 93 n n O5' C5' GDP sing 94 n n C5' C4' GDP sing 95 n n C5' H5' GDP sing 96 n n C5' "H5''" GDP sing 97 n n C4' O4' GDP sing 98 n n C4' C3' GDP sing 99 n n C4' H4' GDP sing 100 n n O4' C1' GDP sing 101 n n C3' O3' GDP sing 102 n n C3' C2' GDP sing 103 n n C3' H3' GDP sing 104 n n O3' HO3' GDP sing 105 n n C2' O2' GDP sing 106 n n C2' C1' GDP sing 107 n n C2' H2' GDP sing 108 n n O2' HO2' GDP sing 109 n n C1' N9 GDP sing 110 n n C1' H1' GDP sing 111 n n N9 C8 GDP sing 112 n y N9 C4 GDP sing 113 n y C8 N7 GDP doub 114 n y C8 H8 GDP sing 115 n n N7 C5 GDP sing 116 n y C5 C6 GDP sing 117 n n C5 C4 GDP doub 118 n y C6 O6 GDP doub 119 n n C6 N1 GDP sing 120 n n N1 C2 GDP sing 121 n n N1 HN1 GDP sing 122 n n C2 N2 GDP sing 123 n n C2 N3 GDP doub 124 n n N2 HN21 GDP sing 125 n n N2 HN22 GDP sing 126 n n N3 C4 GDP sing 127 n n # _atom_sites.entry_id 1AN0 _atom_sites.fract_transf_matrix[1][1] 0.010056 _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] 0.010056 _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] 0.00974 _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 1 201 201 MG MG . D 3 GDP A 1 200 200 GDP GDP . E 2 MG B 1 701 701 MG MG . F 3 GDP B 1 700 700 GDP GDP . G 4 HOH A 1 801 801 HOH HOH . G 4 HOH A 2 802 802 HOH HOH . G 4 HOH A 3 803 803 HOH HOH . G 4 HOH A 4 804 804 HOH HOH . G 4 HOH A 5 805 805 HOH HOH . G 4 HOH A 6 806 806 HOH HOH . G 4 HOH A 7 807 807 HOH HOH . G 4 HOH A 8 808 808 HOH HOH . G 4 HOH A 9 809 809 HOH HOH . G 4 HOH A 10 810 810 HOH HOH . G 4 HOH A 11 811 811 HOH HOH . G 4 HOH A 12 812 812 HOH HOH . G 4 HOH A 13 813 813 HOH HOH . G 4 HOH A 14 814 814 HOH HOH . G 4 HOH A 15 815 815 HOH HOH . G 4 HOH A 16 816 816 HOH HOH . G 4 HOH A 17 817 817 HOH HOH . G 4 HOH A 18 824 824 HOH HOH . G 4 HOH A 19 825 825 HOH HOH . G 4 HOH A 20 826 826 HOH HOH . G 4 HOH A 21 827 827 HOH HOH . G 4 HOH A 22 829 829 HOH HOH . G 4 HOH A 23 830 830 HOH HOH . G 4 HOH A 24 831 831 HOH HOH . G 4 HOH A 25 832 832 HOH HOH . G 4 HOH A 26 833 833 HOH HOH . G 4 HOH A 27 834 834 HOH HOH . G 4 HOH A 28 835 835 HOH HOH . G 4 HOH A 29 836 836 HOH HOH . G 4 HOH A 30 837 837 HOH HOH . G 4 HOH A 31 838 838 HOH HOH . G 4 HOH A 32 840 840 HOH HOH . G 4 HOH A 33 841 841 HOH HOH . G 4 HOH A 34 842 842 HOH HOH . G 4 HOH A 35 843 843 HOH HOH . G 4 HOH A 36 844 844 HOH HOH . G 4 HOH A 37 845 845 HOH HOH . G 4 HOH A 38 846 846 HOH HOH . G 4 HOH A 39 847 847 HOH HOH . G 4 HOH A 40 848 848 HOH HOH . G 4 HOH A 41 849 849 HOH HOH . H 4 HOH B 1 818 818 HOH HOH . H 4 HOH B 2 819 819 HOH HOH . H 4 HOH B 3 820 820 HOH HOH . H 4 HOH B 4 821 821 HOH HOH . H 4 HOH B 5 822 822 HOH HOH . H 4 HOH B 6 823 823 HOH HOH . H 4 HOH B 7 828 828 HOH HOH . H 4 HOH B 8 839 839 HOH HOH . H 4 HOH B 9 850 850 HOH HOH . H 4 HOH B 10 851 851 HOH HOH . H 4 HOH B 11 852 852 HOH HOH . H 4 HOH B 12 853 853 HOH HOH . H 4 HOH B 13 854 854 HOH HOH . H 4 HOH B 14 855 855 HOH HOH . H 4 HOH B 15 856 856 HOH HOH . H 4 HOH B 16 857 857 HOH HOH . H 4 HOH B 17 858 858 HOH HOH . H 4 HOH B 18 859 859 HOH HOH . H 4 HOH B 19 860 860 HOH HOH . H 4 HOH B 20 861 861 HOH HOH . H 4 HOH B 21 862 862 HOH HOH . H 4 HOH B 22 863 863 HOH HOH . H 4 HOH B 23 864 864 HOH HOH . H 4 HOH B 24 865 865 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 GDP . . . D 3 64.834 18.021 26.929 1 16.62 ? PB GDP 200 A 1 HETATM 2 O O1B GDP . . . D 3 66.11 18.446 27.604 1 16.62 ? O1B GDP 200 A 1 HETATM 3 O O2B GDP . . . D 3 64.473 18.775 25.681 1 16.62 ? O2B GDP 200 A 1 HETATM 4 O O3B GDP . . . D 3 63.716 17.922 27.941 1 16.62 ? O3B GDP 200 A 1 HETATM 5 O O3A GDP . . . D 3 64.966 16.388 26.617 1 16.62 ? O3A GDP 200 A 1 HETATM 6 P PA GDP . . . D 3 65.017 15.787 25.127 1 16.62 ? PA GDP 200 A 1 HETATM 7 O O1A GDP . . . D 3 66.291 15.825 24.35 1 16.62 ? O1A GDP 200 A 1 HETATM 8 O O2A GDP . . . D 3 63.685 15.567 24.454 1 16.62 ? O2A GDP 200 A 1 HETATM 9 O O5' GDP . . . D 3 65.171 14.348 25.751 1 16.62 ? O5' GDP 200 A 1 HETATM 10 C C5' GDP . . . D 3 66.439 14.036 26.248 1 16.62 ? C5' GDP 200 A 1 HETATM 11 C C4' GDP . . . D 3 66.651 12.593 26.319 1 16.62 ? C4' GDP 200 A 1 HETATM 12 O O4' GDP . . . D 3 65.39 12.039 26.626 1 16.62 ? O4' GDP 200 A 1 HETATM 13 C C3' GDP . . . D 3 67.064 11.835 25.068 1 16.62 ? C3' GDP 200 A 1 HETATM 14 O O3' GDP . . . D 3 67.737 10.583 25.388 1 16.62 ? O3' GDP 200 A 1 HETATM 15 C C2' GDP . . . D 3 65.778 11.425 24.418 1 16.62 ? C2' GDP 200 A 1 HETATM 16 O O2' GDP . . . D 3 66.248 10.362 23.526 1 16.62 ? O2' GDP 200 A 1 HETATM 17 C C1' GDP . . . D 3 65.04 11.002 25.714 1 16.62 ? C1' GDP 200 A 1 HETATM 18 N N9 GDP . . . D 3 63.586 10.787 25.747 1 16.62 ? N9 GDP 200 A 1 HETATM 19 C C8 GDP . . . D 3 62.576 11.674 25.858 1 16.62 ? C8 GDP 200 A 1 HETATM 20 N N7 GDP . . . D 3 61.355 11.177 25.955 1 16.62 ? N7 GDP 200 A 1 HETATM 21 C C5 GDP . . . D 3 61.6 9.819 25.994 1 16.62 ? C5 GDP 200 A 1 HETATM 22 C C6 GDP . . . D 3 60.726 8.742 26.174 1 16.62 ? C6 GDP 200 A 1 HETATM 23 O O6 GDP . . . D 3 59.516 8.751 26.396 1 16.62 ? O6 GDP 200 A 1 HETATM 24 N N1 GDP . . . D 3 61.382 7.531 26.099 1 16.62 ? N1 GDP 200 A 1 HETATM 25 C C2 GDP . . . D 3 62.754 7.358 26.089 1 16.62 ? C2 GDP 200 A 1 HETATM 26 N N2 GDP . . . D 3 63.282 6.112 26.026 1 16.62 ? N2 GDP 200 A 1 HETATM 27 N N3 GDP . . . D 3 63.577 8.397 25.988 1 16.62 ? N3 GDP 200 A 1 HETATM 28 C C4 GDP . . . D 3 62.949 9.587 25.936 1 16.62 ? C4 GDP 200 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 28 #