data_3X06 # _model_server_result.job_id JJQl6qFsJmh39X4cIB2G6w _model_server_result.datetime_utc '2024-11-13 11:37:05' _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 3x06 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":504}' # _entry.id 3X06 # _exptl.entry_id 3X06 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 363.221 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-MONOPHOSPHATE" _entity.pdbx_number_of_molecules 5 _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 3X06 _cell.length_a 108.825 _cell.length_b 182.878 _cell.length_c 106.657 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3X06 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _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 ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G N N # _chem_comp.formula 'C10 H14 N5 O8 P' _chem_comp.formula_weight 363.221 _chem_comp.id 5GP _chem_comp.mon_nstd_flag . _chem_comp.name "GUANOSINE-5'-MONOPHOSPHATE" _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 P O1P 5GP doub 1 n n P O2P 5GP sing 2 n n P O3P 5GP sing 3 n n P O5' 5GP sing 4 n n O2P HOP2 5GP sing 5 n n O3P HOP3 5GP sing 6 n n O5' C5' 5GP sing 7 n n C5' C4' 5GP sing 8 n n C5' "H5'1" 5GP sing 9 n n C5' "H5'2" 5GP sing 10 n n C4' O4' 5GP sing 11 n n C4' C3' 5GP sing 12 n n C4' H4' 5GP sing 13 n n O4' C1' 5GP sing 14 n n C3' O3' 5GP sing 15 n n C3' C2' 5GP sing 16 n n C3' H3' 5GP sing 17 n n O3' HO3' 5GP sing 18 n n C2' O2' 5GP sing 19 n n C2' C1' 5GP sing 20 n n C2' H2' 5GP sing 21 n n O2' HO2' 5GP sing 22 n n C1' N9 5GP sing 23 n n C1' H1' 5GP sing 24 n n N9 C8 5GP sing 25 n y N9 C4 5GP sing 26 n y C8 N7 5GP doub 27 n y C8 H8 5GP sing 28 n n N7 C5 5GP sing 29 n y C5 C6 5GP sing 30 n n C5 C4 5GP doub 31 n y C6 O6 5GP doub 32 n n C6 N1 5GP sing 33 n n N1 C2 5GP sing 34 n n N1 HN1 5GP sing 35 n n C2 N2 5GP sing 36 n n C2 N3 5GP doub 37 n n N2 HN21 5GP sing 38 n n N2 HN22 5GP sing 39 n n N3 C4 5GP sing 40 n n # _atom_sites.entry_id 3X06 _atom_sites.fract_transf_matrix[1][1] 0.009189 _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] 0.005468 _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] 0.009376 _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 5GP A 1 501 501 5GP 5GP . D 2 5GP A 1 502 502 5GP 5GP . E 2 5GP A 1 503 503 5GP 5GP . F 2 5GP A 1 504 504 5GP 5GP . G 2 5GP B 1 501 501 5GP 5GP . H 3 HOH A 1 601 601 HOH HOH . H 3 HOH A 2 602 602 HOH HOH . H 3 HOH A 3 603 603 HOH HOH . H 3 HOH A 4 604 604 HOH HOH . H 3 HOH A 5 605 605 HOH HOH . H 3 HOH A 6 606 606 HOH HOH . H 3 HOH A 7 607 607 HOH HOH . H 3 HOH A 8 608 608 HOH HOH . H 3 HOH A 9 609 609 HOH HOH . H 3 HOH A 10 610 610 HOH HOH . H 3 HOH A 11 611 611 HOH HOH . H 3 HOH A 12 612 612 HOH HOH . H 3 HOH A 13 613 613 HOH HOH . H 3 HOH A 14 614 614 HOH HOH . H 3 HOH A 15 615 615 HOH HOH . H 3 HOH A 16 616 616 HOH HOH . H 3 HOH A 17 617 617 HOH HOH . I 3 HOH B 1 601 601 HOH HOH . I 3 HOH B 2 602 602 HOH HOH . I 3 HOH B 3 603 603 HOH HOH . I 3 HOH B 4 604 604 HOH HOH . I 3 HOH B 5 605 605 HOH HOH . I 3 HOH B 6 606 606 HOH HOH . I 3 HOH B 7 607 607 HOH HOH . I 3 HOH B 8 608 608 HOH HOH . I 3 HOH B 9 609 609 HOH HOH . I 3 HOH B 10 610 610 HOH HOH . I 3 HOH B 11 611 611 HOH HOH . I 3 HOH B 12 612 612 HOH HOH . I 3 HOH B 13 613 613 HOH HOH . I 3 HOH B 14 614 614 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 P 5GP . . . F 2 47.856 47.698 -23.356 1 72.1 ? P 5GP 504 A 1 HETATM 2 O O1P 5GP . . . F 2 46.476 48.288 -23.263 1 54.91 ? O1P 5GP 504 A 1 HETATM 3 O O2P 5GP . . . F 2 48.278 47.055 -24.664 1 95.32 ? O2P 5GP 504 A 1 HETATM 4 O O3P 5GP . . . F 2 48.07 46.677 -22.271 1 73.7 ? O3P 5GP 504 A 1 HETATM 5 O O5' 5GP . . . F 2 48.92 48.794 -22.927 1 57.06 ? O5' 5GP 504 A 1 HETATM 6 C C5' 5GP . . . F 2 48.499 49.983 -22.257 1 73.78 ? C5' 5GP 504 A 1 HETATM 7 C C4' 5GP . . . F 2 49.627 50.966 -22.11 1 79.21 ? C4' 5GP 504 A 1 HETATM 8 O O4' 5GP . . . F 2 50.728 50.316 -21.414 1 85.88 ? O4' 5GP 504 A 1 HETATM 9 C C3' 5GP . . . F 2 50.207 51.467 -23.422 1 81.22 ? C3' 5GP 504 A 1 HETATM 10 O O3' 5GP . . . F 2 50.783 52.762 -23.235 1 84.26 ? O3' 5GP 504 A 1 HETATM 11 C C2' 5GP . . . F 2 51.299 50.446 -23.691 1 77.38 ? C2' 5GP 504 A 1 HETATM 12 O O2' 5GP . . . F 2 52.303 50.878 -24.575 1 77.76 ? O2' 5GP 504 A 1 HETATM 13 C C1' 5GP . . . F 2 51.843 50.203 -22.281 1 80.06 ? C1' 5GP 504 A 1 HETATM 14 N N9 5GP . . . F 2 52.432 48.874 -22.093 1 69.61 ? N9 5GP 504 A 1 HETATM 15 C C8 5GP . . . F 2 51.773 47.706 -22.176 1 64.77 ? C8 5GP 504 A 1 HETATM 16 N N7 5GP . . . F 2 52.655 46.705 -21.958 1 66.25 ? N7 5GP 504 A 1 HETATM 17 C C5 5GP . . . F 2 53.87 47.256 -21.738 1 61.42 ? C5 5GP 504 A 1 HETATM 18 C C6 5GP . . . F 2 55.127 46.731 -21.463 1 61.93 ? C6 5GP 504 A 1 HETATM 19 O O6 5GP . . . F 2 55.288 45.494 -21.378 1 55.38 ? O6 5GP 504 A 1 HETATM 20 N N1 5GP . . . F 2 56.171 47.549 -21.293 1 68 ? N1 5GP 504 A 1 HETATM 21 C C2 5GP . . . F 2 56.007 48.879 -21.372 1 72.4 ? C2 5GP 504 A 1 HETATM 22 N N2 5GP . . . F 2 57.067 49.716 -21.194 1 69.01 ? N2 5GP 504 A 1 HETATM 23 N N3 5GP . . . F 2 54.785 49.408 -21.636 1 69.06 ? N3 5GP 504 A 1 HETATM 24 C C4 5GP . . . F 2 53.712 48.618 -21.819 1 61.71 ? C4 5GP 504 A 1 HETATM 25 H "H5'1" 5GP . . . F 2 47.687 50.447 -22.819 1 88.35 ? "H5'1" 5GP 504 A 1 HETATM 26 H "H5'2" 5GP . . . F 2 48.115 49.724 -21.268 1 88.35 ? "H5'2" 5GP 504 A 1 HETATM 27 H H4' 5GP . . . F 2 49.273 51.827 -21.527 1 94.87 ? H4' 5GP 504 A 1 HETATM 28 H H3' 5GP . . . F 2 49.45 51.455 -24.218 1 97.28 ? H3' 5GP 504 A 1 HETATM 29 H HO3' 5GP . . . F 2 51.219 53.041 -24.051 1 100.93 ? HO3' 5GP 504 A 1 HETATM 30 H H2' 5GP . . . F 2 50.839 49.519 -24.061 1 92.67 ? H2' 5GP 504 A 1 HETATM 31 H HO2' 5GP . . . F 2 52.995 50.204 -24.631 1 93.13 ? HO2' 5GP 504 A 1 HETATM 32 H H1' 5GP . . . F 2 52.583 50.98 -22.045 1 95.89 ? H1' 5GP 504 A 1 HETATM 33 H H8 5GP . . . F 2 50.718 47.587 -22.387 1 77.54 ? H8 5GP 504 A 1 HETATM 34 H HN1 5GP . . . F 2 57.109 47.154 -21.079 1 81.41 ? HN1 5GP 504 A 1 HETATM 35 H HN21 5GP . . . F 2 56.939 50.716 -21.262 1 82.62 ? HN21 5GP 504 A 1 HETATM 36 H HN22 5GP . . . F 2 57.982 49.337 -20.994 1 82.62 ? HN22 5GP 504 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 36 #