data_3G6W # _model_server_result.job_id 9LfACwDAz1g-Qqa6aoLWdg _model_server_result.datetime_utc '2024-10-14 05:23:39' _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 3g6w # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 3G6W # _exptl.entry_id 3G6W _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 92.8 _cell.angle_gamma 90 _cell.entry_id 3G6W _cell.length_a 60.038 _cell.length_b 98.758 _cell.length_c 73.528 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3G6W _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,J,K,L,M,N,O,P,Q,R,S,T,U,V,W _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 E N N ? 2 I N N ? 2 O N N ? 2 P 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 T O HOH . A HOH 217 1_555 H MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? metalc ? metalc2 T O HOH . A HOH 218 1_555 H MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.208 ? metalc ? metalc3 T O HOH . A HOH 229 1_555 F MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc4 E O1B GTP . A GTP 301 1_555 F MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.95 ? metalc ? metalc5 E O1A GTP . A GTP 301 1_555 F MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? metalc ? metalc6 F MG MG . A MG 302 1_555 P O1B GTP . D GTP 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc7 F MG MG . A MG 302 1_555 P O1A GTP . D GTP 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.974 ? metalc ? metalc8 G O3A PRP . A PRP 303 1_555 H MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc9 G O1B PRP . A PRP 303 1_555 H MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc10 G O2B PRP . A PRP 303 1_555 H MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? metalc ? metalc11 U O HOH . B HOH 218 1_555 J MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? metalc ? metalc12 I O1B GTP . B GTP 301 1_555 J MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc13 I O1A GTP . B GTP 301 1_555 J MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? metalc ? metalc14 J MG MG . B MG 302 1_555 W O HOH . D HOH 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.928 ? metalc ? metalc15 J MG MG . B MG 302 1_555 O O1A GTP . D GTP 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc16 J MG MG . B MG 302 1_555 O O1B GTP . D GTP 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? metalc ? metalc17 W O HOH . D HOH 219 1_555 S MG MG . D MG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc18 W O HOH . D HOH 220 1_555 S MG MG . D MG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? metalc ? metalc19 Q O1B PRP . D PRP 303 1_555 S MG MG . D MG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.875 ? metalc ? metalc20 Q O3B PRP . D PRP 303 1_555 S MG MG . D MG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? # _chem_comp.formula 'C10 H16 N5 O14 P3' _chem_comp.formula_weight 523.18 _chem_comp.id GTP _chem_comp.mon_nstd_flag n _chem_comp.name "GUANOSINE-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 GTP doub 116 n n PG O2G GTP sing 117 n n PG O3G GTP sing 118 n n PG O3B GTP sing 119 n n O2G HOG2 GTP sing 120 n n O3G HOG3 GTP sing 121 n n O3B PB GTP sing 122 n n PB O1B GTP doub 123 n n PB O2B GTP sing 124 n n PB O3A GTP sing 125 n n O2B HOB2 GTP sing 126 n n O3A PA GTP sing 127 n n PA O1A GTP doub 128 n n PA O2A GTP sing 129 n n PA O5' GTP sing 130 n n O2A HOA2 GTP sing 131 n n O5' C5' GTP sing 132 n n C5' C4' GTP sing 133 n n C5' H5' GTP sing 134 n n C5' "H5''" GTP sing 135 n n C4' O4' GTP sing 136 n n C4' C3' GTP sing 137 n n C4' H4' GTP sing 138 n n O4' C1' GTP sing 139 n n C3' O3' GTP sing 140 n n C3' C2' GTP sing 141 n n C3' H3' GTP sing 142 n n O3' HO3' GTP sing 143 n n C2' O2' GTP sing 144 n n C2' C1' GTP sing 145 n n C2' H2' GTP sing 146 n n O2' HO2' GTP sing 147 n n C1' N9 GTP sing 148 n n C1' H1' GTP sing 149 n n N9 C8 GTP sing 150 n y N9 C4 GTP sing 151 n y C8 N7 GTP doub 152 n y C8 H8 GTP sing 153 n n N7 C5 GTP sing 154 n y C5 C6 GTP sing 155 n n C5 C4 GTP doub 156 n y C6 O6 GTP doub 157 n n C6 N1 GTP sing 158 n n N1 C2 GTP sing 159 n n N1 HN1 GTP sing 160 n n C2 N2 GTP sing 161 n n C2 N3 GTP doub 162 n n N2 HN21 GTP sing 163 n n N2 HN22 GTP sing 164 n n N3 C4 GTP sing 165 n n # _atom_sites.entry_id 3G6W _atom_sites.fract_transf_matrix[1][1] 0.016656 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000815 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010126 _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] 0.013617 _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 E 2 GTP A 1 301 301 GTP GTP . F 3 MG A 1 302 302 MG MG2 . G 4 PRP A 1 303 303 PRP PRP . H 3 MG A 1 305 305 MG MG2 . I 2 GTP B 1 301 301 GTP GTP . J 3 MG B 1 302 302 MG MG2 . K 5 HSX B 1 306 306 HSX R5P . L 6 POP B 1 307 307 POP POP . M 5 HSX C 1 306 306 HSX R5P . N 6 POP C 1 307 307 POP POP . O 2 GTP D 1 301 301 GTP GTP . P 2 GTP D 1 217 301 GTP GTP . Q 4 PRP D 1 303 303 PRP PRP . R 5 HSX D 1 306 306 HSX R5P . S 3 MG D 1 304 304 MG MG2 . T 7 HOH A 1 217 44 HOH HOH . T 7 HOH A 2 218 48 HOH HOH . T 7 HOH A 3 219 46 HOH HOH . T 7 HOH A 4 220 1 HOH HOH . T 7 HOH A 5 221 3 HOH HOH . T 7 HOH A 6 222 5 HOH HOH . T 7 HOH A 7 223 18 HOH HOH . T 7 HOH A 8 224 20 HOH HOH . T 7 HOH A 9 225 24 HOH HOH . T 7 HOH A 10 226 25 HOH HOH . T 7 HOH A 11 227 28 HOH HOH . T 7 HOH A 12 228 23 HOH HOH . T 7 HOH A 13 229 51 HOH HOH . U 7 HOH B 1 218 47 HOH HOH . U 7 HOH B 2 219 6 HOH HOH . U 7 HOH B 3 220 17 HOH HOH . U 7 HOH B 4 221 19 HOH HOH . U 7 HOH B 5 222 26 HOH HOH . V 7 HOH C 1 217 10 HOH HOH . V 7 HOH C 2 218 11 HOH HOH . V 7 HOH C 3 219 12 HOH HOH . V 7 HOH C 4 220 13 HOH HOH . V 7 HOH C 5 221 14 HOH HOH . V 7 HOH C 6 222 15 HOH HOH . V 7 HOH C 7 223 22 HOH HOH . V 7 HOH C 8 225 27 HOH HOH . W 7 HOH D 1 218 50 HOH HOH . W 7 HOH D 2 219 49 HOH HOH . W 7 HOH D 3 220 45 HOH HOH . W 7 HOH D 4 221 2 HOH HOH . W 7 HOH D 5 222 4 HOH HOH . W 7 HOH D 6 223 8 HOH HOH . W 7 HOH D 7 224 16 HOH HOH . W 7 HOH D 8 225 21 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 GTP . . . E 2 -2.915 16.755 7.545 1 36.11 ? PG GTP 301 A 1 HETATM 2 O O1G GTP . . . E 2 -1.522 17.246 7.264 1 34.15 ? O1G GTP 301 A 1 HETATM 3 O O2G GTP . . . E 2 -3.98 17.797 7.463 1 35.56 ? O2G GTP 301 A 1 HETATM 4 O O3G GTP . . . E 2 -2.938 16.117 8.878 1 35.55 ? O3G GTP 301 A 1 HETATM 5 O O3B GTP . . . E 2 -3.255 15.657 6.545 1 33.04 ? O3B GTP 301 A 1 HETATM 6 P PB GTP . . . E 2 -4.628 14.921 6.357 1 27.8 ? PB GTP 301 A 1 HETATM 7 O O1B GTP . . . E 2 -5.533 15.443 7.369 1 30.51 ? O1B GTP 301 A 1 HETATM 8 O O2B GTP . . . E 2 -4.417 13.457 6.464 1 31.35 ? O2B GTP 301 A 1 HETATM 9 O O3A GTP . . . E 2 -5.102 15.289 4.912 1 29.36 ? O3A GTP 301 A 1 HETATM 10 P PA GTP . . . E 2 -6.337 16.078 4.283 1 28.79 ? PA GTP 301 A 1 HETATM 11 O O1A GTP . . . E 2 -7.422 16.172 5.322 1 28.05 ? O1A GTP 301 A 1 HETATM 12 O O2A GTP . . . E 2 -6.714 15.371 3.018 1 30.14 ? O2A GTP 301 A 1 HETATM 13 O O5' GTP . . . E 2 -5.668 17.512 4.035 1 29.52 ? O5' GTP 301 A 1 HETATM 14 C C5' GTP . . . E 2 -4.406 17.723 3.416 1 29.65 ? C5' GTP 301 A 1 HETATM 15 C C4' GTP . . . E 2 -4.057 19.168 3.481 1 29.95 ? C4' GTP 301 A 1 HETATM 16 O O4' GTP . . . E 2 -5.154 19.992 2.996 1 30.08 ? O4' GTP 301 A 1 HETATM 17 C C3' GTP . . . E 2 -3.75 19.708 4.887 1 31.6 ? C3' GTP 301 A 1 HETATM 18 O O3' GTP . . . E 2 -2.39 19.51 5.278 1 29.44 ? O3' GTP 301 A 1 HETATM 19 C C2' GTP . . . E 2 -4.174 21.141 4.795 1 32.87 ? C2' GTP 301 A 1 HETATM 20 O O2' GTP . . . E 2 -3.035 21.956 4.426 1 37.11 ? O2' GTP 301 A 1 HETATM 21 C C1' GTP . . . E 2 -5.266 21.218 3.754 1 32.04 ? C1' GTP 301 A 1 HETATM 22 N N9 GTP . . . E 2 -6.68 21.26 4.295 1 31.66 ? N9 GTP 301 A 1 HETATM 23 C C8 GTP . . . E 2 -7.447 20.177 4.722 1 29.12 ? C8 GTP 301 A 1 HETATM 24 N N7 GTP . . . E 2 -8.61 20.485 5.2 1 28.32 ? N7 GTP 301 A 1 HETATM 25 C C5 GTP . . . E 2 -8.672 21.857 5.088 1 28.88 ? C5 GTP 301 A 1 HETATM 26 C C6 GTP . . . E 2 -9.721 22.786 5.486 1 27.69 ? C6 GTP 301 A 1 HETATM 27 O O6 GTP . . . E 2 -10.792 22.554 6.003 1 24.64 ? O6 GTP 301 A 1 HETATM 28 N N1 GTP . . . E 2 -9.392 24.148 5.227 1 29.27 ? N1 GTP 301 A 1 HETATM 29 C C2 GTP . . . E 2 -8.203 24.578 4.641 1 30.67 ? C2 GTP 301 A 1 HETATM 30 N N2 GTP . . . E 2 -8.082 25.915 4.492 1 29.9 ? N2 GTP 301 A 1 HETATM 31 N N3 GTP . . . E 2 -7.211 23.716 4.242 1 31.68 ? N3 GTP 301 A 1 HETATM 32 C C4 GTP . . . E 2 -7.499 22.366 4.507 1 30.89 ? C4 GTP 301 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 32 #