data_3ETD # _model_server_result.job_id IzJgNUeSCGl8BsWRBI10EQ _model_server_result.datetime_utc '2024-11-28 11:17:52' _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 3etd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":553}' # _entry.id 3ETD # _exptl.entry_id 3ETD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 102.46 _cell.angle_gamma 90 _cell.entry_id 3ETD _cell.length_a 122.38 _cell.length_b 101.3 _cell.length_c 166.59 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3ETD _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 hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA _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 ? 4 I N N ? 4 M N N ? 4 Q N N ? 4 U N N ? 4 Y N N ? 4 CA N N # _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 155 n n PG O2G GTP sing 156 n n PG O3G GTP sing 157 n n PG O3B GTP sing 158 n n O2G HOG2 GTP sing 159 n n O3G HOG3 GTP sing 160 n n O3B PB GTP sing 161 n n PB O1B GTP doub 162 n n PB O2B GTP sing 163 n n PB O3A GTP sing 164 n n O2B HOB2 GTP sing 165 n n O3A PA GTP sing 166 n n PA O1A GTP doub 167 n n PA O2A GTP sing 168 n n PA O5' GTP sing 169 n n O2A HOA2 GTP sing 170 n n O5' C5' GTP sing 171 n n C5' C4' GTP sing 172 n n C5' H5' GTP sing 173 n n C5' "H5''" GTP sing 174 n n C4' O4' GTP sing 175 n n C4' C3' GTP sing 176 n n C4' H4' GTP sing 177 n n O4' C1' GTP sing 178 n n C3' O3' GTP sing 179 n n C3' C2' GTP sing 180 n n C3' H3' GTP sing 181 n n O3' HO3' GTP sing 182 n n C2' O2' GTP sing 183 n n C2' C1' GTP sing 184 n n C2' H2' GTP sing 185 n n O2' HO2' GTP sing 186 n n C1' N9 GTP sing 187 n n C1' H1' GTP sing 188 n n N9 C8 GTP sing 189 n y N9 C4 GTP sing 190 n y C8 N7 GTP doub 191 n y C8 H8 GTP sing 192 n n N7 C5 GTP sing 193 n y C5 C6 GTP sing 194 n n C5 C4 GTP doub 195 n y C6 O6 GTP doub 196 n n C6 N1 GTP sing 197 n n N1 C2 GTP sing 198 n n N1 HN1 GTP sing 199 n n C2 N2 GTP sing 200 n n C2 N3 GTP doub 201 n n N2 HN21 GTP sing 202 n n N2 HN22 GTP sing 203 n n N3 C4 GTP sing 204 n n # _atom_sites.entry_id 3ETD _atom_sites.fract_transf_matrix[1][1] 0.008171 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001806 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009872 _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] 0.006148 _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 G 2 GLU A 1 550 550 GLU GLU . H 3 NDP A 1 551 551 NDP NDP . I 4 GTP A 1 553 553 GTP GTP . J 5 B1T A 1 552 1 B1T B1T . K 2 GLU B 1 550 550 GLU GLU . L 3 NDP B 1 551 551 NDP NDP . M 4 GTP B 1 553 553 GTP GTP . N 5 B1T B 1 552 1 B1T B1T . O 2 GLU C 1 550 550 GLU GLU . P 3 NDP C 1 551 551 NDP NDP . Q 4 GTP C 1 553 553 GTP GTP . R 5 B1T C 1 552 1 B1T B1T . S 2 GLU D 1 550 550 GLU GLU . T 3 NDP D 1 551 551 NDP NDP . U 4 GTP D 1 553 553 GTP GTP . V 5 B1T D 1 552 1 B1T B1T . W 2 GLU E 1 550 550 GLU GLU . X 3 NDP E 1 551 551 NDP NDP . Y 4 GTP E 1 553 553 GTP GTP . Z 5 B1T E 1 552 1 B1T B1T . AA 2 GLU F 1 550 550 GLU GLU . BA 3 NDP F 1 551 551 NDP NDP . CA 4 GTP F 1 553 553 GTP GTP . DA 5 B1T F 1 552 1 B1T B1T . EA 6 HOH A 1 554 9 HOH TIP . EA 6 HOH A 2 555 16 HOH TIP . EA 6 HOH A 3 556 23 HOH TIP . EA 6 HOH A 4 557 24 HOH TIP . EA 6 HOH A 5 558 31 HOH TIP . EA 6 HOH A 6 559 46 HOH TIP . EA 6 HOH A 7 560 56 HOH TIP . EA 6 HOH A 8 561 63 HOH TIP . EA 6 HOH A 9 562 66 HOH TIP . EA 6 HOH A 10 563 78 HOH TIP . EA 6 HOH A 11 564 82 HOH TIP . EA 6 HOH A 12 565 85 HOH TIP . EA 6 HOH A 13 566 86 HOH TIP . FA 6 HOH B 1 554 6 HOH TIP . FA 6 HOH B 2 555 7 HOH TIP . FA 6 HOH B 3 556 12 HOH TIP . FA 6 HOH B 4 557 15 HOH TIP . FA 6 HOH B 5 558 21 HOH TIP . FA 6 HOH B 6 559 30 HOH TIP . FA 6 HOH B 7 560 32 HOH TIP . FA 6 HOH B 8 561 37 HOH TIP . FA 6 HOH B 9 562 38 HOH TIP . FA 6 HOH B 10 563 43 HOH TIP . FA 6 HOH B 11 564 45 HOH TIP . FA 6 HOH B 12 565 49 HOH TIP . FA 6 HOH B 13 566 58 HOH TIP . FA 6 HOH B 14 567 68 HOH TIP . FA 6 HOH B 15 568 70 HOH TIP . FA 6 HOH B 16 569 72 HOH TIP . FA 6 HOH B 17 570 74 HOH TIP . GA 6 HOH C 1 554 5 HOH TIP . GA 6 HOH C 2 555 10 HOH TIP . GA 6 HOH C 3 556 11 HOH TIP . GA 6 HOH C 4 557 25 HOH TIP . GA 6 HOH C 5 558 27 HOH TIP . GA 6 HOH C 6 559 28 HOH TIP . GA 6 HOH C 7 560 33 HOH TIP . GA 6 HOH C 8 561 34 HOH TIP . GA 6 HOH C 9 562 36 HOH TIP . GA 6 HOH C 10 563 41 HOH TIP . GA 6 HOH C 11 564 48 HOH TIP . GA 6 HOH C 12 565 52 HOH TIP . GA 6 HOH C 13 566 54 HOH TIP . GA 6 HOH C 14 567 55 HOH TIP . GA 6 HOH C 15 568 57 HOH TIP . GA 6 HOH C 16 569 65 HOH TIP . GA 6 HOH C 17 570 69 HOH TIP . GA 6 HOH C 18 571 73 HOH TIP . GA 6 HOH C 19 572 88 HOH TIP . HA 6 HOH D 1 554 1 HOH TIP . HA 6 HOH D 2 555 8 HOH TIP . HA 6 HOH D 3 556 14 HOH TIP . HA 6 HOH D 4 557 17 HOH TIP . HA 6 HOH D 5 558 18 HOH TIP . HA 6 HOH D 6 559 19 HOH TIP . HA 6 HOH D 7 560 20 HOH TIP . HA 6 HOH D 8 561 26 HOH TIP . HA 6 HOH D 9 562 29 HOH TIP . HA 6 HOH D 10 563 35 HOH TIP . HA 6 HOH D 11 564 47 HOH TIP . HA 6 HOH D 12 565 50 HOH TIP . HA 6 HOH D 13 566 53 HOH TIP . HA 6 HOH D 14 567 61 HOH TIP . HA 6 HOH D 15 568 62 HOH TIP . HA 6 HOH D 16 569 64 HOH TIP . HA 6 HOH D 17 570 67 HOH TIP . HA 6 HOH D 18 571 77 HOH TIP . HA 6 HOH D 19 572 80 HOH TIP . HA 6 HOH D 20 573 83 HOH TIP . IA 6 HOH E 1 554 2 HOH TIP . IA 6 HOH E 2 555 3 HOH TIP . IA 6 HOH E 3 556 13 HOH TIP . IA 6 HOH E 4 557 22 HOH TIP . IA 6 HOH E 5 558 40 HOH TIP . IA 6 HOH E 6 559 42 HOH TIP . IA 6 HOH E 7 560 44 HOH TIP . IA 6 HOH E 8 561 51 HOH TIP . IA 6 HOH E 9 562 71 HOH TIP . IA 6 HOH E 10 563 75 HOH TIP . IA 6 HOH E 11 564 76 HOH TIP . IA 6 HOH E 12 565 79 HOH TIP . IA 6 HOH E 13 566 84 HOH TIP . JA 6 HOH F 1 554 4 HOH TIP . JA 6 HOH F 2 555 39 HOH TIP . JA 6 HOH F 3 556 59 HOH TIP . JA 6 HOH F 4 557 60 HOH TIP . JA 6 HOH F 5 558 81 HOH TIP . JA 6 HOH F 6 559 87 HOH TIP . # 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 . . . M 4 13.158 48.555 91.997 1 115.56 ? PG GTP 553 B 1 HETATM 2 O O1G GTP . . . M 4 12.359 49.424 92.899 1 114.03 ? O1G GTP 553 B 1 HETATM 3 O O2G GTP . . . M 4 14.555 49.296 91.659 1 113.77 ? O2G GTP 553 B 1 HETATM 4 O O3G GTP . . . M 4 12.38 48.264 90.617 1 115.9 ? O3G GTP 553 B 1 HETATM 5 O O3B GTP . . . M 4 13.55 47.174 92.742 1 117.59 ? O3B GTP 553 B 1 HETATM 6 P PB GTP . . . M 4 12.336 46.164 93.232 1 119.45 ? PB GTP 553 B 1 HETATM 7 O O1B GTP . . . M 4 12.029 44.82 92.686 1 119.09 ? O1B GTP 553 B 1 HETATM 8 O O2B GTP . . . M 4 11.883 46.358 94.785 1 117.2 ? O2B GTP 553 B 1 HETATM 9 O O3A GTP . . . M 4 13.774 45.569 93.674 1 119.04 ? O3A GTP 553 B 1 HETATM 10 P PA GTP . . . M 4 14.151 44.254 94.571 1 119.86 ? PA GTP 553 B 1 HETATM 11 O O1A GTP . . . M 4 13.642 44.252 95.963 1 119.66 ? O1A GTP 553 B 1 HETATM 12 O O2A GTP . . . M 4 13.747 42.874 93.807 1 118.93 ? O2A GTP 553 B 1 HETATM 13 O O5' GTP . . . M 4 15.695 44.632 94.418 1 118.15 ? O5' GTP 553 B 1 HETATM 14 C C5' GTP . . . M 4 16.795 44.096 95.115 1 115.32 ? C5' GTP 553 B 1 HETATM 15 C C4' GTP . . . M 4 17.784 44.905 94.249 1 113.59 ? C4' GTP 553 B 1 HETATM 16 O O4' GTP . . . M 4 17.462 46.161 93.654 1 112.42 ? O4' GTP 553 B 1 HETATM 17 C C3' GTP . . . M 4 19.319 45.06 94.529 1 112.92 ? C3' GTP 553 B 1 HETATM 18 O O3' GTP . . . M 4 19.992 43.838 94.846 1 112.01 ? O3' GTP 553 B 1 HETATM 19 C C2' GTP . . . M 4 19.678 45.767 93.129 1 112.15 ? C2' GTP 553 B 1 HETATM 20 O O2' GTP . . . M 4 20.668 45.032 92.399 1 111.98 ? O2' GTP 553 B 1 HETATM 21 C C1' GTP . . . M 4 18.239 45.723 92.53 1 111.34 ? C1' GTP 553 B 1 HETATM 22 N N9 GTP . . . M 4 17.908 46.126 91.123 1 109.6 ? N9 GTP 553 B 1 HETATM 23 C C8 GTP . . . M 4 16.61 46.142 90.694 1 108.09 ? C8 GTP 553 B 1 HETATM 24 N N7 GTP . . . M 4 16.526 46.482 89.445 1 106.99 ? N7 GTP 553 B 1 HETATM 25 C C5 GTP . . . M 4 17.763 46.712 88.956 1 106.69 ? C5 GTP 553 B 1 HETATM 26 C C6 GTP . . . M 4 18.246 47.091 87.677 1 105.61 ? C6 GTP 553 B 1 HETATM 27 O O6 GTP . . . M 4 17.478 47.273 86.759 1 105.11 ? O6 GTP 553 B 1 HETATM 28 N N1 GTP . . . M 4 19.596 47.249 87.486 1 105.47 ? N1 GTP 553 B 1 HETATM 29 C C2 GTP . . . M 4 20.47 47.04 88.53 1 106.14 ? C2 GTP 553 B 1 HETATM 30 N N2 GTP . . . M 4 21.814 47.213 88.306 1 105.72 ? N2 GTP 553 B 1 HETATM 31 N N3 GTP . . . M 4 20.038 46.675 89.755 1 107.44 ? N3 GTP 553 B 1 HETATM 32 C C4 GTP . . . M 4 18.701 46.501 90.011 1 107.89 ? C4 GTP 553 B 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 43 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #