data_6RZA # _model_server_result.job_id qWy0cJuDy69p-XtX_Kq5pQ _model_server_result.datetime_utc '2024-11-08 09:56:29' _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 6rza # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":501}' # _entry.id 6RZA # _exptl.entry_id 6RZA _exptl.method 'ELECTRON MICROSCOPY' # _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 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 6RZA _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RZA _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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 _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 ? _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 F N N ? 4 J 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 B OE1 GLU 71 A GLU 71 1_555 G MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc2 F O2G GTP . A GTP 501 1_555 G MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.499 ? metalc ? metalc3 F O3G GTP . A GTP 501 1_555 G MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc4 F O1B GTP . A GTP 501 1_555 G MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc5 D OE1 GLU 71 C GLU 71 1_555 K MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? metalc ? metalc6 J O2G GTP . C GTP 501 1_555 K MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.489 ? metalc ? metalc7 J O3G GTP . C GTP 501 1_555 K MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? metalc ? metalc8 J O1B GTP . C GTP 501 1_555 K MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? # _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 174 n n PG O2G GTP sing 175 n n PG O3G GTP sing 176 n n PG O3B GTP sing 177 n n O2G HOG2 GTP sing 178 n n O3G HOG3 GTP sing 179 n n O3B PB GTP sing 180 n n PB O1B GTP doub 181 n n PB O2B GTP sing 182 n n PB O3A GTP sing 183 n n O2B HOB2 GTP sing 184 n n O3A PA GTP sing 185 n n PA O1A GTP doub 186 n n PA O2A GTP sing 187 n n PA O5' GTP sing 188 n n O2A HOA2 GTP sing 189 n n O5' C5' GTP sing 190 n n C5' C4' GTP sing 191 n n C5' H5' GTP sing 192 n n C5' "H5''" GTP sing 193 n n C4' O4' GTP sing 194 n n C4' C3' GTP sing 195 n n C4' H4' GTP sing 196 n n O4' C1' GTP sing 197 n n C3' O3' GTP sing 198 n n C3' C2' GTP sing 199 n n C3' H3' GTP sing 200 n n O3' HO3' GTP sing 201 n n C2' O2' GTP sing 202 n n C2' C1' GTP sing 203 n n C2' H2' GTP sing 204 n n O2' HO2' GTP sing 205 n n C1' N9 GTP sing 206 n n C1' H1' GTP sing 207 n n N9 C8 GTP sing 208 n y N9 C4 GTP sing 209 n y C8 N7 GTP doub 210 n y C8 H8 GTP sing 211 n n N7 C5 GTP sing 212 n y C5 C6 GTP sing 213 n n C5 C4 GTP doub 214 n y C6 O6 GTP doub 215 n n C6 N1 GTP sing 216 n n N1 C2 GTP sing 217 n n N1 HN1 GTP sing 218 n n C2 N2 GTP sing 219 n n C2 N3 GTP doub 220 n n N2 HN21 GTP sing 221 n n N2 HN22 GTP sing 222 n n N3 C4 GTP sing 223 n n # _atom_sites.entry_id 6RZA _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 F 4 GTP A 1 501 501 GTP GTP . G 5 MG A 1 502 502 MG MG . H 6 GDP B 1 501 491 GDP GDP . I 7 TA1 B 1 502 492 TA1 TA1 . J 4 GTP C 1 501 501 GTP GTP . K 5 MG C 1 502 502 MG MG . L 6 GDP D 1 501 491 GDP GDP . M 7 TA1 D 1 502 492 TA1 TA1 . # 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 . . . F 4 246.834 170.563 278.337 1 85.92 ? PG GTP 501 A 1 HETATM 2 O O1G GTP . . . F 4 246.297 169.414 279.116 1 73.45 ? O1G GTP 501 A 1 HETATM 3 O O2G GTP . . . F 4 245.79 171.605 278.124 1 102 ? O2G GTP 501 A 1 HETATM 4 O O3G GTP . . . F 4 248.106 171.168 278.915 1 91.49 ? O3G GTP 501 A 1 HETATM 5 O O3B GTP . . . F 4 247.18 170.052 276.873 1 88.85 ? O3B GTP 501 A 1 HETATM 6 P PB GTP . . . F 4 248.086 170.761 275.771 1 96.65 ? PB GTP 501 A 1 HETATM 7 O O1B GTP . . . F 4 248.06 172.227 276.022 1 94.99 ? O1B GTP 501 A 1 HETATM 8 O O2B GTP . . . F 4 247.838 170.191 274.429 1 86.48 ? O2B GTP 501 A 1 HETATM 9 O O3A GTP . . . F 4 249.5 170.219 276.235 1 137.79 ? O3A GTP 501 A 1 HETATM 10 P PA GTP . . . F 4 250.946 170.518 275.624 1 173.69 ? PA GTP 501 A 1 HETATM 11 O O1A GTP . . . F 4 251.512 171.714 276.332 1 206.07 ? O1A GTP 501 A 1 HETATM 12 O O2A GTP . . . F 4 250.898 170.559 274.148 1 130.75 ? O2A GTP 501 A 1 HETATM 13 O O5' GTP . . . F 4 251.681 169.168 276.074 1 145.41 ? O5' GTP 501 A 1 HETATM 14 C C5' GTP . . . F 4 253.07 168.926 275.83 1 115.57 ? C5' GTP 501 A 1 HETATM 15 C C4' GTP . . . F 4 253.322 168.552 274.395 1 88.42 ? C4' GTP 501 A 1 HETATM 16 O O4' GTP . . . F 4 253.276 169.756 273.599 1 77.17 ? O4' GTP 501 A 1 HETATM 17 C C3' GTP . . . F 4 254.731 168.035 274.126 1 101.71 ? C3' GTP 501 A 1 HETATM 18 O O3' GTP . . . F 4 254.783 167.353 272.887 1 93.95 ? O3' GTP 501 A 1 HETATM 19 C C2' GTP . . . F 4 255.509 169.355 274.133 1 102.31 ? C2' GTP 501 A 1 HETATM 20 O O2' GTP . . . F 4 256.809 169.311 273.603 1 116.6 ? O2' GTP 501 A 1 HETATM 21 C C1' GTP . . . F 4 254.58 170.159 273.243 1 81.08 ? C1' GTP 501 A 1 HETATM 22 N N9 GTP . . . F 4 254.69 171.592 273.449 1 71.23 ? N9 GTP 501 A 1 HETATM 23 C C8 GTP . . . F 4 254.21 172.276 274.53 1 68.58 ? C8 GTP 501 A 1 HETATM 24 N N7 GTP . . . F 4 254.391 173.571 274.433 1 62.13 ? N7 GTP 501 A 1 HETATM 25 C C5 GTP . . . F 4 255.034 173.753 273.215 1 59.11 ? C5 GTP 501 A 1 HETATM 26 C C6 GTP . . . F 4 255.479 174.952 272.58 1 51.34 ? C6 GTP 501 A 1 HETATM 27 O O6 GTP . . . F 4 255.33 176.128 272.964 1 49.04 ? O6 GTP 501 A 1 HETATM 28 N N1 GTP . . . F 4 256.087 174.672 271.354 1 46.32 ? N1 GTP 501 A 1 HETATM 29 C C2 GTP . . . F 4 256.247 173.417 270.824 1 48.24 ? C2 GTP 501 A 1 HETATM 30 N N2 GTP . . . F 4 256.835 173.348 269.633 1 42.74 ? N2 GTP 501 A 1 HETATM 31 N N3 GTP . . . F 4 255.824 172.293 271.406 1 57.81 ? N3 GTP 501 A 1 HETATM 32 C C4 GTP . . . F 4 255.233 172.532 272.603 1 64.59 ? C4 GTP 501 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 36 _model_server_stats.query_time_ms 287 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #