data_4A8K # _model_server_result.job_id 0b9Q0bmDRCBX1asgdgOJ7A _model_server_result.datetime_utc '2024-10-11 14:25:22' _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 4a8k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":1666}' # _entry.id 4A8K # _exptl.entry_id 4A8K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 101.36 _cell.angle_gamma 90 _cell.entry_id 4A8K _cell.length_a 106.53 _cell.length_b 93.028 _cell.length_c 140.86 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4A8K _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,F,G 1 1 B,D,H,I 2 1 C,E,J,K 3 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 ? 5 G N N ? 5 I N N ? 5 K 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 A OD1 ASP 455 A ASP 454 1_555 F MG MG . A MG 1665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc2 A OE1 GLU 492 A GLU 491 1_555 F MG MG . A MG 1665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc3 A O ALA 496 A ALA 495 1_555 F MG MG . A MG 1665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.431 ? metalc ? metalc4 B OD1 ASP 455 B ASP 454 1_555 H MG MG . B MG 1665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.955 ? metalc ? metalc5 B OE2 GLU 492 B GLU 491 1_555 H MG MG . B MG 1665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.95 ? metalc ? metalc6 B OE1 GLU 492 B GLU 491 1_555 H MG MG . B MG 1665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc7 B O ALA 496 B ALA 495 1_555 H MG MG . B MG 1665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.665 ? metalc ? metalc8 C OD1 ASP 455 C ASP 454 1_555 J MG MG . C MG 1665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc9 C OE1 GLU 492 C GLU 491 1_555 J MG MG . C MG 1665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? metalc ? metalc10 C O ALA 496 C ALA 495 1_555 J MG MG . C MG 1665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.967 ? # _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 239 n n PG O2G GTP sing 240 n n PG O3G GTP sing 241 n n PG O3B GTP sing 242 n n O2G HOG2 GTP sing 243 n n O3G HOG3 GTP sing 244 n n O3B PB GTP sing 245 n n PB O1B GTP doub 246 n n PB O2B GTP sing 247 n n PB O3A GTP sing 248 n n O2B HOB2 GTP sing 249 n n O3A PA GTP sing 250 n n PA O1A GTP doub 251 n n PA O2A GTP sing 252 n n PA O5' GTP sing 253 n n O2A HOA2 GTP sing 254 n n O5' C5' GTP sing 255 n n C5' C4' GTP sing 256 n n C5' H5' GTP sing 257 n n C5' "H5''" GTP sing 258 n n C4' O4' GTP sing 259 n n C4' C3' GTP sing 260 n n C4' H4' GTP sing 261 n n O4' C1' GTP sing 262 n n C3' O3' GTP sing 263 n n C3' C2' GTP sing 264 n n C3' H3' GTP sing 265 n n O3' HO3' GTP sing 266 n n C2' O2' GTP sing 267 n n C2' C1' GTP sing 268 n n C2' H2' GTP sing 269 n n O2' HO2' GTP sing 270 n n C1' N9 GTP sing 271 n n C1' H1' GTP sing 272 n n N9 C8 GTP sing 273 n y N9 C4 GTP sing 274 n y C8 N7 GTP doub 275 n y C8 H8 GTP sing 276 n n N7 C5 GTP sing 277 n y C5 C6 GTP sing 278 n n C5 C4 GTP doub 279 n y C6 O6 GTP doub 280 n n C6 N1 GTP sing 281 n n N1 C2 GTP sing 282 n n N1 HN1 GTP sing 283 n n C2 N2 GTP sing 284 n n C2 N3 GTP doub 285 n n N2 HN21 GTP sing 286 n n N2 HN22 GTP sing 287 n n N3 C4 GTP sing 288 n n # _atom_sites.entry_id 4A8K _atom_sites.fract_transf_matrix[1][1] 0.009387 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001886 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010749 _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] 0.007241 _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 MG A 1 1665 1665 MG MG . G 5 GTP A 1 1666 1666 GTP GTP . H 4 MG B 1 1665 1665 MG MG . I 5 GTP B 1 1666 1666 GTP GTP . J 4 MG C 1 1665 1665 MG MG . K 5 GTP C 1 1666 1666 GTP GTP . # 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 . . . I 5 51.602 20.947 67.998 1 171.92 ? PG GTP 1666 B 1 HETATM 2 O O1G GTP . . . I 5 52.846 20.6 68.745 1 173.74 ? O1G GTP 1666 B 1 HETATM 3 O O2G GTP . . . I 5 51.546 22.38 67.595 1 173.76 ? O2G GTP 1666 B 1 HETATM 4 O O3G GTP . . . I 5 50.336 20.437 68.605 1 172.38 ? O3G GTP 1666 B 1 HETATM 5 O O3B GTP . . . I 5 51.751 20.227 66.585 1 171.43 ? O3B GTP 1666 B 1 HETATM 6 P PB GTP . . . I 5 52.658 20.985 65.509 1 171.58 ? PB GTP 1666 B 1 HETATM 7 O O1B GTP . . . I 5 54.08 20.715 65.874 1 170.54 ? O1B GTP 1666 B 1 HETATM 8 O O2B GTP . . . I 5 52.214 22.41 65.395 1 171.58 ? O2B GTP 1666 B 1 HETATM 9 O O3A GTP . . . I 5 52.362 20.269 64.111 1 172.29 ? O3A GTP 1666 B 1 HETATM 10 P PA GTP . . . I 5 52.919 18.796 63.846 1 172.89 ? PA GTP 1666 B 1 HETATM 11 O O1A GTP . . . I 5 54.108 18.619 64.743 1 172.76 ? O1A GTP 1666 B 1 HETATM 12 O O2A GTP . . . I 5 51.779 17.819 63.919 1 172.62 ? O2A GTP 1666 B 1 HETATM 13 O O5' GTP . . . I 5 53.439 18.877 62.33 1 173.54 ? O5' GTP 1666 B 1 HETATM 14 C C5' GTP . . . I 5 54.792 18.597 61.978 1 174.44 ? C5' GTP 1666 B 1 HETATM 15 C C4' GTP . . . I 5 54.983 18.892 60.496 1 175.23 ? C4' GTP 1666 B 1 HETATM 16 O O4' GTP . . . I 5 55.989 18.039 59.942 1 173.48 ? O4' GTP 1666 B 1 HETATM 17 C C3' GTP . . . I 5 53.705 18.645 59.708 1 176.1 ? C3' GTP 1666 B 1 HETATM 18 O O3' GTP . . . I 5 53.098 19.871 59.302 1 178.65 ? O3' GTP 1666 B 1 HETATM 19 C C2' GTP . . . I 5 54.114 17.851 58.488 1 175.59 ? C2' GTP 1666 B 1 HETATM 20 O O2' GTP . . . I 5 53.944 18.622 57.298 1 178.04 ? O2' GTP 1666 B 1 HETATM 21 C C1' GTP . . . I 5 55.576 17.476 58.686 1 174.06 ? C1' GTP 1666 B 1 HETATM 22 N N9 GTP . . . I 5 55.563 15.992 58.667 1 174.28 ? N9 GTP 1666 B 1 HETATM 23 C C8 GTP . . . I 5 55.861 15.136 59.66 1 174.24 ? C8 GTP 1666 B 1 HETATM 24 N N7 GTP . . . I 5 55.701 13.851 59.26 1 174.97 ? N7 GTP 1666 B 1 HETATM 25 C C5 GTP . . . I 5 55.273 13.876 57.983 1 174.53 ? C5 GTP 1666 B 1 HETATM 26 C C6 GTP . . . I 5 54.897 12.885 56.939 1 175.26 ? C6 GTP 1666 B 1 HETATM 27 O O6 GTP . . . I 5 54.942 11.654 57.152 1 176.75 ? O6 GTP 1666 B 1 HETATM 28 N N1 GTP . . . I 5 54.51 13.355 55.742 1 175.63 ? N1 GTP 1666 B 1 HETATM 29 C C2 GTP . . . I 5 54.454 14.677 55.456 1 175.18 ? C2 GTP 1666 B 1 HETATM 30 N N2 GTP . . . I 5 54.052 15.074 54.221 1 176.16 ? N2 GTP 1666 B 1 HETATM 31 N N3 GTP . . . I 5 54.787 15.632 56.362 1 174.14 ? N3 GTP 1666 B 1 HETATM 32 C C4 GTP . . . I 5 55.186 15.293 57.607 1 173.48 ? C4 GTP 1666 B 1 # _model_server_stats.io_time_ms 35 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #