data_6UPR # _model_server_result.job_id rMVkrkvdGwVluYeCA4oWBw _model_server_result.datetime_utc '2024-11-05 03:59:35' _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 6upr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 6UPR # _exptl.entry_id 6UPR _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 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 103.63 _cell.angle_gamma 90 _cell.entry_id 6UPR _cell.length_a 52.754 _cell.length_b 82.773 _cell.length_c 78.144 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6UPR _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 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 _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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 disulf ? disulf1 A SG CYS 77 A CYS 111 1_555 A SG CYS 80 A CYS 114 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.037 ? metalc ? metalc1 B OG SER 39 B SER 58 1_555 E MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.955 ? metalc ? metalc2 D O1G GTP . B GTP 401 1_555 E MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc3 D O1B GTP . B GTP 401 1_555 E MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc4 E MG MG . B MG 402 1_555 G O HOH . B HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.974 ? metalc ? metalc5 E MG MG . B MG 402 1_555 G O HOH . B HOH 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? metalc ? metalc6 E MG MG . B MG 402 1_555 G O HOH . B HOH 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? # _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 6UPR _atom_sites.fract_transf_matrix[1][1] 0.018956 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004597 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012081 _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] 0.013168 _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 3 GDP A 1 1401 1401 GDP GDP . D 4 GTP B 1 401 500 GTP GTP . E 5 MG B 1 402 601 MG MG . F 6 HOH A 1 1501 66 HOH HOH . F 6 HOH A 2 1502 47 HOH HOH . F 6 HOH A 3 1503 50 HOH HOH . F 6 HOH A 4 1504 91 HOH HOH . F 6 HOH A 5 1505 30 HOH HOH . F 6 HOH A 6 1506 46 HOH HOH . F 6 HOH A 7 1507 39 HOH HOH . F 6 HOH A 8 1508 1 HOH HOH . F 6 HOH A 9 1509 72 HOH HOH . F 6 HOH A 10 1510 92 HOH HOH . F 6 HOH A 11 1511 4 HOH HOH . F 6 HOH A 12 1512 18 HOH HOH . F 6 HOH A 13 1513 13 HOH HOH . F 6 HOH A 14 1514 12 HOH HOH . F 6 HOH A 15 1515 3 HOH HOH . F 6 HOH A 16 1516 85 HOH HOH . F 6 HOH A 17 1517 57 HOH HOH . F 6 HOH A 18 1518 86 HOH HOH . F 6 HOH A 19 1519 21 HOH HOH . F 6 HOH A 20 1520 58 HOH HOH . F 6 HOH A 21 1521 2 HOH HOH . F 6 HOH A 22 1522 51 HOH HOH . F 6 HOH A 23 1523 36 HOH HOH . F 6 HOH A 24 1524 73 HOH HOH . F 6 HOH A 25 1525 33 HOH HOH . F 6 HOH A 26 1526 6 HOH HOH . F 6 HOH A 27 1527 45 HOH HOH . F 6 HOH A 28 1528 15 HOH HOH . F 6 HOH A 29 1529 41 HOH HOH . F 6 HOH A 30 1530 9 HOH HOH . F 6 HOH A 31 1531 24 HOH HOH . F 6 HOH A 32 1532 74 HOH HOH . F 6 HOH A 33 1533 5 HOH HOH . F 6 HOH A 34 1534 27 HOH HOH . F 6 HOH A 35 1535 11 HOH HOH . F 6 HOH A 36 1536 19 HOH HOH . F 6 HOH A 37 1537 78 HOH HOH . F 6 HOH A 38 1538 32 HOH HOH . F 6 HOH A 39 1539 67 HOH HOH . F 6 HOH A 40 1540 56 HOH HOH . G 6 HOH B 1 501 8 HOH HOH . G 6 HOH B 2 502 94 HOH HOH . G 6 HOH B 3 503 89 HOH HOH . G 6 HOH B 4 504 25 HOH HOH . G 6 HOH B 5 505 83 HOH HOH . G 6 HOH B 6 506 87 HOH HOH . G 6 HOH B 7 507 84 HOH HOH . G 6 HOH B 8 508 95 HOH HOH . G 6 HOH B 9 509 34 HOH HOH . G 6 HOH B 10 510 37 HOH HOH . G 6 HOH B 11 511 65 HOH HOH . G 6 HOH B 12 512 55 HOH HOH . G 6 HOH B 13 513 93 HOH HOH . G 6 HOH B 14 514 28 HOH HOH . G 6 HOH B 15 515 22 HOH HOH . G 6 HOH B 16 516 10 HOH HOH . G 6 HOH B 17 517 53 HOH HOH . G 6 HOH B 18 518 63 HOH HOH . G 6 HOH B 19 519 35 HOH HOH . G 6 HOH B 20 520 14 HOH HOH . G 6 HOH B 21 521 17 HOH HOH . G 6 HOH B 22 522 68 HOH HOH . G 6 HOH B 23 523 31 HOH HOH . G 6 HOH B 24 524 79 HOH HOH . G 6 HOH B 25 525 48 HOH HOH . G 6 HOH B 26 526 26 HOH HOH . G 6 HOH B 27 527 16 HOH HOH . G 6 HOH B 28 528 29 HOH HOH . G 6 HOH B 29 529 23 HOH HOH . G 6 HOH B 30 530 62 HOH HOH . G 6 HOH B 31 531 76 HOH HOH . G 6 HOH B 32 532 54 HOH HOH . G 6 HOH B 33 533 7 HOH HOH . G 6 HOH B 34 534 20 HOH HOH . G 6 HOH B 35 535 60 HOH HOH . G 6 HOH B 36 536 38 HOH HOH . G 6 HOH B 37 537 42 HOH HOH . G 6 HOH B 38 538 40 HOH HOH . G 6 HOH B 39 539 43 HOH HOH . G 6 HOH B 40 540 49 HOH HOH . G 6 HOH B 41 541 52 HOH HOH . G 6 HOH B 42 542 80 HOH HOH . G 6 HOH B 43 543 90 HOH HOH . G 6 HOH B 44 544 71 HOH HOH . G 6 HOH B 45 545 44 HOH HOH . G 6 HOH B 46 546 77 HOH HOH . G 6 HOH B 47 547 82 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 . . . D 4 23.335 -4.026 26.313 1 56.57 ? PG GTP 401 B 1 HETATM 2 O O1G GTP . . . D 4 24.217 -4.472 27.456 1 62.38 ? O1G GTP 401 B 1 HETATM 3 O O2G GTP . . . D 4 22.015 -4.752 26.422 1 58.35 ? O2G GTP 401 B 1 HETATM 4 O O3G GTP . . . D 4 24.017 -4.322 24.998 1 60.25 ? O3G GTP 401 B 1 HETATM 5 O O3B GTP . . . D 4 23.057 -2.452 26.43 1 52.49 ? O3B GTP 401 B 1 HETATM 6 P PB GTP . . . D 4 24.214 -1.349 26.582 1 51.6 ? PB GTP 401 B 1 HETATM 7 O O1B GTP . . . D 4 25.297 -1.852 27.505 1 61.35 ? O1B GTP 401 B 1 HETATM 8 O O2B GTP . . . D 4 23.534 -0.118 27.105 1 51.97 ? O2B GTP 401 B 1 HETATM 9 O O3A GTP . . . D 4 24.855 -1.057 25.137 1 51.6 ? O3A GTP 401 B 1 HETATM 10 P PA GTP . . . D 4 26.415 -0.696 24.973 1 55.89 ? PA GTP 401 B 1 HETATM 11 O O1A GTP . . . D 4 27.177 -1.991 24.865 1 58.39 ? O1A GTP 401 B 1 HETATM 12 O O2A GTP . . . D 4 26.939 0.15 26.106 1 64.25 ? O2A GTP 401 B 1 HETATM 13 O O5' GTP . . . D 4 26.585 0.08 23.574 1 59.59 ? O5' GTP 401 B 1 HETATM 14 C C5' GTP . . . D 4 25.513 0.285 22.685 1 52.29 ? C5' GTP 401 B 1 HETATM 15 C C4' GTP . . . D 4 26.016 1.115 21.515 1 51.19 ? C4' GTP 401 B 1 HETATM 16 O O4' GTP . . . D 4 25.707 2.471 21.761 1 52.01 ? O4' GTP 401 B 1 HETATM 17 C C3' GTP . . . D 4 27.522 1.026 21.384 1 58.55 ? C3' GTP 401 B 1 HETATM 18 O O3' GTP . . . D 4 27.829 0.455 20.138 1 72.07 ? O3' GTP 401 B 1 HETATM 19 C C2' GTP . . . D 4 28.029 2.45 21.408 1 60.1 ? C2' GTP 401 B 1 HETATM 20 O O2' GTP . . . D 4 28.83 2.686 20.275 1 70.48 ? O2' GTP 401 B 1 HETATM 21 C C1' GTP . . . D 4 26.778 3.314 21.394 1 54.3 ? C1' GTP 401 B 1 HETATM 22 N N9 GTP . . . D 4 26.88 4.394 22.387 1 54.63 ? N9 GTP 401 B 1 HETATM 23 C C8 GTP . . . D 4 27.351 4.264 23.667 1 52.54 ? C8 GTP 401 B 1 HETATM 24 N N7 GTP . . . D 4 27.285 5.469 24.273 1 52.28 ? N7 GTP 401 B 1 HETATM 25 C C5 GTP . . . D 4 26.77 6.368 23.404 1 53.44 ? C5 GTP 401 B 1 HETATM 26 C C6 GTP . . . D 4 26.495 7.723 23.52 1 53.16 ? C6 GTP 401 B 1 HETATM 27 O O6 GTP . . . D 4 26.73 8.319 24.573 1 46.84 ? O6 GTP 401 B 1 HETATM 28 N N1 GTP . . . D 4 25.96 8.399 22.441 1 57.86 ? N1 GTP 401 B 1 HETATM 29 C C2 GTP . . . D 4 25.705 7.727 21.264 1 56.54 ? C2 GTP 401 B 1 HETATM 30 N N2 GTP . . . D 4 25.193 8.383 20.23 1 50.31 ? N2 GTP 401 B 1 HETATM 31 N N3 GTP . . . D 4 25.982 6.377 21.157 1 56.84 ? N3 GTP 401 B 1 HETATM 32 C C4 GTP . . . D 4 26.508 5.705 22.21 1 55.15 ? C4 GTP 401 B 1 # _model_server_stats.io_time_ms 46 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 352 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 32 #