data_8CLC # _model_server_result.job_id 9jDVPcGT8JXIaze7dIAd9A _model_server_result.datetime_utc '2024-11-16 21:56:03' _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 8clc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":501}' # _entry.id 8CLC # _exptl.entry_id 8CLC _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 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 8CLC _cell.length_a 106.53 _cell.length_b 160.48 _cell.length_c 181.24 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CLC _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 ? 5 G N N ? 5 L 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 39 A ASP 39 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.766 ? metalc ? metalc2 A OD2 ASP 39 A ASP 39 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.458 ? metalc ? metalc3 A O THR 41 A THR 41 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.538 ? metalc ? metalc4 A OG1 THR 41 A THR 41 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc5 A O GLY 44 A GLY 44 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.696 ? metalc ? metalc6 A OE1 GLU 55 A GLU 55 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.763 ? metalc ? metalc7 A OE2 GLU 55 A GLU 55 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.584 ? metalc ? metalc8 G O2G GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc9 G O1B GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? metalc ? metalc10 H MG MG . A MG 502 1_555 Q O HOH . A HOH 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc11 H MG MG . A MG 502 1_555 Q O HOH . A HOH 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? metalc ? metalc12 H MG MG . A MG 502 1_555 Q O HOH . A HOH 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? metalc ? metalc13 J O1A GDP . B GDP 501 1_555 K MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? metalc ? metalc14 K MG MG . B MG 502 1_555 R O HOH . B HOH 620 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? metalc ? metalc15 C OD1 ASP 39 C ASP 39 1_555 N CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.569 ? metalc ? metalc16 C OD2 ASP 39 C ASP 39 1_555 N CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc17 C O THR 41 C THR 41 1_555 N CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? metalc ? metalc18 C OG1 THR 41 C THR 41 1_555 N CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc19 C O GLY 44 C GLY 44 1_555 N CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.405 ? metalc ? metalc20 C OE1 GLU 55 C GLU 55 1_555 N CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.735 ? metalc ? metalc21 C OE2 GLU 55 C GLU 55 1_555 N CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc22 L O1G GTP . C GTP 501 1_555 M MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.94 ? metalc ? metalc23 L O1B GTP . C GTP 501 1_555 M MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.653 ? metalc ? metalc24 M MG MG . C MG 502 1_555 S O HOH . C HOH 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc25 M MG MG . C MG 502 1_555 S O HOH . C HOH 615 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc26 M MG MG . C MG 502 1_555 S O HOH . C HOH 617 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? # _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 225 n n PG O2G GTP sing 226 n n PG O3G GTP sing 227 n n PG O3B GTP sing 228 n n O2G HOG2 GTP sing 229 n n O3G HOG3 GTP sing 230 n n O3B PB GTP sing 231 n n PB O1B GTP doub 232 n n PB O2B GTP sing 233 n n PB O3A GTP sing 234 n n O2B HOB2 GTP sing 235 n n O3A PA GTP sing 236 n n PA O1A GTP doub 237 n n PA O2A GTP sing 238 n n PA O5' GTP sing 239 n n O2A HOA2 GTP sing 240 n n O5' C5' GTP sing 241 n n C5' C4' GTP sing 242 n n C5' H5' GTP sing 243 n n C5' "H5''" GTP sing 244 n n C4' O4' GTP sing 245 n n C4' C3' GTP sing 246 n n C4' H4' GTP sing 247 n n O4' C1' GTP sing 248 n n C3' O3' GTP sing 249 n n C3' C2' GTP sing 250 n n C3' H3' GTP sing 251 n n O3' HO3' GTP sing 252 n n C2' O2' GTP sing 253 n n C2' C1' GTP sing 254 n n C2' H2' GTP sing 255 n n O2' HO2' GTP sing 256 n n C1' N9 GTP sing 257 n n C1' H1' GTP sing 258 n n N9 C8 GTP sing 259 n y N9 C4 GTP sing 260 n y C8 N7 GTP doub 261 n y C8 H8 GTP sing 262 n n N7 C5 GTP sing 263 n y C5 C6 GTP sing 264 n n C5 C4 GTP doub 265 n y C6 O6 GTP doub 266 n n C6 N1 GTP sing 267 n n N1 C2 GTP sing 268 n n N1 HN1 GTP sing 269 n n C2 N2 GTP sing 270 n n C2 N3 GTP doub 271 n n N2 HN21 GTP sing 272 n n N2 HN22 GTP sing 273 n n N3 C4 GTP sing 274 n n # _atom_sites.entry_id 8CLC _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 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006231 _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] 0.005518 _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 5 GTP A 1 501 501 GTP GTP . H 6 MG A 1 502 502 MG MG . I 7 CA A 1 503 503 CA CA . J 8 GDP B 1 501 501 GDP GDP . K 6 MG B 1 502 502 MG MG . L 5 GTP C 1 501 501 GTP GTP . M 6 MG C 1 502 502 MG MG . N 7 CA C 1 503 503 CA CA . O 8 GDP D 1 501 501 GDP GDP . P 9 ACP F 1 401 401 ACP ACP . Q 10 HOH A 1 601 111 HOH HOH . Q 10 HOH A 2 602 38 HOH HOH . Q 10 HOH A 3 603 91 HOH HOH . Q 10 HOH A 4 604 97 HOH HOH . Q 10 HOH A 5 605 106 HOH HOH . Q 10 HOH A 6 606 17 HOH HOH . Q 10 HOH A 7 607 85 HOH HOH . Q 10 HOH A 8 608 65 HOH HOH . Q 10 HOH A 9 609 67 HOH HOH . Q 10 HOH A 10 610 110 HOH HOH . Q 10 HOH A 11 611 45 HOH HOH . Q 10 HOH A 12 612 12 HOH HOH . Q 10 HOH A 13 613 8 HOH HOH . Q 10 HOH A 14 614 86 HOH HOH . Q 10 HOH A 15 615 94 HOH HOH . R 10 HOH B 1 601 90 HOH HOH . R 10 HOH B 2 602 15 HOH HOH . R 10 HOH B 3 603 52 HOH HOH . R 10 HOH B 4 604 74 HOH HOH . R 10 HOH B 5 605 11 HOH HOH . R 10 HOH B 6 606 68 HOH HOH . R 10 HOH B 7 607 36 HOH HOH . R 10 HOH B 8 608 72 HOH HOH . R 10 HOH B 9 609 26 HOH HOH . R 10 HOH B 10 610 75 HOH HOH . R 10 HOH B 11 611 107 HOH HOH . R 10 HOH B 12 612 21 HOH HOH . R 10 HOH B 13 613 35 HOH HOH . R 10 HOH B 14 614 4 HOH HOH . R 10 HOH B 15 615 51 HOH HOH . R 10 HOH B 16 616 55 HOH HOH . R 10 HOH B 17 617 29 HOH HOH . R 10 HOH B 18 618 57 HOH HOH . R 10 HOH B 19 619 93 HOH HOH . R 10 HOH B 20 620 10 HOH HOH . R 10 HOH B 21 621 2 HOH HOH . S 10 HOH C 1 601 60 HOH HOH . S 10 HOH C 2 602 113 HOH HOH . S 10 HOH C 3 603 109 HOH HOH . S 10 HOH C 4 604 79 HOH HOH . S 10 HOH C 5 605 105 HOH HOH . S 10 HOH C 6 606 71 HOH HOH . S 10 HOH C 7 607 14 HOH HOH . S 10 HOH C 8 608 7 HOH HOH . S 10 HOH C 9 609 34 HOH HOH . S 10 HOH C 10 610 78 HOH HOH . S 10 HOH C 11 611 6 HOH HOH . S 10 HOH C 12 612 5 HOH HOH . S 10 HOH C 13 613 58 HOH HOH . S 10 HOH C 14 614 47 HOH HOH . S 10 HOH C 15 615 76 HOH HOH . S 10 HOH C 16 616 33 HOH HOH . S 10 HOH C 17 617 62 HOH HOH . S 10 HOH C 18 618 32 HOH HOH . S 10 HOH C 19 619 28 HOH HOH . S 10 HOH C 20 620 70 HOH HOH . S 10 HOH C 21 621 59 HOH HOH . S 10 HOH C 22 622 61 HOH HOH . S 10 HOH C 23 623 9 HOH HOH . S 10 HOH C 24 624 31 HOH HOH . S 10 HOH C 25 625 27 HOH HOH . S 10 HOH C 26 626 116 HOH HOH . S 10 HOH C 27 627 53 HOH HOH . S 10 HOH C 28 628 43 HOH HOH . S 10 HOH C 29 629 22 HOH HOH . S 10 HOH C 30 630 102 HOH HOH . S 10 HOH C 31 631 84 HOH HOH . S 10 HOH C 32 632 1 HOH HOH . S 10 HOH C 33 633 40 HOH HOH . S 10 HOH C 34 634 23 HOH HOH . S 10 HOH C 35 635 50 HOH HOH . S 10 HOH C 36 636 13 HOH HOH . S 10 HOH C 37 637 18 HOH HOH . S 10 HOH C 38 638 30 HOH HOH . T 10 HOH D 1 601 108 HOH HOH . T 10 HOH D 2 602 66 HOH HOH . T 10 HOH D 3 603 73 HOH HOH . U 10 HOH E 1 201 37 HOH HOH . U 10 HOH E 2 202 25 HOH HOH . V 10 HOH F 1 501 115 HOH HOH . V 10 HOH F 2 502 80 HOH HOH . V 10 HOH F 3 503 83 HOH HOH . V 10 HOH F 4 504 101 HOH HOH . V 10 HOH F 5 505 89 HOH HOH . V 10 HOH F 6 506 54 HOH HOH . V 10 HOH F 7 507 20 HOH HOH . V 10 HOH F 8 508 92 HOH HOH . V 10 HOH F 9 509 39 HOH HOH . V 10 HOH F 10 510 69 HOH HOH . V 10 HOH F 11 511 48 HOH HOH . V 10 HOH F 12 512 3 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 . . . L 5 20.589 19.472 -16.97 1 46.53 ? PG GTP 501 C 1 HETATM 2 O O1G GTP . . . L 5 19.572 19.707 -18.044 1 37.96 ? O1G GTP 501 C 1 HETATM 3 O O2G GTP . . . L 5 21.924 20.052 -17.305 1 43.75 ? O2G GTP 501 C 1 HETATM 4 O O3G GTP . . . L 5 20.673 18.043 -16.549 1 39.16 ? O3G GTP 501 C 1 HETATM 5 O O3B GTP . . . L 5 20.072 20.279 -15.681 1 59.1 ? O3B GTP 501 C 1 HETATM 6 P PB GTP . . . L 5 18.967 21.411 -15.46 1 45.61 ? PB GTP 501 C 1 HETATM 7 O O1B GTP . . . L 5 18.643 22.029 -16.772 1 37.36 ? O1B GTP 501 C 1 HETATM 8 O O2B GTP . . . L 5 19.395 22.272 -14.331 1 52.45 ? O2B GTP 501 C 1 HETATM 9 O O3A GTP . . . L 5 17.727 20.521 -14.987 1 58.14 ? O3A GTP 501 C 1 HETATM 10 P PA GTP . . . L 5 16.253 20.86 -14.465 1 54.52 ? PA GTP 501 C 1 HETATM 11 O O1A GTP . . . L 5 15.267 20.415 -15.487 1 48.14 ? O1A GTP 501 C 1 HETATM 12 O O2A GTP . . . L 5 16.214 22.28 -14.022 1 49.5 ? O2A GTP 501 C 1 HETATM 13 O O5' GTP . . . L 5 16.165 19.903 -13.187 1 48.79 ? O5' GTP 501 C 1 HETATM 14 C C5' GTP . . . L 5 15.215 18.813 -13.19 1 38.19 ? C5' GTP 501 C 1 HETATM 15 C C4' GTP . . . L 5 14.364 18.894 -11.949 1 47.5 ? C4' GTP 501 C 1 HETATM 16 O O4' GTP . . . L 5 13.814 20.231 -11.844 1 50.04 ? O4' GTP 501 C 1 HETATM 17 C C3' GTP . . . L 5 13.155 17.955 -11.9 1 64.36 ? C3' GTP 501 C 1 HETATM 18 O O3' GTP . . . L 5 12.856 17.572 -10.565 1 62.27 ? O3' GTP 501 C 1 HETATM 19 C C2' GTP . . . L 5 12.045 18.819 -12.495 1 42.24 ? C2' GTP 501 C 1 HETATM 20 O O2' GTP . . . L 5 10.764 18.435 -12.049 1 72 ? O2' GTP 501 C 1 HETATM 21 C C1' GTP . . . L 5 12.412 20.2 -11.968 1 46.44 ? C1' GTP 501 C 1 HETATM 22 N N9 GTP . . . L 5 12.013 21.286 -12.851 1 38.1 ? N9 GTP 501 C 1 HETATM 23 C C8 GTP . . . L 5 12.433 21.494 -14.138 1 37.43 ? C8 GTP 501 C 1 HETATM 24 N N7 GTP . . . L 5 11.905 22.557 -14.69 1 49.37 ? N7 GTP 501 C 1 HETATM 25 C C5 GTP . . . L 5 11.083 23.08 -13.702 1 44.02 ? C5 GTP 501 C 1 HETATM 26 C C6 GTP . . . L 5 10.258 24.23 -13.72 1 51.82 ? C6 GTP 501 C 1 HETATM 27 O O6 GTP . . . L 5 10.083 25.036 -14.642 1 47.55 ? O6 GTP 501 C 1 HETATM 28 N N1 GTP . . . L 5 9.596 24.397 -12.506 1 52.71 ? N1 GTP 501 C 1 HETATM 29 C C2 GTP . . . L 5 9.714 23.571 -11.417 1 45.64 ? C2 GTP 501 C 1 HETATM 30 N N2 GTP . . . L 5 8.996 23.899 -10.337 1 41.29 ? N2 GTP 501 C 1 HETATM 31 N N3 GTP . . . L 5 10.488 22.49 -11.395 1 36.11 ? N3 GTP 501 C 1 HETATM 32 C C4 GTP . . . L 5 11.141 22.308 -12.565 1 39.67 ? C4 GTP 501 C 1 # _model_server_stats.io_time_ms 43 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 56 _model_server_stats.query_time_ms 375 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 32 #