data_7Y38 # _model_server_result.job_id K0Hv7KDWNU5VB5MwyYT9Vg _model_server_result.datetime_utc '2024-11-14 06:09:30' _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 7y38 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"W","auth_seq_id":1002}' # _entry.id 7Y38 # _exptl.entry_id 7Y38 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 523.18 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 12 _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 7Y38 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7Y38 _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 ? _pdbx_struct_assembly.oligomeric_details pentadecameric _pdbx_struct_assembly.oligomeric_count 15 _pdbx_struct_assembly.details author_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,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA _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 ? 7 R N N ? 7 T N N ? 7 W N N ? 7 Z N N ? 7 CA N N ? 7 FA N N ? 7 JA N N ? 7 MA N N ? 7 PA N N ? 7 RA N N ? 7 VA N N ? 7 YA 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 NE2 HIS 79 A HIS 79 1_555 P ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc2 A SG CYS 134 A CYS 134 1_555 P ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc3 A SG CYS 141 A CYS 141 1_555 P ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc4 B NE2 HIS 79 B HIS 79 1_555 S ZN ZN . B ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc5 B OE1 GLU 129 B GLU 129 1_555 S ZN ZN . B ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? metalc ? metalc6 B SG CYS 134 B CYS 134 1_555 S ZN ZN . B ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc7 B SG CYS 141 B CYS 141 1_555 S ZN ZN . B ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc8 C NE2 HIS 79 C HIS 79 1_555 V ZN ZN . C ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc9 C SG CYS 134 C CYS 134 1_555 V ZN ZN . C ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc10 C SG CYS 141 C CYS 141 1_555 V ZN ZN . C ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc11 D NE2 HIS 79 D HIS 79 1_555 Y ZN ZN . D ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc12 D OE2 GLU 129 D GLU 129 1_555 Y ZN ZN . D ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc13 D SG CYS 134 D CYS 134 1_555 Y ZN ZN . D ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc14 D SG CYS 141 D CYS 141 1_555 Y ZN ZN . D ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc15 E NE2 HIS 79 E HIS 79 1_555 BA ZN ZN . E ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc16 E SG CYS 134 E CYS 134 1_555 BA ZN ZN . E ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc17 E SG CYS 141 E CYS 141 1_555 BA ZN ZN . E ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc18 F NE2 HIS 79 F HIS 79 1_555 EA ZN ZN . F ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc19 F OE2 GLU 129 F GLU 129 1_555 EA ZN ZN . F ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.113 ? metalc ? metalc20 F SG CYS 134 F CYS 134 1_555 EA ZN ZN . F ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc21 F SG CYS 141 F CYS 141 1_555 EA ZN ZN . F ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc22 G NE2 HIS 79 G HIS 79 1_555 HA ZN ZN . G ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc23 G SG CYS 134 G CYS 134 1_555 HA ZN ZN . G ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc24 G SG CYS 141 G CYS 141 1_555 HA ZN ZN . G ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc25 H NE2 HIS 79 H HIS 79 1_555 KA ZN ZN . H ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc26 H SG CYS 134 H CYS 134 1_555 KA ZN ZN . H ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc27 H SG CYS 141 H CYS 141 1_555 KA ZN ZN . H ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc28 I NE2 HIS 79 I HIS 79 1_555 NA ZN ZN . I ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc29 I OE1 GLU 129 I GLU 129 1_555 NA ZN ZN . I ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc30 I SG CYS 134 I CYS 134 1_555 NA ZN ZN . I ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc31 I SG CYS 141 I CYS 141 1_555 NA ZN ZN . I ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc32 J NE2 HIS 79 J HIS 79 1_555 QA ZN ZN . J ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc33 J SG CYS 134 J CYS 134 1_555 QA ZN ZN . J ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc34 J SG CYS 141 J CYS 141 1_555 QA ZN ZN . J ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc35 K NE2 HIS 79 K HIS 79 1_555 TA ZN ZN . K ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc36 K SG CYS 134 K CYS 134 1_555 TA ZN ZN . K ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc37 K SG CYS 141 K CYS 141 1_555 TA ZN ZN . K ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc38 L NE2 HIS 79 L HIS 79 1_555 WA ZN ZN . L ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc39 L SG CYS 134 L CYS 134 1_555 WA ZN ZN . L ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc40 L SG CYS 141 L CYS 141 1_555 WA ZN ZN . L ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? # _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 253 n n PG O2G GTP sing 254 n n PG O3G GTP sing 255 n n PG O3B GTP sing 256 n n O2G HOG2 GTP sing 257 n n O3G HOG3 GTP sing 258 n n O3B PB GTP sing 259 n n PB O1B GTP doub 260 n n PB O2B GTP sing 261 n n PB O3A GTP sing 262 n n O2B HOB2 GTP sing 263 n n O3A PA GTP sing 264 n n PA O1A GTP doub 265 n n PA O2A GTP sing 266 n n PA O5' GTP sing 267 n n O2A HOA2 GTP sing 268 n n O5' C5' GTP sing 269 n n C5' C4' GTP sing 270 n n C5' H5' GTP sing 271 n n C5' "H5''" GTP sing 272 n n C4' O4' GTP sing 273 n n C4' C3' GTP sing 274 n n C4' H4' GTP sing 275 n n O4' C1' GTP sing 276 n n C3' O3' GTP sing 277 n n C3' C2' GTP sing 278 n n C3' H3' GTP sing 279 n n O3' HO3' GTP sing 280 n n C2' O2' GTP sing 281 n n C2' C1' GTP sing 282 n n C2' H2' GTP sing 283 n n O2' HO2' GTP sing 284 n n C1' N9 GTP sing 285 n n C1' H1' GTP sing 286 n n N9 C8 GTP sing 287 n y N9 C4 GTP sing 288 n y C8 N7 GTP doub 289 n y C8 H8 GTP sing 290 n n N7 C5 GTP sing 291 n y C5 C6 GTP sing 292 n n C5 C4 GTP doub 293 n y C6 O6 GTP doub 294 n n C6 N1 GTP sing 295 n n N1 C2 GTP sing 296 n n N1 HN1 GTP sing 297 n n C2 N2 GTP sing 298 n n C2 N3 GTP doub 299 n n N2 HN21 GTP sing 300 n n N2 HN22 GTP sing 301 n n N3 C4 GTP sing 302 n n # _atom_sites.entry_id 7Y38 _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 P 5 ZN A 1 1001 1001 ZN ZN . Q 6 ATP A 1 1002 1002 ATP ATP . R 7 GTP A 1 1003 1003 GTP GTP . S 5 ZN B 1 1001 1001 ZN ZN . T 7 GTP B 1 1002 1002 GTP GTP . U 6 ATP B 1 1003 1003 ATP ATP . V 5 ZN C 1 1001 1001 ZN ZN . W 7 GTP C 1 1002 1002 GTP GTP . X 6 ATP C 1 1003 1003 ATP ATP . Y 5 ZN D 1 1001 1001 ZN ZN . Z 7 GTP D 1 1002 1002 GTP GTP . AA 6 ATP D 1 1003 1003 ATP ATP . BA 5 ZN E 1 1001 1001 ZN ZN . CA 7 GTP E 1 1002 1002 GTP GTP . DA 6 ATP E 1 1003 1003 ATP ATP . EA 5 ZN F 1 1001 1001 ZN ZN . FA 7 GTP F 1 1002 1002 GTP GTP . GA 6 ATP F 1 1003 1003 ATP ATP . HA 5 ZN G 1 1001 1001 ZN ZN . IA 6 ATP G 1 1002 1002 ATP ATP . JA 7 GTP G 1 1003 1003 GTP GTP . KA 5 ZN H 1 1001 1001 ZN ZN . LA 6 ATP H 1 1002 1002 ATP ATP . MA 7 GTP H 1 1003 1003 GTP GTP . NA 5 ZN I 1 1001 1001 ZN ZN . OA 6 ATP I 1 1002 1002 ATP ATP . PA 7 GTP I 1 1003 1003 GTP GTP . QA 5 ZN J 1 1001 1001 ZN ZN . RA 7 GTP J 1 1002 1002 GTP GTP . SA 6 ATP J 1 1003 1003 ATP ATP . TA 5 ZN K 1 1001 1001 ZN ZN . UA 6 ATP K 1 1002 1002 ATP ATP . VA 7 GTP K 1 1003 1003 GTP GTP . WA 5 ZN L 1 1001 1001 ZN ZN . XA 6 ATP L 1 1002 1002 ATP ATP . YA 7 GTP L 1 1003 1003 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 . . . W 7 260.167 161.786 191.268 1 145.74 ? PG GTP 1002 C 1 HETATM 2 O O1G GTP . . . W 7 260.627 161.662 192.7 1 132 ? O1G GTP 1002 C 1 HETATM 3 O O2G GTP . . . W 7 261.049 160.939 190.382 1 131.8 ? O2G GTP 1002 C 1 HETATM 4 O O3G GTP . . . W 7 258.739 161.309 191.156 1 128.53 ? O3G GTP 1002 C 1 HETATM 5 O O3B GTP . . . W 7 260.268 163.362 190.797 1 134.04 ? O3B GTP 1002 C 1 HETATM 6 P PB GTP . . . W 7 258.997 164.241 190.226 1 133.18 ? PB GTP 1002 C 1 HETATM 7 O O1B GTP . . . W 7 259.319 165.712 190.332 1 124.62 ? O1B GTP 1002 C 1 HETATM 8 O O2B GTP . . . W 7 258.745 163.883 188.781 1 127.08 ? O2B GTP 1002 C 1 HETATM 9 O O3A GTP . . . W 7 257.649 163.909 191.113 1 130.9 ? O3A GTP 1002 C 1 HETATM 10 P PA GTP . . . W 7 257.498 164.234 192.72 1 140.46 ? PA GTP 1002 C 1 HETATM 11 O O1A GTP . . . W 7 258.307 163.241 193.518 1 128.69 ? O1A GTP 1002 C 1 HETATM 12 O O2A GTP . . . W 7 256.044 164.116 193.112 1 133.56 ? O2A GTP 1002 C 1 HETATM 13 O O5' GTP . . . W 7 258.024 165.761 193.048 1 129.79 ? O5' GTP 1002 C 1 HETATM 14 C C5' GTP . . . W 7 257.628 166.332 194.263 1 127.26 ? C5' GTP 1002 C 1 HETATM 15 C C4' GTP . . . W 7 258.637 167.453 194.673 1 126.07 ? C4' GTP 1002 C 1 HETATM 16 O O4' GTP . . . W 7 259.371 167.054 195.635 1 126.95 ? O4' GTP 1002 C 1 HETATM 17 C C3' GTP . . . W 7 259.647 167.745 193.528 1 124.65 ? C3' GTP 1002 C 1 HETATM 18 O O3' GTP . . . W 7 259.143 168.681 192.681 1 125.57 ? O3' GTP 1002 C 1 HETATM 19 C C2' GTP . . . W 7 260.853 168.298 194.26 1 124.73 ? C2' GTP 1002 C 1 HETATM 20 O O2' GTP . . . W 7 260.772 169.803 194.312 1 123.87 ? O2' GTP 1002 C 1 HETATM 21 C C1' GTP . . . W 7 260.797 167.812 195.472 1 124.64 ? C1' GTP 1002 C 1 HETATM 22 N N9 GTP . . . W 7 261.876 166.882 195.674 1 123.68 ? N9 GTP 1002 C 1 HETATM 23 C C8 GTP . . . W 7 262.37 166.058 194.763 1 124.61 ? C8 GTP 1002 C 1 HETATM 24 N N7 GTP . . . W 7 263.353 165.35 195.3 1 123.36 ? N7 GTP 1002 C 1 HETATM 25 C C5 GTP . . . W 7 263.499 165.719 196.576 1 122.17 ? C5 GTP 1002 C 1 HETATM 26 C C6 GTP . . . W 7 264.443 165.28 197.695 1 123.3 ? C6 GTP 1002 C 1 HETATM 27 O O6 GTP . . . W 7 265.252 164.44 197.49 1 122.67 ? O6 GTP 1002 C 1 HETATM 28 N N1 GTP . . . W 7 264.348 165.884 198.992 1 123.97 ? N1 GTP 1002 C 1 HETATM 29 C C2 GTP . . . W 7 263.355 166.91 199.233 1 123.87 ? C2 GTP 1002 C 1 HETATM 30 N N2 GTP . . . W 7 263.253 167.525 200.543 1 123.11 ? N2 GTP 1002 C 1 HETATM 31 N N3 GTP . . . W 7 262.454 167.326 198.156 1 124.35 ? N3 GTP 1002 C 1 HETATM 32 C C4 GTP . . . W 7 262.554 166.699 196.813 1 123.33 ? C4 GTP 1002 C 1 # _model_server_stats.io_time_ms 63 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 67 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 32 #