data_7TLE # _model_server_result.job_id tKGgcuBzp2UeOba3vi2M5Q _model_server_result.datetime_utc '2024-11-22 22:48:56' _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 7tle # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":203}' # _entry.id 7TLE # _exptl.entry_id 7TLE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 443.201 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-DIPHOSPHATE" _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 90 _cell.angle_gamma 90 _cell.entry_id 7TLE _cell.length_a 39.78 _cell.length_b 50.66 _cell.length_c 89.31 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7TLE _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 covale ? covale1 A OG SER 12 A SER 12 1_555 C C01 I6T . A I6T 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? metalc ? metalc1 A OG SER 17 A SER 17 1_555 B MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc2 B MG MG . A MG 201 1_555 D O2B GDP . A GDP 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc3 B MG MG . A MG 201 1_555 F O HOH . A HOH 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc4 B MG MG . A MG 201 1_555 F O HOH . A HOH 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? metalc ? metalc5 B MG MG . A MG 201 1_555 F O HOH . A HOH 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc6 B MG MG . A MG 201 1_555 F O HOH . A HOH 349 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? # _chem_comp.formula 'C10 H15 N5 O11 P2' _chem_comp.formula_weight 443.201 _chem_comp.id GDP _chem_comp.mon_nstd_flag n _chem_comp.name "GUANOSINE-5'-DIPHOSPHATE" _chem_comp.type 'rna linking' _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 PB O1B GDP doub 83 n n PB O2B GDP sing 84 n n PB O3B GDP sing 85 n n PB O3A GDP sing 86 n n O2B HOB2 GDP sing 87 n n O3B HOB3 GDP sing 88 n n O3A PA GDP sing 89 n n PA O1A GDP doub 90 n n PA O2A GDP sing 91 n n PA O5' GDP sing 92 n n O2A HOA2 GDP sing 93 n n O5' C5' GDP sing 94 n n C5' C4' GDP sing 95 n n C5' H5' GDP sing 96 n n C5' "H5''" GDP sing 97 n n C4' O4' GDP sing 98 n n C4' C3' GDP sing 99 n n C4' H4' GDP sing 100 n n O4' C1' GDP sing 101 n n C3' O3' GDP sing 102 n n C3' C2' GDP sing 103 n n C3' H3' GDP sing 104 n n O3' HO3' GDP sing 105 n n C2' O2' GDP sing 106 n n C2' C1' GDP sing 107 n n C2' H2' GDP sing 108 n n O2' HO2' GDP sing 109 n n C1' N9 GDP sing 110 n n C1' H1' GDP sing 111 n n N9 C8 GDP sing 112 n y N9 C4 GDP sing 113 n y C8 N7 GDP doub 114 n y C8 H8 GDP sing 115 n n N7 C5 GDP sing 116 n y C5 C6 GDP sing 117 n n C5 C4 GDP doub 118 n y C6 O6 GDP doub 119 n n C6 N1 GDP sing 120 n n N1 C2 GDP sing 121 n n N1 HN1 GDP sing 122 n n C2 N2 GDP sing 123 n n C2 N3 GDP doub 124 n n N2 HN21 GDP sing 125 n n N2 HN22 GDP sing 126 n n N3 C4 GDP sing 127 n n # _atom_sites.entry_id 7TLE _atom_sites.fract_transf_matrix[1][1] 0.025138 _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] 0.019739 _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] 0.011197 _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 B 2 MG A 1 201 205 MG MG . C 3 I6T A 1 202 206 I6T ZZ2 . D 4 GDP A 1 203 207 GDP GDP . E 5 SO4 A 1 204 1 SO4 SO4 . F 6 HOH A 1 301 78 HOH HOH . F 6 HOH A 2 302 88 HOH HOH . F 6 HOH A 3 303 37 HOH HOH . F 6 HOH A 4 304 68 HOH HOH . F 6 HOH A 5 305 21 HOH HOH . F 6 HOH A 6 306 30 HOH HOH . F 6 HOH A 7 307 7 HOH HOH . F 6 HOH A 8 308 64 HOH HOH . F 6 HOH A 9 309 3 HOH HOH . F 6 HOH A 10 310 80 HOH HOH . F 6 HOH A 11 311 16 HOH HOH . F 6 HOH A 12 312 5 HOH HOH . F 6 HOH A 13 313 86 HOH HOH . F 6 HOH A 14 314 57 HOH HOH . F 6 HOH A 15 315 41 HOH HOH . F 6 HOH A 16 316 18 HOH HOH . F 6 HOH A 17 317 6 HOH HOH . F 6 HOH A 18 318 11 HOH HOH . F 6 HOH A 19 319 28 HOH HOH . F 6 HOH A 20 320 8 HOH HOH . F 6 HOH A 21 321 26 HOH HOH . F 6 HOH A 22 322 40 HOH HOH . F 6 HOH A 23 323 22 HOH HOH . F 6 HOH A 24 324 32 HOH HOH . F 6 HOH A 25 325 49 HOH HOH . F 6 HOH A 26 326 31 HOH HOH . F 6 HOH A 27 327 43 HOH HOH . F 6 HOH A 28 328 59 HOH HOH . F 6 HOH A 29 329 13 HOH HOH . F 6 HOH A 30 330 34 HOH HOH . F 6 HOH A 31 331 52 HOH HOH . F 6 HOH A 32 332 44 HOH HOH . F 6 HOH A 33 333 51 HOH HOH . F 6 HOH A 34 334 72 HOH HOH . F 6 HOH A 35 335 55 HOH HOH . F 6 HOH A 36 336 50 HOH HOH . F 6 HOH A 37 337 42 HOH HOH . F 6 HOH A 38 338 33 HOH HOH . F 6 HOH A 39 339 1 HOH HOH . F 6 HOH A 40 340 25 HOH HOH . F 6 HOH A 41 341 23 HOH HOH . F 6 HOH A 42 342 9 HOH HOH . F 6 HOH A 43 343 27 HOH HOH . F 6 HOH A 44 344 4 HOH HOH . F 6 HOH A 45 345 58 HOH HOH . F 6 HOH A 46 346 35 HOH HOH . F 6 HOH A 47 347 17 HOH HOH . F 6 HOH A 48 348 77 HOH HOH . F 6 HOH A 49 349 2 HOH HOH . F 6 HOH A 50 350 46 HOH HOH . F 6 HOH A 51 351 39 HOH HOH . F 6 HOH A 52 352 85 HOH HOH . F 6 HOH A 53 353 20 HOH HOH . F 6 HOH A 54 354 45 HOH HOH . F 6 HOH A 55 355 19 HOH HOH . F 6 HOH A 56 356 56 HOH HOH . F 6 HOH A 57 357 15 HOH HOH . F 6 HOH A 58 358 12 HOH HOH . F 6 HOH A 59 359 66 HOH HOH . F 6 HOH A 60 360 81 HOH HOH . F 6 HOH A 61 361 14 HOH HOH . F 6 HOH A 62 362 47 HOH HOH . F 6 HOH A 63 363 10 HOH HOH . F 6 HOH A 64 364 24 HOH HOH . F 6 HOH A 65 365 29 HOH HOH . F 6 HOH A 66 366 83 HOH HOH . F 6 HOH A 67 367 62 HOH HOH . F 6 HOH A 68 368 69 HOH HOH . F 6 HOH A 69 369 48 HOH HOH . F 6 HOH A 70 370 61 HOH HOH . F 6 HOH A 71 371 87 HOH HOH . F 6 HOH A 72 372 65 HOH HOH . F 6 HOH A 73 373 89 HOH HOH . F 6 HOH A 74 374 60 HOH HOH . F 6 HOH A 75 375 75 HOH HOH . F 6 HOH A 76 376 79 HOH HOH . F 6 HOH A 77 377 53 HOH HOH . F 6 HOH A 78 378 67 HOH HOH . F 6 HOH A 79 379 71 HOH HOH . F 6 HOH A 80 380 54 HOH HOH . F 6 HOH A 81 381 84 HOH HOH . F 6 HOH A 82 382 63 HOH HOH . F 6 HOH A 83 383 74 HOH HOH . F 6 HOH A 84 384 70 HOH HOH . F 6 HOH A 85 385 73 HOH HOH . F 6 HOH A 86 386 76 HOH HOH . F 6 HOH A 87 387 82 HOH HOH . F 6 HOH A 88 388 36 HOH HOH . F 6 HOH A 89 389 38 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 PB GDP . . . D 4 27.787 -3.588 -15.262 1 21.28 ? PB GDP 203 A 1 HETATM 2 O O1B GDP . . . D 4 28.622 -3.015 -16.388 1 20.19 ? O1B GDP 203 A 1 HETATM 3 O O2B GDP . . . D 4 26.99 -4.788 -15.726 1 19.18 ? O2B GDP 203 A 1 HETATM 4 O O3B GDP . . . D 4 26.876 -2.505 -14.734 1 19.28 ? O3B GDP 203 A 1 HETATM 5 O O3A GDP . . . D 4 28.73 -4 -14.036 1 22.13 ? O3A GDP 203 A 1 HETATM 6 P PA GDP . . . D 4 29.206 -5.52 -13.723 1 23.41 ? PA GDP 203 A 1 HETATM 7 O O1A GDP . . . D 4 29.929 -6.062 -14.913 1 25.97 ? O1A GDP 203 A 1 HETATM 8 O O2A GDP . . . D 4 28.092 -6.401 -13.232 1 23.02 ? O2A GDP 203 A 1 HETATM 9 O O5' GDP . . . D 4 30.196 -5.194 -12.502 1 25.63 ? O5' GDP 203 A 1 HETATM 10 C C5' GDP . . . D 4 31.382 -4.445 -12.762 1 22.67 ? C5' GDP 203 A 1 HETATM 11 C C4' GDP . . . D 4 32.448 -4.815 -11.74 1 27.28 ? C4' GDP 203 A 1 HETATM 12 O O4' GDP . . . D 4 31.981 -4.439 -10.447 1 24.15 ? O4' GDP 203 A 1 HETATM 13 C C3' GDP . . . D 4 32.674 -6.315 -11.697 1 27.38 ? C3' GDP 203 A 1 HETATM 14 O O3' GDP . . . D 4 34.066 -6.574 -11.486 1 28.16 ? O3' GDP 203 A 1 HETATM 15 C C2' GDP . . . D 4 31.896 -6.781 -10.486 1 28.03 ? C2' GDP 203 A 1 HETATM 16 O O2' GDP . . . D 4 32.506 -7.934 -9.905 1 31.47 ? O2' GDP 203 A 1 HETATM 17 C C1' GDP . . . D 4 31.951 -5.568 -9.572 1 26.67 ? C1' GDP 203 A 1 HETATM 18 N N9 GDP . . . D 4 30.752 -5.455 -8.721 1 24.57 ? N9 GDP 203 A 1 HETATM 19 C C8 GDP . . . D 4 29.47 -5.463 -9.144 1 24.87 ? C8 GDP 203 A 1 HETATM 20 N N7 GDP . . . D 4 28.615 -5.32 -8.101 1 24.49 ? N7 GDP 203 A 1 HETATM 21 C C5 GDP . . . D 4 29.362 -5.206 -6.986 1 25.93 ? C5 GDP 203 A 1 HETATM 22 C C6 GDP . . . D 4 29.1 -5.03 -5.546 1 25.93 ? C6 GDP 203 A 1 HETATM 23 O O6 GDP . . . D 4 27.927 -4.95 -5.124 1 25.68 ? O6 GDP 203 A 1 HETATM 24 N N1 GDP . . . D 4 30.156 -4.959 -4.72 1 27.56 ? N1 GDP 203 A 1 HETATM 25 C C2 GDP . . . D 4 31.426 -5.048 -5.165 1 28.62 ? C2 GDP 203 A 1 HETATM 26 N N2 GDP . . . D 4 32.451 -4.976 -4.281 1 32.03 ? N2 GDP 203 A 1 HETATM 27 N N3 GDP . . . D 4 31.738 -5.199 -6.469 1 24.71 ? N3 GDP 203 A 1 HETATM 28 C C4 GDP . . . D 4 30.767 -5.294 -7.402 1 26.87 ? C4 GDP 203 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 28 #