data_6ASE
#
_model_server_result.job_id            vV_4HHWvtqAcpFy7dvuRQQ 
_model_server_result.datetime_utc      '2025-08-01 12:18:41' 
_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          6ase 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":202}' 
#
_entry.id    6ASE 
#
_exptl.entry_id    6ASE 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              443.201 
_entity.id                          3 
_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            6ASE 
_cell.length_a            34.434 
_cell.length_b            47.428 
_cell.length_c            89.703 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6ASE 
_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    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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                      3 
_struct_asym.id                             C 
_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
metalc ? metalc1 A OG SER 18 A SER 17 1_555 B MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
metalc ? metalc2 B MG MG . A MG 201 1_555 C O1B GDP . A GDP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
metalc ? metalc3 B MG MG . A MG 201 1_555 D O HOH . A HOH 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? 
metalc ? metalc4 B MG MG . A MG 201 1_555 D O HOH . A HOH 323 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? 
metalc ? metalc5 B MG MG . A MG 201 1_555 D O HOH . A HOH 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? 
metalc ? metalc6 B MG MG . A MG 201 1_555 D O HOH . A HOH 362 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? 
#
_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                     6ASE 
_atom_sites.fract_transf_matrix[1][1]    0.029041 
_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]    0.021085 
_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]    0.011148 
_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 1 MG MG . 
C 3 GDP A 1 202 2 GDP GDP . 
D 4 HOH A 1 301 91 HOH HOH . 
D 4 HOH A 2 302 103 HOH HOH . 
D 4 HOH A 3 303 39 HOH HOH . 
D 4 HOH A 4 304 58 HOH HOH . 
D 4 HOH A 5 305 37 HOH HOH . 
D 4 HOH A 6 306 74 HOH HOH . 
D 4 HOH A 7 307 97 HOH HOH . 
D 4 HOH A 8 308 26 HOH HOH . 
D 4 HOH A 9 309 66 HOH HOH . 
D 4 HOH A 10 310 4 HOH HOH . 
D 4 HOH A 11 311 28 HOH HOH . 
D 4 HOH A 12 312 6 HOH HOH . 
D 4 HOH A 13 313 30 HOH HOH . 
D 4 HOH A 14 314 43 HOH HOH . 
D 4 HOH A 15 315 17 HOH HOH . 
D 4 HOH A 16 316 101 HOH HOH . 
D 4 HOH A 17 317 75 HOH HOH . 
D 4 HOH A 18 318 82 HOH HOH . 
D 4 HOH A 19 319 98 HOH HOH . 
D 4 HOH A 20 320 8 HOH HOH . 
D 4 HOH A 21 321 25 HOH HOH . 
D 4 HOH A 22 322 52 HOH HOH . 
D 4 HOH A 23 323 3 HOH HOH . 
D 4 HOH A 24 324 76 HOH HOH . 
D 4 HOH A 25 325 9 HOH HOH . 
D 4 HOH A 26 326 95 HOH HOH . 
D 4 HOH A 27 327 20 HOH HOH . 
D 4 HOH A 28 328 46 HOH HOH . 
D 4 HOH A 29 329 36 HOH HOH . 
D 4 HOH A 30 330 73 HOH HOH . 
D 4 HOH A 31 331 19 HOH HOH . 
D 4 HOH A 32 332 63 HOH HOH . 
D 4 HOH A 33 333 83 HOH HOH . 
D 4 HOH A 34 334 78 HOH HOH . 
D 4 HOH A 35 335 23 HOH HOH . 
D 4 HOH A 36 336 56 HOH HOH . 
D 4 HOH A 37 337 42 HOH HOH . 
D 4 HOH A 38 338 57 HOH HOH . 
D 4 HOH A 39 339 1 HOH HOH . 
D 4 HOH A 40 340 7 HOH HOH . 
D 4 HOH A 41 341 47 HOH HOH . 
D 4 HOH A 42 342 12 HOH HOH . 
D 4 HOH A 43 343 24 HOH HOH . 
D 4 HOH A 44 344 11 HOH HOH . 
D 4 HOH A 45 345 31 HOH HOH . 
D 4 HOH A 46 346 35 HOH HOH . 
D 4 HOH A 47 347 59 HOH HOH . 
D 4 HOH A 48 348 5 HOH HOH . 
D 4 HOH A 49 349 50 HOH HOH . 
D 4 HOH A 50 350 21 HOH HOH . 
D 4 HOH A 51 351 72 HOH HOH . 
D 4 HOH A 52 352 22 HOH HOH . 
D 4 HOH A 53 353 84 HOH HOH . 
D 4 HOH A 54 354 104 HOH HOH . 
D 4 HOH A 55 355 16 HOH HOH . 
D 4 HOH A 56 356 87 HOH HOH . 
D 4 HOH A 57 357 40 HOH HOH . 
D 4 HOH A 58 358 102 HOH HOH . 
D 4 HOH A 59 359 105 HOH HOH . 
D 4 HOH A 60 360 49 HOH HOH . 
D 4 HOH A 61 361 77 HOH HOH . 
D 4 HOH A 62 362 2 HOH HOH . 
D 4 HOH A 63 363 99 HOH HOH . 
D 4 HOH A 64 364 107 HOH HOH . 
D 4 HOH A 65 365 18 HOH HOH . 
D 4 HOH A 66 366 48 HOH HOH . 
D 4 HOH A 67 367 34 HOH HOH . 
D 4 HOH A 68 368 67 HOH HOH . 
D 4 HOH A 69 369 13 HOH HOH . 
D 4 HOH A 70 370 45 HOH HOH . 
D 4 HOH A 71 371 14 HOH HOH . 
D 4 HOH A 72 372 68 HOH HOH . 
D 4 HOH A 73 373 15 HOH HOH . 
D 4 HOH A 74 374 64 HOH HOH . 
D 4 HOH A 75 375 79 HOH HOH . 
D 4 HOH A 76 376 96 HOH HOH . 
D 4 HOH A 77 377 109 HOH HOH . 
D 4 HOH A 78 378 32 HOH HOH . 
D 4 HOH A 79 379 41 HOH HOH . 
D 4 HOH A 80 380 10 HOH HOH . 
D 4 HOH A 81 381 29 HOH HOH . 
D 4 HOH A 82 382 38 HOH HOH . 
D 4 HOH A 83 383 61 HOH HOH . 
D 4 HOH A 84 384 51 HOH HOH . 
D 4 HOH A 85 385 93 HOH HOH . 
D 4 HOH A 86 386 94 HOH HOH . 
D 4 HOH A 87 387 81 HOH HOH . 
D 4 HOH A 88 388 27 HOH HOH . 
D 4 HOH A 89 389 62 HOH HOH . 
D 4 HOH A 90 390 33 HOH HOH . 
D 4 HOH A 91 391 44 HOH HOH . 
D 4 HOH A 92 392 89 HOH HOH . 
D 4 HOH A 93 393 86 HOH HOH . 
D 4 HOH A 94 394 70 HOH HOH . 
D 4 HOH A 95 395 54 HOH HOH . 
D 4 HOH A 96 396 53 HOH HOH . 
D 4 HOH A 97 397 80 HOH HOH . 
D 4 HOH A 98 398 92 HOH HOH . 
D 4 HOH A 99 399 108 HOH HOH . 
D 4 HOH A 100 400 90 HOH HOH . 
D 4 HOH A 101 401 65 HOH HOH . 
D 4 HOH A 102 402 69 HOH HOH . 
D 4 HOH A 103 403 55 HOH HOH . 
D 4 HOH A 104 404 88 HOH HOH . 
D 4 HOH A 105 405 106 HOH HOH . 
D 4 HOH A 106 406 71 HOH HOH . 
D 4 HOH A 107 407 100 HOH HOH . 
D 4 HOH A 108 408 85 HOH HOH . 
D 4 HOH A 109 409 60 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 . . . C 3 -6.732 13.071 -14.56 1 22.7 ? PB GDP 202 A 1 
HETATM 2 O O1B GDP . . . C 3 -7.339 13.075 -13.163 1 20.65 ? O1B GDP 202 A 1 
HETATM 3 O O2B GDP . . . C 3 -6.489 11.697 -15.142 1 21.05 ? O2B GDP 202 A 1 
HETATM 4 O O3B GDP . . . C 3 -5.467 13.869 -14.709 1 25.97 ? O3B GDP 202 A 1 
HETATM 5 O O3A GDP . . . C 3 -7.844 13.682 -15.544 1 23.78 ? O3A GDP 202 A 1 
HETATM 6 P PA GDP . . . C 3 -8.884 14.842 -15.169 1 26.12 ? PA GDP 202 A 1 
HETATM 7 O O1A GDP . . . C 3 -10.087 14.275 -14.446 1 25.09 ? O1A GDP 202 A 1 
HETATM 8 O O2A GDP . . . C 3 -8.136 15.96 -14.481 1 22.21 ? O2A GDP 202 A 1 
HETATM 9 O O5' GDP . . . C 3 -9.385 15.286 -16.634 1 25.09 ? O5' GDP 202 A 1 
HETATM 10 C C5' GDP . . . C 3 -8.472 15.905 -17.533 1 28.57 ? C5' GDP 202 A 1 
HETATM 11 C C4' GDP . . . C 3 -9.296 16.627 -18.586 1 23.11 ? C4' GDP 202 A 1 
HETATM 12 O O4' GDP . . . C 3 -10.019 15.666 -19.357 1 27.77 ? O4' GDP 202 A 1 
HETATM 13 C C3' GDP . . . C 3 -10.325 17.553 -17.957 1 24.84 ? C3' GDP 202 A 1 
HETATM 14 O O3' GDP . . . C 3 -10.366 18.77 -18.715 1 33.09 ? O3' GDP 202 A 1 
HETATM 15 C C2' GDP . . . C 3 -11.659 16.872 -18.149 1 28.63 ? C2' GDP 202 A 1 
HETATM 16 O O2' GDP . . . C 3 -12.656 17.85 -18.459 1 34.07 ? O2' GDP 202 A 1 
HETATM 17 C C1' GDP . . . C 3 -11.416 15.952 -19.334 1 27.06 ? C1' GDP 202 A 1 
HETATM 18 N N9 GDP . . . C 3 -12.199 14.693 -19.285 1 27.52 ? N9 GDP 202 A 1 
HETATM 19 C C8 GDP . . . C 3 -12.239 13.773 -18.296 1 28.11 ? C8 GDP 202 A 1 
HETATM 20 N N7 GDP . . . C 3 -13.066 12.765 -18.621 1 26.19 ? N7 GDP 202 A 1 
HETATM 21 C C5 GDP . . . C 3 -13.568 13.071 -19.875 1 25.74 ? C5 GDP 202 A 1 
HETATM 22 C C6 GDP . . . C 3 -14.459 12.402 -20.709 1 30.97 ? C6 GDP 202 A 1 
HETATM 23 O O6 GDP . . . C 3 -14.945 11.316 -20.334 1 25.38 ? O6 GDP 202 A 1 
HETATM 24 N N1 GDP . . . C 3 -14.814 12.891 -21.901 1 27.59 ? N1 GDP 202 A 1 
HETATM 25 C C2 GDP . . . C 3 -14.248 14.065 -22.236 1 29.14 ? C2 GDP 202 A 1 
HETATM 26 N N2 GDP . . . C 3 -14.583 14.585 -23.445 1 28.07 ? N2 GDP 202 A 1 
HETATM 27 N N3 GDP . . . C 3 -13.367 14.796 -21.496 1 27.03 ? N3 GDP 202 A 1 
HETATM 28 C C4 GDP . . . C 3 -13.03 14.264 -20.286 1 29.86 ? C4 GDP 202 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           245 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           28 
#