data_2B6H
#
_model_server_result.job_id            lB0IHEHgPzwSqV_wzzqsgQ 
_model_server_result.datetime_utc      '2025-02-05 18:57:39' 
_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          2b6h 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":202}' 
#
_entry.id    2B6H 
#
_exptl.entry_id    2B6H 
_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            2B6H 
_cell.length_a            64.996 
_cell.length_b            81.64 
_cell.length_c            84.399 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2B6H 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
PISA,PQS dimeric 2 software_defined_assembly 2 
PISA dimeric 2 software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H,I,J,K 1 1 
A,B,C,D,E,F,G,H,I,J,K 2 1,2 
A,B,C,D,E,F,G,H,I,J,K 3 1,3 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 3_555 -x,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 0 42.1995 
3 'crystal symmetry operation' 4_566 x,-y+1,-z+1 1 0 0 0 -1 0 0 0 -1 0 81.64 84.399 
#
_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 
#
_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                     2B6H 
_atom_sites.fract_transf_matrix[1][1]    0.015386 
_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]    0.012249 
_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]    0.011848 
_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 CL A 1 190 190 CL CL . 
C 3 SO4 A 1 201 201 SO4 SO4 . 
D 4 GDP A 1 202 202 GDP GDP . 
E 5 UNX A 1 301 301 UNX UNX . 
F 5 UNX A 1 302 302 UNX UNX . 
G 5 UNX A 1 303 303 UNX UNX . 
H 5 UNX A 1 304 304 UNX UNX . 
I 5 UNX A 1 305 305 UNX UNX . 
J 5 UNX A 1 306 306 UNX UNX . 
K 6 HOH A 1 307 1 HOH HOH . 
K 6 HOH A 2 308 2 HOH HOH . 
K 6 HOH A 3 309 3 HOH HOH . 
K 6 HOH A 4 310 4 HOH HOH . 
K 6 HOH A 5 311 5 HOH HOH . 
K 6 HOH A 6 312 6 HOH HOH . 
K 6 HOH A 7 313 7 HOH HOH . 
K 6 HOH A 8 314 8 HOH HOH . 
K 6 HOH A 9 315 9 HOH HOH . 
K 6 HOH A 10 316 10 HOH HOH . 
K 6 HOH A 11 317 11 HOH HOH . 
K 6 HOH A 12 318 12 HOH HOH . 
K 6 HOH A 13 319 13 HOH HOH . 
K 6 HOH A 14 320 14 HOH HOH . 
K 6 HOH A 15 321 15 HOH HOH . 
K 6 HOH A 16 322 16 HOH HOH . 
K 6 HOH A 17 323 17 HOH HOH . 
K 6 HOH A 18 324 18 HOH HOH . 
K 6 HOH A 19 325 19 HOH HOH . 
K 6 HOH A 20 326 20 HOH HOH . 
K 6 HOH A 21 327 21 HOH HOH . 
K 6 HOH A 22 328 22 HOH HOH . 
K 6 HOH A 23 329 23 HOH HOH . 
K 6 HOH A 24 330 24 HOH HOH . 
K 6 HOH A 25 331 25 HOH HOH . 
K 6 HOH A 26 332 26 HOH HOH . 
K 6 HOH A 27 333 27 HOH HOH . 
K 6 HOH A 28 334 28 HOH HOH . 
K 6 HOH A 29 335 29 HOH HOH . 
K 6 HOH A 30 336 30 HOH HOH . 
K 6 HOH A 31 337 31 HOH HOH . 
K 6 HOH A 32 338 32 HOH HOH . 
K 6 HOH A 33 339 33 HOH HOH . 
K 6 HOH A 34 340 34 HOH HOH . 
K 6 HOH A 35 341 35 HOH HOH . 
K 6 HOH A 36 342 36 HOH HOH . 
K 6 HOH A 37 343 37 HOH HOH . 
K 6 HOH A 38 344 38 HOH HOH . 
K 6 HOH A 39 345 39 HOH HOH . 
K 6 HOH A 40 346 40 HOH HOH . 
K 6 HOH A 41 347 41 HOH HOH . 
K 6 HOH A 42 348 42 HOH HOH . 
K 6 HOH A 43 349 43 HOH HOH . 
K 6 HOH A 44 350 44 HOH HOH . 
K 6 HOH A 45 351 45 HOH HOH . 
K 6 HOH A 46 352 46 HOH HOH . 
K 6 HOH A 47 353 47 HOH HOH . 
K 6 HOH A 48 354 48 HOH HOH . 
K 6 HOH A 49 355 49 HOH HOH . 
K 6 HOH A 50 356 50 HOH HOH . 
K 6 HOH A 51 357 51 HOH HOH . 
K 6 HOH A 52 358 52 HOH HOH . 
K 6 HOH A 53 359 53 HOH HOH . 
K 6 HOH A 54 360 54 HOH HOH . 
K 6 HOH A 55 361 55 HOH HOH . 
K 6 HOH A 56 362 56 HOH HOH . 
K 6 HOH A 57 363 57 HOH HOH . 
K 6 HOH A 58 364 58 HOH HOH . 
K 6 HOH A 59 365 59 HOH HOH . 
K 6 HOH A 60 366 60 HOH HOH . 
K 6 HOH A 61 367 61 HOH HOH . 
K 6 HOH A 62 368 62 HOH HOH . 
K 6 HOH A 63 369 63 HOH HOH . 
K 6 HOH A 64 370 64 HOH HOH . 
K 6 HOH A 65 371 65 HOH HOH . 
K 6 HOH A 66 372 66 HOH HOH . 
K 6 HOH A 67 373 67 HOH HOH . 
K 6 HOH A 68 374 68 HOH HOH . 
K 6 HOH A 69 375 69 HOH HOH . 
K 6 HOH A 70 376 70 HOH HOH . 
K 6 HOH A 71 377 71 HOH HOH . 
K 6 HOH A 72 378 72 HOH HOH . 
K 6 HOH A 73 379 73 HOH HOH . 
K 6 HOH A 74 380 74 HOH HOH . 
K 6 HOH A 75 381 75 HOH HOH . 
K 6 HOH A 76 382 76 HOH HOH . 
K 6 HOH A 77 383 77 HOH HOH . 
K 6 HOH A 78 384 78 HOH HOH . 
K 6 HOH A 79 385 79 HOH HOH . 
K 6 HOH A 80 386 80 HOH HOH . 
K 6 HOH A 81 387 81 HOH HOH . 
K 6 HOH A 82 388 82 HOH HOH . 
K 6 HOH A 83 389 83 HOH HOH . 
K 6 HOH A 84 390 84 HOH HOH . 
K 6 HOH A 85 391 85 HOH HOH . 
K 6 HOH A 86 392 86 HOH HOH . 
K 6 HOH A 87 393 87 HOH HOH . 
K 6 HOH A 88 394 88 HOH HOH . 
K 6 HOH A 89 395 89 HOH HOH . 
K 6 HOH A 90 396 90 HOH HOH . 
K 6 HOH A 91 397 91 HOH HOH . 
K 6 HOH A 92 398 92 HOH HOH . 
K 6 HOH A 93 399 93 HOH HOH . 
K 6 HOH A 94 400 94 HOH HOH . 
K 6 HOH A 95 401 95 HOH HOH . 
K 6 HOH A 96 402 96 HOH HOH . 
K 6 HOH A 97 403 97 HOH HOH . 
K 6 HOH A 98 404 98 HOH HOH . 
K 6 HOH A 99 405 99 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 8.278 36.665 37.05 1 12.31 ? PB GDP 202 A 1 
HETATM 2 O O1B GDP . . . D 4 9.201 37.319 38.07 1 11.23 ? O1B GDP 202 A 1 
HETATM 3 O O2B GDP . . . D 4 8.601 35.218 36.837 1 10.17 ? O2B GDP 202 A 1 
HETATM 4 O O3B GDP . . . D 4 6.832 36.876 37.407 1 9.59 ? O3B GDP 202 A 1 
HETATM 5 O O3A GDP . . . D 4 8.606 37.352 35.598 1 11.23 ? O3A GDP 202 A 1 
HETATM 6 P PA GDP . . . D 4 7.763 38.523 34.848 1 13.24 ? PA GDP 202 A 1 
HETATM 7 O O1A GDP . . . D 4 7.508 39.712 35.762 1 13.71 ? O1A GDP 202 A 1 
HETATM 8 O O2A GDP . . . D 4 6.504 37.994 34.264 1 12.9 ? O2A GDP 202 A 1 
HETATM 9 O O5' GDP . . . D 4 8.734 38.822 33.605 1 11.4 ? O5' GDP 202 A 1 
HETATM 10 C C5' GDP . . . D 4 10.074 39.307 33.845 1 12.88 ? C5' GDP 202 A 1 
HETATM 11 C C4' GDP . . . D 4 10.535 40.104 32.617 1 11.95 ? C4' GDP 202 A 1 
HETATM 12 O O4' GDP . . . D 4 10.704 39.21 31.523 1 13.17 ? O4' GDP 202 A 1 
HETATM 13 C C3' GDP . . . D 4 9.574 41.178 32.116 1 14.18 ? C3' GDP 202 A 1 
HETATM 14 O O3' GDP . . . D 4 10.328 42.309 31.64 1 14.5 ? O3' GDP 202 A 1 
HETATM 15 C C2' GDP . . . D 4 8.819 40.514 30.967 1 14.13 ? C2' GDP 202 A 1 
HETATM 16 O O2' GDP . . . D 4 8.247 41.385 29.956 1 13.33 ? O2' GDP 202 A 1 
HETATM 17 C C1' GDP . . . D 4 9.94 39.673 30.417 1 12.52 ? C1' GDP 202 A 1 
HETATM 18 N N9 GDP . . . D 4 9.478 38.484 29.664 1 12.13 ? N9 GDP 202 A 1 
HETATM 19 C C8 GDP . . . D 4 8.562 37.579 30.012 1 12.21 ? C8 GDP 202 A 1 
HETATM 20 N N7 GDP . . . D 4 8.465 36.631 29.051 1 10.49 ? N7 GDP 202 A 1 
HETATM 21 C C5 GDP . . . D 4 9.279 36.985 28.051 1 11.85 ? C5 GDP 202 A 1 
HETATM 22 C C6 GDP . . . D 4 9.643 36.422 26.742 1 12.37 ? C6 GDP 202 A 1 
HETATM 23 O O6 GDP . . . D 4 9.119 35.367 26.306 1 9.55 ? O6 GDP 202 A 1 
HETATM 24 N N1 GDP . . . D 4 10.585 37.059 26.04 1 12.79 ? N1 GDP 202 A 1 
HETATM 25 C C2 GDP . . . D 4 11.196 38.175 26.471 1 12.45 ? C2 GDP 202 A 1 
HETATM 26 N N2 GDP . . . D 4 12.125 38.725 25.666 1 13.27 ? N2 GDP 202 A 1 
HETATM 27 N N3 GDP . . . D 4 10.907 38.759 27.654 1 11.61 ? N3 GDP 202 A 1 
HETATM 28 C C4 GDP . . . D 4 9.975 38.179 28.476 1 13.1 ? C4 GDP 202 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           339 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           28 
#