data_3C21
#
_model_server_result.job_id            x_kEEjgdpXJqY1gt0n_zGQ 
_model_server_result.datetime_utc      '2024-11-25 22:38:31' 
_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          3c21 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":358}' 
#
_entry.id    3C21 
#
_exptl.entry_id    3C21 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              658.412 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "(2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide" 
_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            3C21 
_cell.length_a            109.08 
_cell.length_b            109.08 
_cell.length_c            165.88 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3C21 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        90 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 4 21 2' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? octameric 8 author_defined_assembly 1 
PISA monomeric 1 software_defined_assembly 2 
PISA monomeric 1 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 1 1,2,3,4 
A,C,D 2 1 
B,E 3 1 
#
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' 2_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 0 -109.08 0 
3 'crystal symmetry operation' 3_445 -y-1/2,x-1/2,z 0 -1 0 1 0 0 0 0 1 -54.54 -54.54 0 
4 'crystal symmetry operation' 4_545 y+1/2,-x-1/2,z 0 1 0 -1 0 0 0 0 1 54.54 -54.54 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C20 H24 N10 O12 P2' 
_chem_comp.formula_weight    658.412 
_chem_comp.id                2BA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "(2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "bis-(3',5')-cyclic-dimeric-Adenosine-monophosphate" 
#
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
P O1P 2BA doub 1 n n 
P O2P 2BA sing 2 n n 
P O5' 2BA sing 3 n n 
P "O3'1" 2BA sing 4 n n 
O5' C5' 2BA sing 5 n n 
C5' C4' 2BA sing 6 n n 
C4' O4' 2BA sing 7 n n 
C4' C3' 2BA sing 8 n n 
O4' C1' 2BA sing 9 n n 
C3' O3' 2BA sing 10 n n 
C3' C2' 2BA sing 11 n n 
O3' P1 2BA sing 12 n n 
C2' O2' 2BA sing 13 n n 
C2' C1' 2BA sing 14 n n 
C1' N9 2BA sing 15 n n 
N9 C8 2BA sing 16 n y 
N9 C4 2BA sing 17 n y 
C8 N7 2BA doub 18 n y 
N7 C5 2BA sing 19 n y 
C5 C6 2BA doub 20 n y 
C5 C4 2BA sing 21 n y 
C6 N6 2BA sing 22 n n 
C6 N1 2BA sing 23 n y 
N1 C2 2BA doub 24 n y 
C2 N3 2BA sing 25 n y 
N3 C4 2BA doub 26 n y 
P1 O1P1 2BA doub 27 n n 
P1 O2P1 2BA sing 28 n n 
P1 "O5'1" 2BA sing 29 n n 
"O5'1" "C5'1" 2BA sing 30 n n 
"C5'1" "C4'1" 2BA sing 31 n n 
"C4'1" "O4'1" 2BA sing 32 n n 
"C4'1" "C3'1" 2BA sing 33 n n 
"O4'1" "C1'1" 2BA sing 34 n n 
"C3'1" "O3'1" 2BA sing 35 n n 
"C3'1" "C2'1" 2BA sing 36 n n 
"C2'1" "O2'1" 2BA sing 37 n n 
"C2'1" "C1'1" 2BA sing 38 n n 
"C1'1" N91 2BA sing 39 n n 
N91 C81 2BA sing 40 n y 
N91 C41 2BA sing 41 n y 
C81 N71 2BA doub 42 n y 
N71 C51 2BA sing 43 n y 
C51 C61 2BA doub 44 n y 
C51 C41 2BA sing 45 n y 
C61 N61 2BA sing 46 n n 
C61 N11 2BA sing 47 n y 
N11 C21 2BA doub 48 n y 
C21 N31 2BA sing 49 n y 
N31 C41 2BA doub 50 n y 
C5' H5' 2BA sing 51 n n 
C5' "H5'A" 2BA sing 52 n n 
C4' H4' 2BA sing 53 n n 
C3' H3' 2BA sing 54 n n 
C2' H2' 2BA sing 55 n n 
O2' HO2' 2BA sing 56 n n 
C1' H1' 2BA sing 57 n n 
C8 H8 2BA sing 58 n n 
N6 HN6 2BA sing 59 n n 
N6 HN6A 2BA sing 60 n n 
C2 H2 2BA sing 61 n n 
"C5'1" HC5' 2BA sing 62 n n 
"C5'1" HC5A 2BA sing 63 n n 
"C4'1" HC4' 2BA sing 64 n n 
"C3'1" HC3' 2BA sing 65 n n 
"C2'1" HC2' 2BA sing 66 n n 
"O2'1" HO2A 2BA sing 67 n n 
"C1'1" HC1' 2BA sing 68 n n 
C81 HC8 2BA sing 69 n n 
N61 H1N6 2BA sing 70 n n 
N61 H1NA 2BA sing 71 n n 
C21 HC2 2BA sing 72 n n 
O2P H2P 2BA sing 73 n n 
O2P1 H2OP 2BA sing 74 n n 
#
_atom_sites.entry_id                     3C21 
_atom_sites.fract_transf_matrix[1][1]    0.009168 
_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]    0.009168 
_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]    0.006028 
_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
C 2 2BA A 1 358 1 2BA 2BA . 
D 3 HOH A 1 359 2 HOH TIP . 
D 3 HOH A 2 360 4 HOH TIP . 
D 3 HOH A 3 361 8 HOH TIP . 
D 3 HOH A 4 362 12 HOH TIP . 
D 3 HOH A 5 363 13 HOH TIP . 
D 3 HOH A 6 364 16 HOH TIP . 
D 3 HOH A 7 365 17 HOH TIP . 
D 3 HOH A 8 366 19 HOH TIP . 
D 3 HOH A 9 367 20 HOH TIP . 
D 3 HOH A 10 368 22 HOH TIP . 
D 3 HOH A 11 369 26 HOH TIP . 
D 3 HOH A 12 370 28 HOH TIP . 
D 3 HOH A 13 371 29 HOH TIP . 
D 3 HOH A 14 372 30 HOH TIP . 
D 3 HOH A 15 373 31 HOH TIP . 
D 3 HOH A 16 374 33 HOH TIP . 
D 3 HOH A 17 375 36 HOH TIP . 
D 3 HOH A 18 376 39 HOH TIP . 
D 3 HOH A 19 377 40 HOH TIP . 
D 3 HOH A 20 378 41 HOH TIP . 
D 3 HOH A 21 379 42 HOH TIP . 
D 3 HOH A 22 380 43 HOH TIP . 
D 3 HOH A 23 381 46 HOH TIP . 
D 3 HOH A 24 382 48 HOH TIP . 
D 3 HOH A 25 383 51 HOH TIP . 
D 3 HOH A 26 384 52 HOH TIP . 
D 3 HOH A 27 385 53 HOH TIP . 
D 3 HOH A 28 386 54 HOH TIP . 
D 3 HOH A 29 387 59 HOH TIP . 
D 3 HOH A 30 388 60 HOH TIP . 
D 3 HOH A 31 389 64 HOH TIP . 
D 3 HOH A 32 390 66 HOH TIP . 
D 3 HOH A 33 391 67 HOH TIP . 
D 3 HOH A 34 392 68 HOH TIP . 
D 3 HOH A 35 393 72 HOH TIP . 
D 3 HOH A 36 394 73 HOH TIP . 
D 3 HOH A 37 395 76 HOH TIP . 
D 3 HOH A 38 396 77 HOH TIP . 
D 3 HOH A 39 397 78 HOH TIP . 
D 3 HOH A 40 398 81 HOH TIP . 
D 3 HOH A 41 399 86 HOH TIP . 
D 3 HOH A 42 400 88 HOH TIP . 
D 3 HOH A 43 401 91 HOH TIP . 
D 3 HOH A 44 402 92 HOH TIP . 
D 3 HOH A 45 403 93 HOH TIP . 
D 3 HOH A 46 404 94 HOH TIP . 
D 3 HOH A 47 405 95 HOH TIP . 
D 3 HOH A 48 406 99 HOH TIP . 
D 3 HOH A 49 407 100 HOH TIP . 
D 3 HOH A 50 408 101 HOH TIP . 
D 3 HOH A 51 409 103 HOH TIP . 
E 3 HOH B 1 358 1 HOH TIP . 
E 3 HOH B 2 359 3 HOH TIP . 
E 3 HOH B 3 360 5 HOH TIP . 
E 3 HOH B 4 361 6 HOH TIP . 
E 3 HOH B 5 362 7 HOH TIP . 
E 3 HOH B 6 363 9 HOH TIP . 
E 3 HOH B 7 364 10 HOH TIP . 
E 3 HOH B 8 365 11 HOH TIP . 
E 3 HOH B 9 366 14 HOH TIP . 
E 3 HOH B 10 367 15 HOH TIP . 
E 3 HOH B 11 368 18 HOH TIP . 
E 3 HOH B 12 369 21 HOH TIP . 
E 3 HOH B 13 370 23 HOH TIP . 
E 3 HOH B 14 371 24 HOH TIP . 
E 3 HOH B 15 372 25 HOH TIP . 
E 3 HOH B 16 373 27 HOH TIP . 
E 3 HOH B 17 374 32 HOH TIP . 
E 3 HOH B 18 375 34 HOH TIP . 
E 3 HOH B 19 376 35 HOH TIP . 
E 3 HOH B 20 377 37 HOH TIP . 
E 3 HOH B 21 378 38 HOH TIP . 
E 3 HOH B 22 379 44 HOH TIP . 
E 3 HOH B 23 380 45 HOH TIP . 
E 3 HOH B 24 381 47 HOH TIP . 
E 3 HOH B 25 382 49 HOH TIP . 
E 3 HOH B 26 383 50 HOH TIP . 
E 3 HOH B 27 384 55 HOH TIP . 
E 3 HOH B 28 385 56 HOH TIP . 
E 3 HOH B 29 386 57 HOH TIP . 
E 3 HOH B 30 387 58 HOH TIP . 
E 3 HOH B 31 388 61 HOH TIP . 
E 3 HOH B 32 389 62 HOH TIP . 
E 3 HOH B 33 390 63 HOH TIP . 
E 3 HOH B 34 391 65 HOH TIP . 
E 3 HOH B 35 392 69 HOH TIP . 
E 3 HOH B 36 393 70 HOH TIP . 
E 3 HOH B 37 394 71 HOH TIP . 
E 3 HOH B 38 395 74 HOH TIP . 
E 3 HOH B 39 396 75 HOH TIP . 
E 3 HOH B 40 397 79 HOH TIP . 
E 3 HOH B 41 398 80 HOH TIP . 
E 3 HOH B 42 399 82 HOH TIP . 
E 3 HOH B 43 400 83 HOH TIP . 
E 3 HOH B 44 401 84 HOH TIP . 
E 3 HOH B 45 402 85 HOH TIP . 
E 3 HOH B 46 403 87 HOH TIP . 
E 3 HOH B 47 404 89 HOH TIP . 
E 3 HOH B 48 405 90 HOH TIP . 
E 3 HOH B 49 406 96 HOH TIP . 
E 3 HOH B 50 407 97 HOH TIP . 
E 3 HOH B 51 408 98 HOH TIP . 
E 3 HOH B 52 409 102 HOH TIP . 
E 3 HOH B 53 410 104 HOH TIP . 
#
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 P 2BA . . . C 2 -10.959 -37.962 -41.764 1 47.05 ? P 2BA 358 A 1 
HETATM 2 O O1P 2BA . . . C 2 -10.957 -36.519 -41.362 1 50.89 ? O1P 2BA 358 A 1 
HETATM 3 O O2P 2BA . . . C 2 -9.804 -38.685 -41.101 1 49.39 ? O2P 2BA 358 A 1 
HETATM 4 O O5' 2BA . . . C 2 -12.28 -38.673 -41.317 1 44.79 ? O5' 2BA 358 A 1 
HETATM 5 C C5' 2BA . . . C 2 -12.413 -40.049 -41.607 1 41.5 ? C5' 2BA 358 A 1 
HETATM 6 C C4' 2BA . . . C 2 -13.809 -40.658 -41.52 1 41.08 ? C4' 2BA 358 A 1 
HETATM 7 O O4' 2BA . . . C 2 -14.509 -40.106 -40.429 1 38.67 ? O4' 2BA 358 A 1 
HETATM 8 C C3' 2BA . . . C 2 -14.655 -40.417 -42.745 1 40.38 ? C3' 2BA 358 A 1 
HETATM 9 O O3' 2BA . . . C 2 -14.049 -41.055 -43.893 1 46.81 ? O3' 2BA 358 A 1 
HETATM 10 C C2' 2BA . . . C 2 -16.015 -40.757 -42.136 1 35.89 ? C2' 2BA 358 A 1 
HETATM 11 O O2' 2BA . . . C 2 -16.308 -42.152 -42.136 1 35.06 ? O2' 2BA 358 A 1 
HETATM 12 C C1' 2BA . . . C 2 -15.926 -40.184 -40.724 1 34.62 ? C1' 2BA 358 A 1 
HETATM 13 N N9 2BA . . . C 2 -16.534 -38.59 -40.744 1 32.09 ? N9 2BA 358 A 1 
HETATM 14 C C8 2BA . . . C 2 -16.048 -37.306 -40.59 1 32.08 ? C8 2BA 358 A 1 
HETATM 15 N N7 2BA . . . C 2 -17.002 -36.445 -40.69 1 33.46 ? N7 2BA 358 A 1 
HETATM 16 C C5 2BA . . . C 2 -18.164 -37.092 -40.898 1 30.34 ? C5 2BA 358 A 1 
HETATM 17 C C6 2BA . . . C 2 -19.525 -36.686 -41.082 1 29.54 ? C6 2BA 358 A 1 
HETATM 18 N N6 2BA . . . C 2 -19.84 -35.338 -41.054 1 24 ? N6 2BA 358 A 1 
HETATM 19 N N1 2BA . . . C 2 -20.494 -37.649 -41.278 1 26.1 ? N1 2BA 358 A 1 
HETATM 20 C C2 2BA . . . C 2 -20.192 -38.98 -41.307 1 28.67 ? C2 2BA 358 A 1 
HETATM 21 N N3 2BA . . . C 2 -18.908 -39.384 -41.137 1 29.18 ? N3 2BA 358 A 1 
HETATM 22 C C4 2BA . . . C 2 -17.885 -38.488 -40.936 1 30.74 ? C4 2BA 358 A 1 
HETATM 23 P P1 2BA . . . C 2 -14.204 -40.511 -45.42 1 56.93 ? P1 2BA 358 A 1 
HETATM 24 O O1P1 2BA . . . C 2 -15.692 -40.189 -45.546 1 56.55 ? O1P1 2BA 358 A 1 
HETATM 25 O O2P1 2BA . . . C 2 -13.821 -41.586 -46.438 1 58.43 ? O2P1 2BA 358 A 1 
HETATM 26 O "O5'1" 2BA . . . C 2 -13.262 -39.217 -45.676 1 53.71 ? "O5'1" 2BA 358 A 1 
HETATM 27 C "C5'1" 2BA . . . C 2 -11.86 -39.356 -45.604 1 45.1 ? "C5'1" 2BA 358 A 1 
HETATM 28 C "C4'1" 2BA . . . C 2 -10.944 -38.157 -45.458 1 41.67 ? "C4'1" 2BA 358 A 1 
HETATM 29 O "O4'1" 2BA . . . C 2 -11.209 -37.142 -46.437 1 39.37 ? "O4'1" 2BA 358 A 1 
HETATM 30 C "C3'1" 2BA . . . C 2 -11.01 -37.518 -44.088 1 41.42 ? "C3'1" 2BA 358 A 1 
HETATM 31 O "O3'1" 2BA . . . C 2 -10.384 -38.194 -43.065 1 46.21 ? "O3'1" 2BA 358 A 1 
HETATM 32 C "C2'1" 2BA . . . C 2 -10.524 -36.113 -44.435 1 40.31 ? "C2'1" 2BA 358 A 1 
HETATM 33 O "O2'1" 2BA . . . C 2 -9.103 -35.999 -44.285 1 40.39 ? "O2'1" 2BA 358 A 1 
HETATM 34 C "C1'1" 2BA . . . C 2 -10.956 -35.848 -45.877 1 37.7 ? "C1'1" 2BA 358 A 1 
HETATM 35 N N91 2BA . . . C 2 -12.066 -34.832 -45.818 1 35.5 ? N91 2BA 358 A 1 
HETATM 36 C C81 2BA . . . C 2 -13.427 -35.181 -45.937 1 33.75 ? C81 2BA 358 A 1 
HETATM 37 N N71 2BA . . . C 2 -14.19 -34.131 -45.843 1 32.97 ? N71 2BA 358 A 1 
HETATM 38 C C51 2BA . . . C 2 -13.422 -33.029 -45.661 1 31.32 ? C51 2BA 358 A 1 
HETATM 39 C C61 2BA . . . C 2 -13.669 -31.61 -45.484 1 31.07 ? C61 2BA 358 A 1 
HETATM 40 N N61 2BA . . . C 2 -14.96 -31.12 -45.481 1 27.32 ? N61 2BA 358 A 1 
HETATM 41 N N11 2BA . . . C 2 -12.6 -30.762 -45.323 1 31.03 ? N11 2BA 358 A 1 
HETATM 42 C C21 2BA . . . C 2 -11.312 -31.208 -45.317 1 32.02 ? C21 2BA 358 A 1 
HETATM 43 N N31 2BA . . . C 2 -11.061 -32.529 -45.476 1 33.2 ? N31 2BA 358 A 1 
HETATM 44 C C41 2BA . . . C 2 -12.054 -33.458 -45.643 1 32.46 ? C41 2BA 358 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           319 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           44 
#