data_8V6R
#
_model_server_result.job_id            3MXsyfrii2AOKlxBn-jY8w 
_model_server_result.datetime_utc      '2024-10-10 01:25:40' 
_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          8v6r 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":301}' 
#
_entry.id    8V6R 
#
_exptl.entry_id    8V6R 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              559.316 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE' 
_entity.pdbx_number_of_molecules    2 
_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            8V6R 
_cell.length_a            39.52 
_cell.length_b            92.598 
_cell.length_c            139.976 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8V6R 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    'P 2 2ab (z,x,y)' 
_symmetry.space_group_name_H-M     'P 2 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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,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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 D N N 
#
_chem_comp.formula           'C15 H23 N5 O14 P2' 
_chem_comp.formula_weight    559.316 
_chem_comp.id                AR6 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     Adenosine-5-Diphosphoribose 
#
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
N1 C2 AR6 doub 13 n y 
N1 C6 AR6 sing 14 n y 
C2 N3 AR6 sing 15 n y 
N3 C4 AR6 doub 16 n y 
C4 C5 AR6 sing 17 n y 
C4 N9 AR6 sing 18 n y 
C5 C6 AR6 doub 19 n y 
C5 N7 AR6 sing 20 n y 
C6 N6 AR6 sing 21 n n 
N7 C8 AR6 doub 22 n y 
C8 N9 AR6 sing 23 n y 
N9 C1' AR6 sing 24 n n 
PA O1A AR6 sing 25 n n 
PA O2A AR6 doub 26 n n 
PA O3A AR6 sing 27 n n 
PA O5' AR6 sing 28 n n 
PB O1B AR6 sing 29 n n 
PB O2B AR6 doub 30 n n 
PB O3A AR6 sing 31 n n 
PB O5D AR6 sing 32 n n 
C1' C2' AR6 sing 33 n n 
C1' O4' AR6 sing 34 n n 
C1D O1D AR6 sing 35 n n 
C1D C2D AR6 sing 36 n n 
C1D O4D AR6 sing 37 n n 
C2' O2' AR6 sing 38 n n 
C2' C3' AR6 sing 39 n n 
C2D O2D AR6 sing 40 n n 
C2D C3D AR6 sing 41 n n 
C3' O3' AR6 sing 42 n n 
C3' C4' AR6 sing 43 n n 
C3D O3D AR6 sing 44 n n 
C3D C4D AR6 sing 45 n n 
C4' O4' AR6 sing 46 n n 
C4' C5' AR6 sing 47 n n 
C4D O4D AR6 sing 48 n n 
C4D C5D AR6 sing 49 n n 
C5' O5' AR6 sing 50 n n 
C5D O5D AR6 sing 51 n n 
C2 H2 AR6 sing 52 n n 
N6 HN6 AR6 sing 53 n n 
N6 HN6A AR6 sing 54 n n 
C8 H8 AR6 sing 55 n n 
C1' H1' AR6 sing 56 n n 
C1D H1D AR6 sing 57 n n 
C2' H2' AR6 sing 58 n n 
O2' HO2' AR6 sing 59 n n 
C2D H2D AR6 sing 60 n n 
O2D HO2D AR6 sing 61 n n 
C3' H3' AR6 sing 62 n n 
O3' HO3' AR6 sing 63 n n 
C3D H3D AR6 sing 64 n n 
O3D HO3D AR6 sing 65 n n 
C4' H4' AR6 sing 66 n n 
C4D H4D AR6 sing 67 n n 
C5' H5' AR6 sing 68 n n 
C5' "H5'A" AR6 sing 69 n n 
C5D H5D AR6 sing 70 n n 
C5D H5DA AR6 sing 71 n n 
O1A H1A AR6 sing 72 n n 
O1B H1B AR6 sing 73 n n 
O1D HD1 AR6 sing 74 n n 
#
_atom_sites.entry_id                     8V6R 
_atom_sites.fract_transf_matrix[1][1]    0.025304 
_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]    0.010799 
_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]    0.007144 
_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 AR6 A 1 301 301 AR6 AR6 . 
D 2 AR6 B 1 301 301 AR6 AR6 . 
E 3 HOH A 1 401 38 HOH HOH . 
E 3 HOH A 2 402 2 HOH HOH . 
E 3 HOH A 3 403 4 HOH HOH . 
E 3 HOH A 4 404 31 HOH HOH . 
E 3 HOH A 5 405 12 HOH HOH . 
E 3 HOH A 6 406 6 HOH HOH . 
E 3 HOH A 7 407 7 HOH HOH . 
E 3 HOH A 8 408 14 HOH HOH . 
E 3 HOH A 9 409 16 HOH HOH . 
E 3 HOH A 10 410 20 HOH HOH . 
E 3 HOH A 11 411 28 HOH HOH . 
E 3 HOH A 12 412 36 HOH HOH . 
E 3 HOH A 13 413 5 HOH HOH . 
E 3 HOH A 14 414 27 HOH HOH . 
E 3 HOH A 15 415 9 HOH HOH . 
E 3 HOH A 16 416 43 HOH HOH . 
E 3 HOH A 17 417 50 HOH HOH . 
E 3 HOH A 18 418 33 HOH HOH . 
E 3 HOH A 19 419 51 HOH HOH . 
F 3 HOH B 1 401 8 HOH HOH . 
F 3 HOH B 2 402 39 HOH HOH . 
F 3 HOH B 3 403 42 HOH HOH . 
F 3 HOH B 4 404 32 HOH HOH . 
F 3 HOH B 5 405 41 HOH HOH . 
F 3 HOH B 6 406 11 HOH HOH . 
F 3 HOH B 7 407 15 HOH HOH . 
F 3 HOH B 8 408 53 HOH HOH . 
F 3 HOH B 9 409 24 HOH HOH . 
F 3 HOH B 10 410 21 HOH HOH . 
F 3 HOH B 11 411 18 HOH HOH . 
F 3 HOH B 12 412 34 HOH HOH . 
F 3 HOH B 13 413 10 HOH HOH . 
F 3 HOH B 14 414 23 HOH HOH . 
F 3 HOH B 15 415 13 HOH HOH . 
F 3 HOH B 16 416 35 HOH HOH . 
F 3 HOH B 17 417 19 HOH HOH . 
F 3 HOH B 18 418 1 HOH HOH . 
F 3 HOH B 19 419 30 HOH HOH . 
F 3 HOH B 20 420 37 HOH HOH . 
F 3 HOH B 21 421 52 HOH HOH . 
F 3 HOH B 22 422 48 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 N N1 AR6 . . . C 2 -6.959 41.304 -9.579 1 37.96 ? N1 AR6 301 A 1 
HETATM 2 C C2 AR6 . . . C 2 -7.011 40.411 -10.571 1 35.44 ? C2 AR6 301 A 1 
HETATM 3 N N3 AR6 . . . C 2 -6.31 39.285 -10.721 1 37.83 ? N3 AR6 301 A 1 
HETATM 4 C C4 AR6 . . . C 2 -5.468 39.104 -9.699 1 39.85 ? C4 AR6 301 A 1 
HETATM 5 C C5 AR6 . . . C 2 -5.302 39.933 -8.603 1 40.65 ? C5 AR6 301 A 1 
HETATM 6 C C6 AR6 . . . C 2 -6.1 41.093 -8.558 1 39.18 ? C6 AR6 301 A 1 
HETATM 7 N N6 AR6 . . . C 2 -6.051 41.997 -7.572 1 38.6 ? N6 AR6 301 A 1 
HETATM 8 N N7 AR6 . . . C 2 -4.339 39.426 -7.745 1 43.96 ? N7 AR6 301 A 1 
HETATM 9 C C8 AR6 . . . C 2 -3.95 38.321 -8.332 1 41.11 ? C8 AR6 301 A 1 
HETATM 10 N N9 AR6 . . . C 2 -4.588 38.063 -9.518 1 39.78 ? N9 AR6 301 A 1 
HETATM 11 P PA AR6 . . . C 2 -5.453 33.074 -7.292 1 37.84 ? PA AR6 301 A 1 
HETATM 12 P PB AR6 . . . C 2 -5.919 30.365 -8.283 1 34.87 ? PB AR6 301 A 1 
HETATM 13 C C1' AR6 . . . C 2 -4.375 36.95 -10.432 1 39.03 ? C1' AR6 301 A 1 
HETATM 14 O O1A AR6 . . . C 2 -4.428 33.344 -6.201 1 40.29 ? O1A AR6 301 A 1 
HETATM 15 O O1B AR6 . . . C 2 -4.92 29.326 -8.762 1 44.26 ? O1B AR6 301 A 1 
HETATM 16 C C1D AR6 . . . C 2 -5.631 28.651 -2.912 1 50.5 ? C1D AR6 301 A 1 
HETATM 17 O O1D AR6 . . . C 2 -5.396 27.938 -1.743 1 57.77 ? O1D AR6 301 A 1 
HETATM 18 C C2' AR6 . . . C 2 -3.25 35.995 -10.051 1 39.88 ? C2' AR6 301 A 1 
HETATM 19 O O2' AR6 . . . C 2 -1.985 36.501 -10.461 1 40.5 ? O2' AR6 301 A 1 
HETATM 20 O O2A AR6 . . . C 2 -6.875 33.164 -6.897 1 37.39 ? O2A AR6 301 A 1 
HETATM 21 O O2B AR6 . . . C 2 -7.023 30.647 -9.221 1 35.83 ? O2B AR6 301 A 1 
HETATM 22 C C2D AR6 . . . C 2 -7.097 29.09 -2.977 1 47.78 ? C2D AR6 301 A 1 
HETATM 23 O O2D AR6 . . . C 2 -7.889 28.468 -1.968 1 45.25 ? O2D AR6 301 A 1 
HETATM 24 C C3' AR6 . . . C 2 -3.655 34.758 -10.857 1 41.07 ? C3' AR6 301 A 1 
HETATM 25 O O3' AR6 . . . C 2 -3.217 34.841 -12.21 1 40.43 ? O3' AR6 301 A 1 
HETATM 26 O O3A AR6 . . . C 2 -5.073 31.659 -7.91 1 44.33 ? O3A AR6 301 A 1 
HETATM 27 C C3D AR6 . . . C 2 -7.586 28.661 -4.371 1 44.26 ? C3D AR6 301 A 1 
HETATM 28 O O3D AR6 . . . C 2 -8.443 27.525 -4.308 1 43.61 ? O3D AR6 301 A 1 
HETATM 29 C C4' AR6 . . . C 2 -5.185 34.796 -10.793 1 37.6 ? C4' AR6 301 A 1 
HETATM 30 O O4' AR6 . . . C 2 -5.545 36.156 -10.458 1 36.39 ? O4' AR6 301 A 1 
HETATM 31 C C4D AR6 . . . C 2 -6.296 28.333 -5.101 1 46.72 ? C4D AR6 301 A 1 
HETATM 32 O O4D AR6 . . . C 2 -5.434 27.837 -4.064 1 46.61 ? O4D AR6 301 A 1 
HETATM 33 C C5' AR6 . . . C 2 -5.803 33.852 -9.797 1 37.18 ? C5' AR6 301 A 1 
HETATM 34 O O5' AR6 . . . C 2 -5.154 34.055 -8.522 1 37.4 ? O5' AR6 301 A 1 
HETATM 35 C C5D AR6 . . . C 2 -5.643 29.501 -5.79 1 42.1 ? C5D AR6 301 A 1 
HETATM 36 O O5D AR6 . . . C 2 -6.512 29.912 -6.867 1 41.36 ? O5D AR6 301 A 1 
HETATM 37 H H2 AR6 . . . C 2 -7.726 40.643 -11.359 1 42.58 ? H2 AR6 301 A 1 
HETATM 38 H HN6 AR6 . . . C 2 -6.168 42.988 -7.754 1 46.37 ? HN6 AR6 301 A 1 
HETATM 39 H HN6A AR6 . . . C 2 -5.895 41.721 -6.607 1 46.37 ? HN6A AR6 301 A 1 
HETATM 40 H H8 AR6 . . . C 2 -3.19 37.656 -7.924 1 49.39 ? H8 AR6 301 A 1 
HETATM 41 H H1' AR6 . . . C 2 -4.229 37.389 -11.418 1 46.88 ? H1' AR6 301 A 1 
HETATM 42 H H1D AR6 . . . C 2 -4.915 29.472 -2.889 1 60.65 ? H1D AR6 301 A 1 
HETATM 43 H H2' AR6 . . . C 2 -3.207 35.786 -8.983 1 47.9 ? H2' AR6 301 A 1 
HETATM 44 H HO2' AR6 . . . C 2 -2.035 37.492 -10.419 1 48.65 ? HO2' AR6 301 A 1 
HETATM 45 H H2D AR6 . . . C 2 -7.145 30.175 -2.892 1 57.38 ? H2D AR6 301 A 1 
HETATM 46 H HO2D AR6 . . . C 2 -7.382 27.66 -1.691 1 54.35 ? HO2D AR6 301 A 1 
HETATM 47 H H3' AR6 . . . C 2 -3.253 33.853 -10.404 1 49.33 ? H3' AR6 301 A 1 
HETATM 48 H HO3' AR6 . . . C 2 -3.319 35.788 -12.491 1 48.56 ? HO3' AR6 301 A 1 
HETATM 49 H H3D AR6 . . . C 2 -8.201 29.421 -4.849 1 53.16 ? H3D AR6 301 A 1 
HETATM 50 H HO3D AR6 . . . C 2 -9.377 27.815 -4.484 1 52.38 ? HO3D AR6 301 A 1 
HETATM 51 H H4' AR6 . . . C 2 -5.621 34.667 -11.782 1 45.17 ? H4' AR6 301 A 1 
HETATM 52 H H4D AR6 . . . C 2 -6.398 27.51 -5.808 1 56.11 ? H4D AR6 301 A 1 
HETATM 53 H H5' AR6 . . . C 2 -6.872 34.038 -9.711 1 44.67 ? H5' AR6 301 A 1 
HETATM 54 H "H5'A" AR6 . . . C 2 -5.679 32.821 -10.125 1 44.67 ? "H5'A" AR6 301 A 1 
HETATM 55 H H5D AR6 . . . C 2 -5.498 30.334 -5.102 1 50.57 ? H5D AR6 301 A 1 
HETATM 56 H H5DA AR6 . . . C 2 -4.669 29.23 -6.192 1 50.57 ? H5DA AR6 301 A 1 
HETATM 57 H H1A AR6 . . . C 2 -3.437 33.325 -6.263 1 48.4 ? H1A AR6 301 A 1 
HETATM 58 H H1B AR6 . . . C 2 -3.998 29.178 -8.426 1 53.16 ? H1B AR6 301 A 1 
HETATM 59 H HD1 AR6 . . . C 2 -4.763 27.195 -1.925 1 69.37 ? HD1 AR6 301 A 1 
#
_model_server_stats.io_time_ms              27 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           280 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           59 
#