data_3ZBS
#
_model_server_result.job_id            nqYgp1h1ukXCCCquqvFeJg 
_model_server_result.datetime_utc      '2024-10-20 00:25:55' 
_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          3zbs 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1380}' 
#
_entry.id    3ZBS 
#
_exptl.entry_id    3ZBS 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              363.287 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "2'-O-(sulfidophosphinato)adenosine" 
_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            3ZBS 
_cell.length_a            41.36 
_cell.length_b            46.88 
_cell.length_c            107.23 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3ZBS 
_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 
#
_chem_comp.formula           'C10 H14 N5 O6 P S' 
_chem_comp.formula_weight    363.287 
_chem_comp.id                OVE 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "2'-O-(sulfidophosphinato)adenosine" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "ADENOSINE-2'-MONOPHOSPHOROTHIOATE" 
#
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
O1P P OVE sing 237 n n 
P S2P OVE sing 238 n n 
P O3P OVE doub 239 n n 
P O2' OVE sing 240 n n 
O2' C2' OVE sing 241 n n 
C2' C3' OVE sing 242 n n 
C2' C1' OVE sing 243 n n 
C3' O3' OVE sing 244 n n 
C3' C4' OVE sing 245 n n 
C1' O4' OVE sing 246 n n 
C1' N9 OVE sing 247 n n 
O4' C4' OVE sing 248 n n 
C4' C5' OVE sing 249 n n 
C5' O5' OVE sing 250 n n 
N9 C8 OVE sing 251 n y 
N9 C4 OVE sing 252 n y 
C8 N7 OVE doub 253 n y 
N7 C5 OVE sing 254 n y 
C5 C6 OVE doub 255 n y 
C5 C4 OVE sing 256 n y 
C6 N6 OVE sing 257 n n 
C6 N1 OVE sing 258 n y 
C4 N3 OVE doub 259 n y 
N3 C2 OVE sing 260 n y 
H2 C2 OVE sing 261 n n 
N1 C2 OVE doub 262 n y 
O1P H1P OVE sing 263 n n 
S2P H2P OVE sing 264 n n 
C2' H2' OVE sing 265 n n 
C3' H3' OVE sing 266 n n 
C1' H1' OVE sing 267 n n 
O3' HA OVE sing 268 n n 
C4' H4' OVE sing 269 n n 
C5' "H5'1" OVE sing 270 n n 
C5' "H5'2" OVE sing 271 n n 
O5' H5' OVE sing 272 n n 
C8 H8 OVE sing 273 n n 
N6 H61N OVE sing 274 n n 
N6 H62N OVE sing 275 n n 
#
_atom_sites.entry_id                     3ZBS 
_atom_sites.fract_transf_matrix[1][1]    0.024178 
_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]    0.021331 
_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]    0.009326 
_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 1379 1379 CL CL . 
C 3 OVE A 1 1380 1380 OVE OVE . 
D 4 HOH A 1 2001 2001 HOH HOH . 
D 4 HOH A 2 2002 2002 HOH HOH . 
D 4 HOH A 3 2003 2003 HOH HOH . 
D 4 HOH A 4 2004 2004 HOH HOH . 
D 4 HOH A 5 2005 2005 HOH HOH . 
D 4 HOH A 6 2006 2006 HOH HOH . 
D 4 HOH A 7 2007 2007 HOH HOH . 
D 4 HOH A 8 2008 2008 HOH HOH . 
D 4 HOH A 9 2009 2009 HOH HOH . 
D 4 HOH A 10 2010 2010 HOH HOH . 
D 4 HOH A 11 2011 2011 HOH HOH . 
D 4 HOH A 12 2012 2012 HOH HOH . 
D 4 HOH A 13 2013 2013 HOH HOH . 
D 4 HOH A 14 2014 2014 HOH HOH . 
D 4 HOH A 15 2015 2015 HOH HOH . 
D 4 HOH A 16 2016 2016 HOH HOH . 
D 4 HOH A 17 2017 2017 HOH HOH . 
D 4 HOH A 18 2018 2018 HOH HOH . 
D 4 HOH A 19 2019 2019 HOH HOH . 
D 4 HOH A 20 2020 2020 HOH HOH . 
D 4 HOH A 21 2021 2021 HOH HOH . 
D 4 HOH A 22 2022 2022 HOH HOH . 
D 4 HOH A 23 2023 2023 HOH HOH . 
D 4 HOH A 24 2024 2024 HOH HOH . 
D 4 HOH A 25 2025 2025 HOH HOH . 
D 4 HOH A 26 2026 2026 HOH HOH . 
D 4 HOH A 27 2027 2027 HOH HOH . 
D 4 HOH A 28 2028 2028 HOH HOH . 
D 4 HOH A 29 2029 2029 HOH HOH . 
D 4 HOH A 30 2030 2030 HOH HOH . 
D 4 HOH A 31 2031 2031 HOH HOH . 
D 4 HOH A 32 2032 2032 HOH HOH . 
D 4 HOH A 33 2033 2033 HOH HOH . 
D 4 HOH A 34 2034 2034 HOH HOH . 
D 4 HOH A 35 2035 2035 HOH HOH . 
D 4 HOH A 36 2036 2036 HOH HOH . 
D 4 HOH A 37 2037 2037 HOH HOH . 
D 4 HOH A 38 2038 2038 HOH HOH . 
D 4 HOH A 39 2039 2039 HOH HOH . 
D 4 HOH A 40 2040 2040 HOH HOH . 
D 4 HOH A 41 2041 2041 HOH HOH . 
D 4 HOH A 42 2042 2042 HOH HOH . 
D 4 HOH A 43 2043 2043 HOH HOH . 
D 4 HOH A 44 2044 2044 HOH HOH . 
D 4 HOH A 45 2045 2045 HOH HOH . 
D 4 HOH A 46 2046 2046 HOH HOH . 
D 4 HOH A 47 2047 2047 HOH HOH . 
D 4 HOH A 48 2048 2048 HOH HOH . 
D 4 HOH A 49 2049 2049 HOH HOH . 
D 4 HOH A 50 2050 2050 HOH HOH . 
D 4 HOH A 51 2051 2051 HOH HOH . 
D 4 HOH A 52 2052 2052 HOH HOH . 
D 4 HOH A 53 2053 2053 HOH HOH . 
D 4 HOH A 54 2054 2054 HOH HOH . 
D 4 HOH A 55 2055 2055 HOH HOH . 
D 4 HOH A 56 2056 2056 HOH HOH . 
D 4 HOH A 57 2057 2057 HOH HOH . 
D 4 HOH A 58 2058 2058 HOH HOH . 
D 4 HOH A 59 2059 2059 HOH HOH . 
D 4 HOH A 60 2060 2060 HOH HOH . 
D 4 HOH A 61 2061 2061 HOH HOH . 
D 4 HOH A 62 2062 2062 HOH HOH . 
D 4 HOH A 63 2063 2063 HOH HOH . 
D 4 HOH A 64 2064 2064 HOH HOH . 
D 4 HOH A 65 2065 2065 HOH HOH . 
D 4 HOH A 66 2066 2066 HOH HOH . 
D 4 HOH A 67 2067 2067 HOH HOH . 
D 4 HOH A 68 2068 2068 HOH HOH . 
D 4 HOH A 69 2069 2069 HOH HOH . 
D 4 HOH A 70 2070 2070 HOH HOH . 
D 4 HOH A 71 2071 2071 HOH HOH . 
D 4 HOH A 72 2072 2072 HOH HOH . 
D 4 HOH A 73 2073 2073 HOH HOH . 
D 4 HOH A 74 2074 2074 HOH HOH . 
D 4 HOH A 75 2075 2075 HOH HOH . 
D 4 HOH A 76 2076 2076 HOH HOH . 
D 4 HOH A 77 2077 2077 HOH HOH . 
D 4 HOH A 78 2078 2078 HOH HOH . 
D 4 HOH A 79 2079 2079 HOH HOH . 
D 4 HOH A 80 2080 2080 HOH HOH . 
D 4 HOH A 81 2081 2081 HOH HOH . 
D 4 HOH A 82 2082 2082 HOH HOH . 
D 4 HOH A 83 2083 2083 HOH HOH . 
D 4 HOH A 84 2084 2084 HOH HOH . 
D 4 HOH A 85 2085 2085 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 O O1P OVE . . . C 3 -4.518 5.529 -21.126 1 35.64 ? O1P OVE 1380 A 1 
HETATM 2 P P OVE . . . C 3 -5.354 4.338 -21.449 1 34.19 ? P OVE 1380 A 1 
HETATM 3 S S2P OVE . . . C 3 -4.331 3.128 -22.63 1 44.84 ? S2P OVE 1380 A 1 
HETATM 4 O O3P OVE . . . C 3 -5.724 3.605 -20.165 1 32.38 ? O3P OVE 1380 A 1 
HETATM 5 O O2' OVE . . . C 3 -6.649 4.801 -22.172 1 30.5 ? O2' OVE 1380 A 1 
HETATM 6 C C2' OVE . . . C 3 -6.9 4.826 -23.519 1 28.56 ? C2' OVE 1380 A 1 
HETATM 7 C C3' OVE . . . C 3 -6.032 5.832 -24.176 1 24.89 ? C3' OVE 1380 A 1 
HETATM 8 O O3' OVE . . . C 3 -5.682 6.827 -23.264 1 22.58 ? O3' OVE 1380 A 1 
HETATM 9 C C1' OVE . . . C 3 -8.195 5.547 -23.57 1 29.77 ? C1' OVE 1380 A 1 
HETATM 10 O O4' OVE . . . C 3 -8.206 6.283 -24.749 1 25.87 ? O4' OVE 1380 A 1 
HETATM 11 C C4' OVE . . . C 3 -6.901 6.431 -25.203 1 23.97 ? C4' OVE 1380 A 1 
HETATM 12 C C5' OVE . . . C 3 -6.717 5.816 -26.55 1 23.56 ? C5' OVE 1380 A 1 
HETATM 13 O O5' OVE . . . C 3 -7.075 4.484 -26.505 1 24.18 ? O5' OVE 1380 A 1 
HETATM 14 N N9 OVE . . . C 3 -9.399 4.754 -23.441 1 31.49 ? N9 OVE 1380 A 1 
HETATM 15 C C8 OVE . . . C 3 -10.416 4.902 -22.478 1 32.14 ? C8 OVE 1380 A 1 
HETATM 16 N N7 OVE . . . C 3 -11.369 3.927 -22.724 1 31.96 ? N7 OVE 1380 A 1 
HETATM 17 C C5 OVE . . . C 3 -10.925 3.179 -23.842 1 32.15 ? C5 OVE 1380 A 1 
HETATM 18 C C6 OVE . . . C 3 -11.518 2.127 -24.453 1 34.62 ? C6 OVE 1380 A 1 
HETATM 19 N N6 OVE . . . C 3 -12.778 1.644 -23.95 1 34.37 ? N6 OVE 1380 A 1 
HETATM 20 C C4 OVE . . . C 3 -9.726 3.652 -24.305 1 31.71 ? C4 OVE 1380 A 1 
HETATM 21 N N3 OVE . . . C 3 -9.093 3.122 -25.352 1 34.87 ? N3 OVE 1380 A 1 
HETATM 22 C C2 OVE . . . C 3 -9.681 2.048 -25.989 1 36.84 ? C2 OVE 1380 A 1 
HETATM 23 N N1 OVE . . . C 3 -10.897 1.562 -25.523 1 35.93 ? N1 OVE 1380 A 1 
#
_model_server_stats.io_time_ms              45 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           303 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           23 
#