data_5HBW
#
_model_server_result.job_id            5oFENpKZGmVIlaBq8W8TIQ 
_model_server_result.datetime_utc      '2024-11-08 02:56:02' 
_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          5hbw 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":101}' 
#
_entry.id    5HBW 
#
_exptl.entry_id    5HBW 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.309 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-(3-methyl-1~{H}-pyrazol-4-yl)phosphinic acid' 
_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            5HBW 
_cell.length_a            28.076 
_cell.length_b            39.747 
_cell.length_c            42.593 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5HBW 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_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 
#
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
covale ? covale1 A O3' LCC 1 A LCC 1 1_555 A P TLN 2 A TLN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.643 ? 
covale ? covale2 A O3' TLN 2 A TLN 2 1_555 A P LCG 3 A LCG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.681 ? 
covale ? covale3 A O3' LCG 3 A LCG 3 1_555 A P U 4 A U 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.653 ? 
covale ? covale4 B O3' LCC 1 B LCC 1 1_555 B P TLN 2 B TLN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.604 ? 
covale ? covale5 B O3' TLN 2 B TLN 2 1_555 B P LCG 3 B LCG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.631 ? 
covale ? covale6 B O3' LCG 3 B LCG 3 1_555 B P U 4 B U 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.58 ? 
hydrog WATSON-CRICK hydrog1 A N3 TLN 2 A TLN 2 1_555 B N1 A 7 B A 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog2 A O4 TLN 2 A TLN 2 1_555 B N6 A 7 B A 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog3 A N1 LCG 3 A LCG 3 1_555 B N3 C 6 B C 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog4 A N2 LCG 3 A LCG 3 1_555 B O2 C 6 B C 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog5 A O6 LCG 3 A LCG 3 1_555 B N4 C 6 B C 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog6 A N3 U 4 A U 4 1_555 B N1 A 5 B A 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog7 A O4 U 4 A U 4 1_555 B N6 A 5 B A 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog8 A N1 A 5 A A 5 1_555 B N3 U 4 B U 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog9 A N6 A 5 A A 5 1_555 B O4 U 4 B U 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog10 A N3 C 6 A C 6 1_555 B N1 LCG 3 B LCG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog11 A N4 C 6 A C 6 1_555 B O6 LCG 3 B LCG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog12 A O2 C 6 A C 6 1_555 B N2 LCG 3 B LCG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog13 A N1 A 7 A A 7 1_555 B N3 TLN 2 B TLN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog14 A N6 A 7 A A 7 1_555 B O4 TLN 2 B TLN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
#
_chem_comp.formula           'C14 H18 N7 O7 P' 
_chem_comp.formula_weight    427.309 
_chem_comp.id                PZG 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              '[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-(3-methyl-1~{H}-pyrazol-4-yl)phosphinic acid' 
_chem_comp.type              'dna 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
O4 C8 PZG sing 161 n n 
C8 C9 PZG sing 162 n n 
C8 C7 PZG sing 163 n n 
C9 C10 PZG sing 164 n n 
C9 O2 PZG sing 165 n n 
C10 O5 PZG sing 166 n n 
O3 C7 PZG sing 167 n n 
O6 P1 PZG doub 168 n n 
C12 N6 PZG sing 169 n y 
C12 C11 PZG doub 170 n y 
C7 C6 PZG sing 171 n n 
N6 N7 PZG sing 172 n y 
O2 C6 PZG sing 173 n n 
O5 P1 PZG sing 174 n n 
C6 N5 PZG sing 175 n n 
P1 C11 PZG sing 176 n n 
P1 O7 PZG sing 177 n n 
C11 C13 PZG sing 178 n y 
N7 C13 PZG doub 179 n y 
C13 C14 PZG sing 180 n n 
N5 C3 PZG sing 181 n y 
N5 C5 PZG sing 182 n y 
N3 C3 PZG sing 183 n n 
N3 C2 PZG doub 184 n n 
C3 C4 PZG doub 185 n y 
C5 N4 PZG doub 186 n y 
N2 C2 PZG sing 187 n n 
C2 N1 PZG sing 188 n n 
C4 N4 PZG sing 189 n y 
C4 C1 PZG sing 190 n n 
N1 C1 PZG sing 191 n n 
C1 O1 PZG doub 192 n n 
N1 H1 PZG sing 193 n n 
N2 H2 PZG sing 194 n n 
N2 H3 PZG sing 195 n n 
C5 H4 PZG sing 196 n n 
C6 H5 PZG sing 197 n n 
C7 H6 PZG sing 198 n n 
O3 H7 PZG sing 199 n n 
C8 H8 PZG sing 200 n n 
O4 H9 PZG sing 201 n n 
C9 H10 PZG sing 202 n n 
C10 H11 PZG sing 203 n n 
C10 H12 PZG sing 204 n n 
O7 H13 PZG sing 205 n n 
C12 H14 PZG sing 206 n n 
N6 H15 PZG sing 207 n n 
C14 H16 PZG sing 208 n n 
C14 H17 PZG sing 209 n n 
C14 H18 PZG sing 210 n n 
#
_atom_sites.entry_id                     5HBW 
_atom_sites.fract_transf_matrix[1][1]    0.035618 
_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]    0.025159 
_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]    0.023478 
_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 PZG A 1 101 2 PZG PZG . 
D 2 PZG B 1 101 1 PZG PZG . 
E 3 HOH A 1 201 1 HOH HOH . 
E 3 HOH A 2 202 2 HOH HOH . 
F 3 HOH B 1 201 3 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 O1 PZG . . . D 2 10.938 -8.816 5.799 1 30.61 ? O1 PZG 101 B 1 
HETATM 2 C C1 PZG . . . D 2 11.175 -8.855 4.617 1 32.24 ? C1 PZG 101 B 1 
HETATM 3 N N1 PZG . . . D 2 12.473 -8.544 4.284 1 31.16 ? N1 PZG 101 B 1 
HETATM 4 C C2 PZG . . . D 2 12.876 -8.661 2.966 1 26.52 ? C2 PZG 101 B 1 
HETATM 5 N N2 PZG . . . D 2 14.109 -8.333 2.7 1 25.65 ? N2 PZG 101 B 1 
HETATM 6 N N3 PZG . . . D 2 12.05 -9.085 2.007 1 24.99 ? N3 PZG 101 B 1 
HETATM 7 C C3 PZG . . . D 2 10.761 -9.354 2.347 1 31.98 ? C3 PZG 101 B 1 
HETATM 8 C C4 PZG . . . D 2 10.308 -9.28 3.648 1 33.38 ? C4 PZG 101 B 1 
HETATM 9 N N4 PZG . . . D 2 9.041 -9.682 3.655 1 29.44 ? N4 PZG 101 B 1 
HETATM 10 C C5 PZG . . . D 2 8.698 -9.956 2.412 1 30.47 ? C5 PZG 101 B 1 
HETATM 11 N N5 PZG . . . D 2 9.757 -9.738 1.604 1 32.94 ? N5 PZG 101 B 1 
HETATM 12 C C6 PZG . . . D 2 9.782 -9.948 0.152 1 35.26 ? C6 PZG 101 B 1 
HETATM 13 O O2 PZG . . . D 2 8.518 -10.64 -0.079 1 45.18 ? O2 PZG 101 B 1 
HETATM 14 C C7 PZG . . . D 2 10.838 -10.941 -0.308 1 40.39 ? C7 PZG 101 B 1 
HETATM 15 O O3 PZG . . . D 2 11.856 -10.254 -1.053 1 36.96 ? O3 PZG 101 B 1 
HETATM 16 C C8 PZG . . . D 2 10.128 -11.757 -1.316 1 49.76 ? C8 PZG 101 B 1 
HETATM 17 O O4 PZG . . . D 2 10.376 -11.121 -2.548 1 56.07 ? O4 PZG 101 B 1 
HETATM 18 C C9 PZG . . . D 2 8.673 -11.553 -1.175 1 50 ? C9 PZG 101 B 1 
HETATM 19 C C10 PZG . . . D 2 7.993 -12.92 -1.1 1 66.29 ? C10 PZG 101 B 1 
HETATM 20 O O5 PZG . . . D 2 8.34 -13.561 0.104 1 75.98 ? O5 PZG 101 B 1 
HETATM 21 P P1 PZG . . . D 2 8.153 -15.177 0.482 1 76.84 ? P1 PZG 101 B 1 
HETATM 22 O O6 PZG . . . D 2 7.622 -16.167 -0.672 1 64.57 ? O6 PZG 101 B 1 
HETATM 23 O O7 PZG . . . D 2 7.222 -14.937 1.693 1 70.77 ? O7 PZG 101 B 1 
HETATM 24 C C11 PZG . . . D 2 10.03 -15.659 0.53 1 69.58 ? C11 PZG 101 B 1 
HETATM 25 C C12 PZG . . . D 2 10.819 -15.457 -0.537 1 63.89 ? C12 PZG 101 B 1 
HETATM 26 N N6 PZG . . . D 2 12.042 -15.864 -0.199 1 63.79 ? N6 PZG 101 B 1 
HETATM 27 N N7 PZG . . . D 2 12.024 -16.346 1.079 1 59.3 ? N7 PZG 101 B 1 
HETATM 28 C C13 PZG . . . D 2 10.767 -16.213 1.528 1 61.66 ? C13 PZG 101 B 1 
HETATM 29 C C14 PZG . . . D 2 10.26 -16.633 2.943 1 56.52 ? C14 PZG 101 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           341 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           29 
#