data_9USB
#
_model_server_result.job_id            nfjQYnqgEb1gjYZLfQAGVA 
_model_server_result.datetime_utc      '2025-08-20 23:38:39' 
_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          9usb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":303}' 
#
_entry.id    9USB 
#
_exptl.entry_id    9USB 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              522.196 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' 
_entity.pdbx_number_of_molecules    3 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          107.19 
_cell.angle_gamma         90 
_cell.entry_id            9USB 
_cell.length_a            47.184 
_cell.length_b            102.574 
_cell.length_c            56.362 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9USB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
PISA monomeric 1 author_and_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,D,E,F,M 1 1 
B,G,H,I,N 2 1 
C,J,K,L,O 3 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
? 4 F N N 
? 4 I N N 
? 4 L 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
metalc ? metalc1 A OG SER 23 A SER 17 1_555 D MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
metalc ? metalc2 D MG MG . A MG 301 1_555 F O2B GNP . A GNP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? 
metalc ? metalc3 D MG MG . A MG 301 1_555 M O HOH . A HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.97 ? 
metalc ? metalc4 D MG MG . A MG 301 1_555 M O HOH . A HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? 
metalc ? metalc5 D MG MG . A MG 301 1_555 M O HOH . A HOH 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? 
metalc ? metalc6 B OG SER 23 B SER 17 1_555 G MG MG . B MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.899 ? 
metalc ? metalc7 G MG MG . B MG 301 1_555 I O3G GNP . B GNP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? 
metalc ? metalc8 G MG MG . B MG 301 1_555 I O1B GNP . B GNP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? 
metalc ? metalc9 G MG MG . B MG 301 1_555 N O HOH . B HOH 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? 
metalc ? metalc10 G MG MG . B MG 301 1_555 N O HOH . B HOH 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? 
metalc ? metalc11 G MG MG . B MG 301 1_555 N O HOH . B HOH 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? 
metalc ? metalc12 C OG SER 23 C SER 17 1_555 J MG MG . C MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? 
metalc ? metalc13 J MG MG . C MG 301 1_555 L O2G GNP . C GNP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.884 ? 
metalc ? metalc14 J MG MG . C MG 301 1_555 L O1B GNP . C GNP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? 
metalc ? metalc15 J MG MG . C MG 301 1_555 O O HOH . C HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? 
metalc ? metalc16 J MG MG . C MG 301 1_555 O O HOH . C HOH 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? 
metalc ? metalc17 J MG MG . C MG 301 1_555 O O HOH . C HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? 
#
_chem_comp.formula           'C10 H17 N6 O13 P3' 
_chem_comp.formula_weight    522.196 
_chem_comp.id                GNP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' 
_chem_comp.type              non-polymer 
_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
PG O1G GNP doub 212 n n 
PG O2G GNP sing 213 n n 
PG O3G GNP sing 214 n n 
PG N3B GNP sing 215 n n 
O2G HOG2 GNP sing 216 n n 
O3G HOG3 GNP sing 217 n n 
N3B PB GNP sing 218 n n 
N3B HNB3 GNP sing 219 n n 
PB O1B GNP doub 220 n n 
PB O2B GNP sing 221 n n 
PB O3A GNP sing 222 n n 
O2B HOB2 GNP sing 223 n n 
O3A PA GNP sing 224 n n 
PA O1A GNP doub 225 n n 
PA O2A GNP sing 226 n n 
PA O5' GNP sing 227 n n 
O2A HOA2 GNP sing 228 n n 
O5' C5' GNP sing 229 n n 
C5' C4' GNP sing 230 n n 
C5' "H5'2" GNP sing 231 n n 
C5' "H5'1" GNP sing 232 n n 
C4' O4' GNP sing 233 n n 
C4' C3' GNP sing 234 n n 
C4' H4' GNP sing 235 n n 
O4' C1' GNP sing 236 n n 
C3' O3' GNP sing 237 n n 
C3' C2' GNP sing 238 n n 
C3' H3' GNP sing 239 n n 
O3' HO3' GNP sing 240 n n 
C2' O2' GNP sing 241 n n 
C2' C1' GNP sing 242 n n 
C2' H2' GNP sing 243 n n 
O2' HO2' GNP sing 244 n n 
C1' N9 GNP sing 245 n n 
C1' H1' GNP sing 246 n n 
N9 C8 GNP sing 247 n y 
N9 C4 GNP sing 248 n y 
C8 N7 GNP doub 249 n y 
C8 H8 GNP sing 250 n n 
N7 C5 GNP sing 251 n y 
C5 C6 GNP sing 252 n y 
C5 C4 GNP doub 253 n y 
C6 O6 GNP doub 254 n n 
C6 N1 GNP sing 255 n y 
N1 C2 GNP sing 256 n y 
N1 HN1 GNP sing 257 n n 
C2 N2 GNP sing 258 n n 
C2 N3 GNP doub 259 n y 
N2 HN21 GNP sing 260 n n 
N2 HN22 GNP sing 261 n n 
N3 C4 GNP sing 262 n y 
#
_atom_sites.entry_id                     9USB 
_atom_sites.fract_transf_matrix[1][1]    0.021194 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.006557 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009749 
_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]    0.018572 
_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
D 2 MG A 1 301 301 MG MG . 
E 3 A1EN3 A 1 302 302 A1EN3 LIG . 
F 4 GNP A 1 303 303 GNP GNP . 
G 2 MG B 1 301 301 MG MG . 
H 3 A1EN3 B 1 302 302 A1EN3 LIG . 
I 4 GNP B 1 303 303 GNP GNP . 
J 2 MG C 1 301 301 MG MG . 
K 3 A1EN3 C 1 302 302 A1EN3 LIG . 
L 4 GNP C 1 303 303 GNP GNP . 
M 5 HOH A 1 401 2 HOH HOH . 
M 5 HOH A 2 402 1 HOH HOH . 
M 5 HOH A 3 403 23 HOH HOH . 
M 5 HOH A 4 404 3 HOH HOH . 
M 5 HOH A 5 405 15 HOH HOH . 
M 5 HOH A 6 406 36 HOH HOH . 
M 5 HOH A 7 407 60 HOH HOH . 
M 5 HOH A 8 408 17 HOH HOH . 
M 5 HOH A 9 409 72 HOH HOH . 
M 5 HOH A 10 410 27 HOH HOH . 
M 5 HOH A 11 411 40 HOH HOH . 
M 5 HOH A 12 412 21 HOH HOH . 
M 5 HOH A 13 413 19 HOH HOH . 
M 5 HOH A 14 414 62 HOH HOH . 
M 5 HOH A 15 415 48 HOH HOH . 
M 5 HOH A 16 416 37 HOH HOH . 
M 5 HOH A 17 417 10 HOH HOH . 
M 5 HOH A 18 418 78 HOH HOH . 
M 5 HOH A 19 419 82 HOH HOH . 
M 5 HOH A 20 420 68 HOH HOH . 
M 5 HOH A 21 421 95 HOH HOH . 
M 5 HOH A 22 422 83 HOH HOH . 
M 5 HOH A 23 423 79 HOH HOH . 
M 5 HOH A 24 424 80 HOH HOH . 
N 5 HOH B 1 401 18 HOH HOH . 
N 5 HOH B 2 402 49 HOH HOH . 
N 5 HOH B 3 403 90 HOH HOH . 
N 5 HOH B 4 404 34 HOH HOH . 
N 5 HOH B 5 405 91 HOH HOH . 
N 5 HOH B 6 406 6 HOH HOH . 
N 5 HOH B 7 407 5 HOH HOH . 
N 5 HOH B 8 408 85 HOH HOH . 
N 5 HOH B 9 409 59 HOH HOH . 
N 5 HOH B 10 410 39 HOH HOH . 
N 5 HOH B 11 411 43 HOH HOH . 
N 5 HOH B 12 412 35 HOH HOH . 
N 5 HOH B 13 413 46 HOH HOH . 
N 5 HOH B 14 414 31 HOH HOH . 
N 5 HOH B 15 415 74 HOH HOH . 
N 5 HOH B 16 416 53 HOH HOH . 
N 5 HOH B 17 417 4 HOH HOH . 
N 5 HOH B 18 418 77 HOH HOH . 
N 5 HOH B 19 419 87 HOH HOH . 
N 5 HOH B 20 420 66 HOH HOH . 
N 5 HOH B 21 421 86 HOH HOH . 
N 5 HOH B 22 422 14 HOH HOH . 
N 5 HOH B 23 423 94 HOH HOH . 
O 5 HOH C 1 401 24 HOH HOH . 
O 5 HOH C 2 402 7 HOH HOH . 
O 5 HOH C 3 403 9 HOH HOH . 
O 5 HOH C 4 404 32 HOH HOH . 
O 5 HOH C 5 405 8 HOH HOH . 
O 5 HOH C 6 406 55 HOH HOH . 
O 5 HOH C 7 407 47 HOH HOH . 
O 5 HOH C 8 408 63 HOH HOH . 
O 5 HOH C 9 409 50 HOH HOH . 
O 5 HOH C 10 410 16 HOH HOH . 
O 5 HOH C 11 411 52 HOH HOH . 
O 5 HOH C 12 412 13 HOH HOH . 
O 5 HOH C 13 413 20 HOH HOH . 
O 5 HOH C 14 414 12 HOH HOH . 
O 5 HOH C 15 415 28 HOH HOH . 
O 5 HOH C 16 416 33 HOH HOH . 
O 5 HOH C 17 417 11 HOH HOH . 
O 5 HOH C 18 418 45 HOH HOH . 
O 5 HOH C 19 419 42 HOH HOH . 
O 5 HOH C 20 420 58 HOH HOH . 
O 5 HOH C 21 421 92 HOH HOH . 
O 5 HOH C 22 422 61 HOH HOH . 
O 5 HOH C 23 423 26 HOH HOH . 
O 5 HOH C 24 424 84 HOH HOH . 
O 5 HOH C 25 425 93 HOH HOH . 
O 5 HOH C 26 426 69 HOH HOH . 
O 5 HOH C 27 427 71 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 PG GNP . . . L 4 31.133 -44.833 41.164 1 76.67 ? PG GNP 303 C 1 
HETATM 2 O O1G GNP . . . L 4 29.973 -44.038 41.851 1 66.32 ? O1G GNP 303 C 1 
HETATM 3 O O2G GNP . . . L 4 32.301 -43.957 40.745 1 58.97 ? O2G GNP 303 C 1 
HETATM 4 O O3G GNP . . . L 4 31.693 -45.759 42.216 1 90.93 ? O3G GNP 303 C 1 
HETATM 5 N N3B GNP . . . L 4 30.68 -45.795 39.91 1 52.89 ? N3B GNP 303 C 1 
HETATM 6 P PB GNP . . . L 4 30.219 -45.252 38.45 1 46.71 ? PB GNP 303 C 1 
HETATM 7 O O1B GNP . . . L 4 31.226 -44.221 38.008 1 43.55 ? O1B GNP 303 C 1 
HETATM 8 O O2B GNP . . . L 4 28.759 -44.866 38.41 1 43.86 ? O2B GNP 303 C 1 
HETATM 9 O O3A GNP . . . L 4 30.427 -46.529 37.494 1 41.2 ? O3A GNP 303 C 1 
HETATM 10 P PA GNP . . . L 4 31.741 -46.779 36.607 1 41.1 ? PA GNP 303 C 1 
HETATM 11 O O1A GNP . . . L 4 31.683 -45.794 35.486 1 47.55 ? O1A GNP 303 C 1 
HETATM 12 O O2A GNP . . . L 4 32.931 -46.768 37.52 1 38.63 ? O2A GNP 303 C 1 
HETATM 13 O O5' GNP . . . L 4 31.502 -48.224 36.005 1 39.52 ? O5' GNP 303 C 1 
HETATM 14 C C5' GNP . . . L 4 31.028 -49.275 36.858 1 43.67 ? C5' GNP 303 C 1 
HETATM 15 C C4' GNP . . . L 4 31.262 -50.583 36.138 1 49.52 ? C4' GNP 303 C 1 
HETATM 16 O O4' GNP . . . L 4 30.322 -50.706 35.029 1 52.53 ? O4' GNP 303 C 1 
HETATM 17 C C3' GNP . . . L 4 32.646 -50.772 35.493 1 49.3 ? C3' GNP 303 C 1 
HETATM 18 O O3' GNP . . . L 4 32.948 -52.161 35.427 1 50.94 ? O3' GNP 303 C 1 
HETATM 19 C C2' GNP . . . L 4 32.417 -50.268 34.07 1 48.67 ? C2' GNP 303 C 1 
HETATM 20 O O2' GNP . . . L 4 33.288 -50.787 33.097 1 49.72 ? O2' GNP 303 C 1 
HETATM 21 C C1' GNP . . . L 4 31.023 -50.834 33.814 1 48.59 ? C1' GNP 303 C 1 
HETATM 22 N N9 GNP . . . L 4 30.285 -50.079 32.829 1 40.84 ? N9 GNP 303 C 1 
HETATM 23 C C8 GNP . . . L 4 30.167 -48.72 32.816 1 40.74 ? C8 GNP 303 C 1 
HETATM 24 N N7 GNP . . . L 4 29.456 -48.283 31.812 1 44.17 ? N7 GNP 303 C 1 
HETATM 25 C C5 GNP . . . L 4 29.067 -49.434 31.147 1 37.99 ? C5 GNP 303 C 1 
HETATM 26 C C6 GNP . . . L 4 28.284 -49.579 29.988 1 38.05 ? C6 GNP 303 C 1 
HETATM 27 O O6 GNP . . . L 4 27.742 -48.689 29.324 1 37.31 ? O6 GNP 303 C 1 
HETATM 28 N N1 GNP . . . L 4 28.153 -50.922 29.629 1 38.89 ? N1 GNP 303 C 1 
HETATM 29 C C2 GNP . . . L 4 28.713 -51.984 30.297 1 40.62 ? C2 GNP 303 C 1 
HETATM 30 N N2 GNP . . . L 4 28.465 -53.215 29.809 1 37.66 ? N2 GNP 303 C 1 
HETATM 31 N N3 GNP . . . L 4 29.466 -51.837 31.386 1 40.3 ? N3 GNP 303 C 1 
HETATM 32 C C4 GNP . . . L 4 29.59 -50.546 31.752 1 38.68 ? C4 GNP 303 C 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           312 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           32 
#