data_3LLU
#
_model_server_result.job_id            mQl6ydHEDSuFn1-GKM5Mdw 
_model_server_result.datetime_utc      '2025-03-23 15:30:56' 
_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          3llu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":501}' 
#
_entry.id    3LLU 
#
_exptl.entry_id    3LLU 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              522.196 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' 
_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            3LLU 
_cell.length_a            72.22 
_cell.length_b            72.22 
_cell.length_c            72.182 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3LLU 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        79 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 4' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L,M 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3,4 
#
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_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 72.22 72.22 0 
3 'crystal symmetry operation' 3_655 -y+1,x,z 0 -1 0 1 0 0 0 0 1 72.22 0 0 
4 'crystal symmetry operation' 4_565 y,-x+1,z 0 1 0 -1 0 0 0 0 1 0 72.22 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 M O HOH . A HOH 41 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? 
metalc ? metalc2 A OG SER 34 A SER 75 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? 
metalc ? metalc3 A OG1 THR 55 A THR 96 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? 
metalc ? metalc4 M O HOH . A HOH 243 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
metalc ? metalc5 B O1B GNP . A GNP 501 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
metalc ? metalc6 B O2G GNP . A GNP 501 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
#
_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 116 n n 
PG O2G GNP sing 117 n n 
PG O3G GNP sing 118 n n 
PG N3B GNP sing 119 n n 
O2G HOG2 GNP sing 120 n n 
O3G HOG3 GNP sing 121 n n 
N3B PB GNP sing 122 n n 
N3B HNB3 GNP sing 123 n n 
PB O1B GNP doub 124 n n 
PB O2B GNP sing 125 n n 
PB O3A GNP sing 126 n n 
O2B HOB2 GNP sing 127 n n 
O3A PA GNP sing 128 n n 
PA O1A GNP doub 129 n n 
PA O2A GNP sing 130 n n 
PA O5' GNP sing 131 n n 
O2A HOA2 GNP sing 132 n n 
O5' C5' GNP sing 133 n n 
C5' C4' GNP sing 134 n n 
C5' "H5'2" GNP sing 135 n n 
C5' "H5'1" GNP sing 136 n n 
C4' O4' GNP sing 137 n n 
C4' C3' GNP sing 138 n n 
C4' H4' GNP sing 139 n n 
O4' C1' GNP sing 140 n n 
C3' O3' GNP sing 141 n n 
C3' C2' GNP sing 142 n n 
C3' H3' GNP sing 143 n n 
O3' HO3' GNP sing 144 n n 
C2' O2' GNP sing 145 n n 
C2' C1' GNP sing 146 n n 
C2' H2' GNP sing 147 n n 
O2' HO2' GNP sing 148 n n 
C1' N9 GNP sing 149 n n 
C1' H1' GNP sing 150 n n 
N9 C8 GNP sing 151 n y 
N9 C4 GNP sing 152 n y 
C8 N7 GNP doub 153 n y 
C8 H8 GNP sing 154 n n 
N7 C5 GNP sing 155 n y 
C5 C6 GNP sing 156 n y 
C5 C4 GNP doub 157 n y 
C6 O6 GNP doub 158 n n 
C6 N1 GNP sing 159 n y 
N1 C2 GNP sing 160 n y 
N1 HN1 GNP sing 161 n n 
C2 N2 GNP sing 162 n n 
C2 N3 GNP doub 163 n y 
N2 HN21 GNP sing 164 n n 
N2 HN22 GNP sing 165 n n 
N3 C4 GNP sing 166 n y 
#
_atom_sites.entry_id                     3LLU 
_atom_sites.fract_transf_matrix[1][1]    0.013847 
_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]    0.013847 
_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]    0.013854 
_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 GNP A 1 501 501 GNP GNP . 
C 3 MG A 1 502 502 MG MG . 
D 4 UNX A 1 1 1 UNX UNX . 
E 4 UNX A 1 2 2 UNX UNX . 
F 4 UNX A 1 3 3 UNX UNX . 
G 4 UNX A 1 4 4 UNX UNX . 
H 4 UNX A 1 5 5 UNX UNX . 
I 4 UNX A 1 6 6 UNX UNX . 
J 4 UNX A 1 7 7 UNX UNX . 
K 4 UNX A 1 8 8 UNX UNX . 
L 4 UNX A 1 9 9 UNX UNX . 
M 5 HOH A 1 10 10 HOH HOH . 
M 5 HOH A 2 11 11 HOH HOH . 
M 5 HOH A 3 12 12 HOH HOH . 
M 5 HOH A 4 13 13 HOH HOH . 
M 5 HOH A 5 14 14 HOH HOH . 
M 5 HOH A 6 15 15 HOH HOH . 
M 5 HOH A 7 16 16 HOH HOH . 
M 5 HOH A 8 17 17 HOH HOH . 
M 5 HOH A 9 18 18 HOH HOH . 
M 5 HOH A 10 19 19 HOH HOH . 
M 5 HOH A 11 20 20 HOH HOH . 
M 5 HOH A 12 21 21 HOH HOH . 
M 5 HOH A 13 22 22 HOH HOH . 
M 5 HOH A 14 23 23 HOH HOH . 
M 5 HOH A 15 24 24 HOH HOH . 
M 5 HOH A 16 25 25 HOH HOH . 
M 5 HOH A 17 26 26 HOH HOH . 
M 5 HOH A 18 27 27 HOH HOH . 
M 5 HOH A 19 28 28 HOH HOH . 
M 5 HOH A 20 29 29 HOH HOH . 
M 5 HOH A 21 30 30 HOH HOH . 
M 5 HOH A 22 31 31 HOH HOH . 
M 5 HOH A 23 32 32 HOH HOH . 
M 5 HOH A 24 33 33 HOH HOH . 
M 5 HOH A 25 34 34 HOH HOH . 
M 5 HOH A 26 35 35 HOH HOH . 
M 5 HOH A 27 36 36 HOH HOH . 
M 5 HOH A 28 37 37 HOH HOH . 
M 5 HOH A 29 38 38 HOH HOH . 
M 5 HOH A 30 39 39 HOH HOH . 
M 5 HOH A 31 40 40 HOH HOH . 
M 5 HOH A 32 41 41 HOH HOH . 
M 5 HOH A 33 238 1 HOH HOH . 
M 5 HOH A 34 239 2 HOH HOH . 
M 5 HOH A 35 240 3 HOH HOH . 
M 5 HOH A 36 241 4 HOH HOH . 
M 5 HOH A 37 242 5 HOH HOH . 
M 5 HOH A 38 243 6 HOH HOH . 
M 5 HOH A 39 244 7 HOH HOH . 
M 5 HOH A 40 245 8 HOH HOH . 
M 5 HOH A 41 246 9 HOH HOH . 
M 5 HOH A 42 247 42 HOH HOH . 
M 5 HOH A 43 248 43 HOH HOH . 
M 5 HOH A 44 249 44 HOH HOH . 
M 5 HOH A 45 250 45 HOH HOH . 
M 5 HOH A 46 251 46 HOH HOH . 
M 5 HOH A 47 252 47 HOH HOH . 
M 5 HOH A 48 253 48 HOH HOH . 
M 5 HOH A 49 254 49 HOH HOH . 
M 5 HOH A 50 255 50 HOH HOH . 
M 5 HOH A 51 256 51 HOH HOH . 
M 5 HOH A 52 257 52 HOH HOH . 
M 5 HOH A 53 258 53 HOH HOH . 
M 5 HOH A 54 259 54 HOH HOH . 
M 5 HOH A 55 260 55 HOH HOH . 
M 5 HOH A 56 261 56 HOH HOH . 
M 5 HOH A 57 262 57 HOH HOH . 
M 5 HOH A 58 263 58 HOH HOH . 
M 5 HOH A 59 264 59 HOH HOH . 
M 5 HOH A 60 265 60 HOH HOH . 
M 5 HOH A 61 266 61 HOH HOH . 
M 5 HOH A 62 267 62 HOH HOH . 
M 5 HOH A 63 268 63 HOH HOH . 
M 5 HOH A 64 269 64 HOH HOH . 
M 5 HOH A 65 270 65 HOH HOH . 
M 5 HOH A 66 271 66 HOH HOH . 
M 5 HOH A 67 272 67 HOH HOH . 
M 5 HOH A 68 273 68 HOH HOH . 
M 5 HOH A 69 274 69 HOH HOH . 
M 5 HOH A 70 275 71 HOH HOH . 
M 5 HOH A 71 276 72 HOH HOH . 
M 5 HOH A 72 277 73 HOH HOH . 
M 5 HOH A 73 278 75 HOH HOH . 
M 5 HOH A 74 279 76 HOH HOH . 
M 5 HOH A 75 280 77 HOH HOH . 
M 5 HOH A 76 281 78 HOH HOH . 
M 5 HOH A 77 282 79 HOH HOH . 
M 5 HOH A 78 283 80 HOH HOH . 
M 5 HOH A 79 284 81 HOH HOH . 
M 5 HOH A 80 285 82 HOH HOH . 
M 5 HOH A 81 286 83 HOH HOH . 
M 5 HOH A 82 287 84 HOH HOH . 
M 5 HOH A 83 288 85 HOH HOH . 
M 5 HOH A 84 289 86 HOH HOH . 
M 5 HOH A 85 290 87 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 . . . B 2 36.924 10.453 31.073 1 10.72 ? PG GNP 501 A 1 
HETATM 2 O O1G GNP . . . B 2 35.734 9.566 30.777 1 10.92 ? O1G GNP 501 A 1 
HETATM 3 O O2G GNP . . . B 2 36.723 11.33 32.292 1 11.17 ? O2G GNP 501 A 1 
HETATM 4 O O3G GNP . . . B 2 38.229 9.702 31.114 1 12.07 ? O3G GNP 501 A 1 
HETATM 5 N N3B GNP . . . B 2 37.056 11.473 29.76 1 10.12 ? N3B GNP 501 A 1 
HETATM 6 P PB GNP . . . B 2 35.922 12.603 29.307 1 9.69 ? PB GNP 501 A 1 
HETATM 7 O O1B GNP . . . B 2 35.467 13.352 30.503 1 9.53 ? O1B GNP 501 A 1 
HETATM 8 O O2B GNP . . . B 2 34.854 11.992 28.455 1 9.87 ? O2B GNP 501 A 1 
HETATM 9 O O3A GNP . . . B 2 36.742 13.586 28.333 1 9.49 ? O3A GNP 501 A 1 
HETATM 10 P PA GNP . . . B 2 37.395 14.988 28.667 1 10.58 ? PA GNP 501 A 1 
HETATM 11 O O1A GNP . . . B 2 36.313 15.996 28.881 1 11.47 ? O1A GNP 501 A 1 
HETATM 12 O O2A GNP . . . B 2 38.406 14.804 29.702 1 12.09 ? O2A GNP 501 A 1 
HETATM 13 O O5' GNP . . . B 2 38.018 15.386 27.284 1 11.31 ? O5' GNP 501 A 1 
HETATM 14 C C5' GNP . . . B 2 38.976 14.59 26.6 1 11.78 ? C5' GNP 501 A 1 
HETATM 15 C C4' GNP . . . B 2 39.648 15.429 25.508 1 10.59 ? C4' GNP 501 A 1 
HETATM 16 O O4' GNP . . . B 2 38.679 15.778 24.454 1 10.6 ? O4' GNP 501 A 1 
HETATM 17 C C3' GNP . . . B 2 40.27 16.742 25.973 1 11.18 ? C3' GNP 501 A 1 
HETATM 18 O O3' GNP . . . B 2 41.568 16.922 25.413 1 11.86 ? O3' GNP 501 A 1 
HETATM 19 C C2' GNP . . . B 2 39.3 17.79 25.451 1 10.91 ? C2' GNP 501 A 1 
HETATM 20 O O2' GNP . . . B 2 39.871 19.076 25.23 1 11.88 ? O2' GNP 501 A 1 
HETATM 21 C C1' GNP . . . B 2 38.825 17.149 24.177 1 10.11 ? C1' GNP 501 A 1 
HETATM 22 N N9 GNP . . . B 2 37.556 17.656 23.731 1 10.48 ? N9 GNP 501 A 1 
HETATM 23 C C8 GNP . . . B 2 36.39 17.685 24.451 1 10.08 ? C8 GNP 501 A 1 
HETATM 24 N N7 GNP . . . B 2 35.404 18.147 23.733 1 10.09 ? N7 GNP 501 A 1 
HETATM 25 C C5 GNP . . . B 2 35.925 18.448 22.482 1 10.18 ? C5 GNP 501 A 1 
HETATM 26 C C6 GNP . . . B 2 35.362 19.023 21.302 1 10.99 ? C6 GNP 501 A 1 
HETATM 27 O O6 GNP . . . B 2 34.177 19.377 21.094 1 10.62 ? O6 GNP 501 A 1 
HETATM 28 N N1 GNP . . . B 2 36.32 19.122 20.281 1 10.59 ? N1 GNP 501 A 1 
HETATM 29 C C2 GNP . . . B 2 37.633 18.779 20.371 1 9.98 ? C2 GNP 501 A 1 
HETATM 30 N N2 GNP . . . B 2 38.347 18.936 19.25 1 14.21 ? N2 GNP 501 A 1 
HETATM 31 N N3 GNP . . . B 2 38.158 18.249 21.453 1 10.76 ? N3 GNP 501 A 1 
HETATM 32 C C4 GNP . . . B 2 37.278 18.157 22.483 1 10.07 ? C4 GNP 501 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           300 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           32 
#