data_6XI7
#
_model_server_result.job_id            1KNpPNWGRbR191_vKi-GSw 
_model_server_result.datetime_utc      '2024-11-02 14:36:33' 
_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          6xi7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":201}' 
#
_entry.id    6XI7 
#
_exptl.entry_id    6XI7 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              522.196 
_entity.id                          3 
_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         120 
_cell.entry_id            6XI7 
_cell.length_a            91.89 
_cell.length_b            91.89 
_cell.length_c            154.11 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6XI7 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        182 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 63 2 2' 
#
_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,G,H,I,J,K,L,M,N,O,P 
_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 
#
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 18 A SER 17 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
metalc ? metalc2 A OG1 THR 36 A THR 35 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? 
metalc ? metalc3 C O1G GNP . A GNP 201 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? 
metalc ? metalc4 C O1B GNP . A GNP 201 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
metalc ? metalc5 D MG MG . A MG 202 1_555 O O HOH . A HOH 311 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? 
metalc ? metalc6 D MG MG . A MG 202 1_555 O O HOH . A HOH 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
metalc ? metalc7 B NE2 HIS 52 B HIS 103 1_555 N ZN ZN . B ZN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.54 ? 
metalc ? metalc8 B NE2 HIS 52 B HIS 103 1_555 N ZN ZN . B ZN 205 12_544 ? ? ? ? ? ? ? ? ? ? ? ? 2.673 ? 
metalc ? metalc9 B OE2 GLU 74 B GLU 125 1_555 N ZN ZN . B ZN 205 12_544 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? 
metalc ? metalc10 B ND1 HIS 88 B HIS 139 1_555 J ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? 
metalc ? metalc11 B SG CYS 101 B CYS 152 1_555 K ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? 
metalc ? metalc12 B SG CYS 104 B CYS 155 1_555 K ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? 
metalc ? metalc13 B SG CYS 114 B CYS 165 1_555 J ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? 
metalc ? metalc14 B SG CYS 117 B CYS 168 1_555 J ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? 
metalc ? metalc15 B ND1 HIS 122 B HIS 173 1_555 K ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? 
metalc ? metalc16 B SG CYS 125 B CYS 176 1_555 K ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? 
metalc ? metalc17 B SG CYS 133 B CYS 184 1_555 J ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? 
#
_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 129 n n 
PG O2G GNP sing 130 n n 
PG O3G GNP sing 131 n n 
PG N3B GNP sing 132 n n 
O2G HOG2 GNP sing 133 n n 
O3G HOG3 GNP sing 134 n n 
N3B PB GNP sing 135 n n 
N3B HNB3 GNP sing 136 n n 
PB O1B GNP doub 137 n n 
PB O2B GNP sing 138 n n 
PB O3A GNP sing 139 n n 
O2B HOB2 GNP sing 140 n n 
O3A PA GNP sing 141 n n 
PA O1A GNP doub 142 n n 
PA O2A GNP sing 143 n n 
PA O5' GNP sing 144 n n 
O2A HOA2 GNP sing 145 n n 
O5' C5' GNP sing 146 n n 
C5' C4' GNP sing 147 n n 
C5' "H5'2" GNP sing 148 n n 
C5' "H5'1" GNP sing 149 n n 
C4' O4' GNP sing 150 n n 
C4' C3' GNP sing 151 n n 
C4' H4' GNP sing 152 n n 
O4' C1' GNP sing 153 n n 
C3' O3' GNP sing 154 n n 
C3' C2' GNP sing 155 n n 
C3' H3' GNP sing 156 n n 
O3' HO3' GNP sing 157 n n 
C2' O2' GNP sing 158 n n 
C2' C1' GNP sing 159 n n 
C2' H2' GNP sing 160 n n 
O2' HO2' GNP sing 161 n n 
C1' N9 GNP sing 162 n n 
C1' H1' GNP sing 163 n n 
N9 C8 GNP sing 164 n y 
N9 C4 GNP sing 165 n y 
C8 N7 GNP doub 166 n y 
C8 H8 GNP sing 167 n n 
N7 C5 GNP sing 168 n y 
C5 C6 GNP sing 169 n y 
C5 C4 GNP doub 170 n y 
C6 O6 GNP doub 171 n n 
C6 N1 GNP sing 172 n y 
N1 C2 GNP sing 173 n y 
N1 HN1 GNP sing 174 n n 
C2 N2 GNP sing 175 n n 
C2 N3 GNP doub 176 n y 
N2 HN21 GNP sing 177 n n 
N2 HN22 GNP sing 178 n n 
N3 C4 GNP sing 179 n y 
#
_atom_sites.entry_id                     6XI7 
_atom_sites.fract_transf_matrix[1][1]    0.010883 
_atom_sites.fract_transf_matrix[1][2]    0.006283 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012566 
_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]    0.006489 
_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 3 GNP A 1 201 1 GNP GNP . 
D 4 MG A 1 202 2 MG MG . 
E 5 SO4 A 1 203 5 SO4 SO4 . 
F 5 SO4 A 1 204 6 SO4 SO4 . 
G 6 CL A 1 205 7 CL CL . 
H 6 CL A 1 206 8 CL CL . 
I 6 CL A 1 207 11 CL CL . 
J 7 ZN B 1 201 3 ZN ZN . 
K 7 ZN B 1 202 4 ZN ZN . 
L 6 CL B 1 203 9 CL CL . 
M 6 CL B 1 204 10 CL CL . 
N 7 ZN B 1 205 12 ZN ZN . 
O 8 HOH A 1 301 55 HOH HOH . 
O 8 HOH A 2 302 6 HOH HOH . 
O 8 HOH A 3 303 15 HOH HOH . 
O 8 HOH A 4 304 50 HOH HOH . 
O 8 HOH A 5 305 59 HOH HOH . 
O 8 HOH A 6 306 54 HOH HOH . 
O 8 HOH A 7 307 62 HOH HOH . 
O 8 HOH A 8 308 58 HOH HOH . 
O 8 HOH A 9 309 14 HOH HOH . 
O 8 HOH A 10 310 2 HOH HOH . 
O 8 HOH A 11 311 11 HOH HOH . 
O 8 HOH A 12 312 60 HOH HOH . 
O 8 HOH A 13 313 47 HOH HOH . 
O 8 HOH A 14 314 21 HOH HOH . 
O 8 HOH A 15 315 41 HOH HOH . 
O 8 HOH A 16 316 13 HOH HOH . 
O 8 HOH A 17 317 44 HOH HOH . 
O 8 HOH A 18 318 30 HOH HOH . 
O 8 HOH A 19 319 8 HOH HOH . 
O 8 HOH A 20 320 17 HOH HOH . 
O 8 HOH A 21 321 12 HOH HOH . 
O 8 HOH A 22 322 34 HOH HOH . 
O 8 HOH A 23 323 33 HOH HOH . 
O 8 HOH A 24 324 10 HOH HOH . 
O 8 HOH A 25 325 72 HOH HOH . 
O 8 HOH A 26 326 64 HOH HOH . 
O 8 HOH A 27 327 63 HOH HOH . 
O 8 HOH A 28 328 70 HOH HOH . 
O 8 HOH A 29 329 9 HOH HOH . 
O 8 HOH A 30 330 61 HOH HOH . 
O 8 HOH A 31 331 19 HOH HOH . 
O 8 HOH A 32 332 69 HOH HOH . 
O 8 HOH A 33 333 53 HOH HOH . 
O 8 HOH A 34 334 5 HOH HOH . 
O 8 HOH A 35 335 3 HOH HOH . 
O 8 HOH A 36 336 31 HOH HOH . 
O 8 HOH A 37 337 57 HOH HOH . 
O 8 HOH A 38 338 38 HOH HOH . 
O 8 HOH A 39 339 18 HOH HOH . 
O 8 HOH A 40 340 7 HOH HOH . 
O 8 HOH A 41 341 35 HOH HOH . 
O 8 HOH A 42 342 4 HOH HOH . 
O 8 HOH A 43 343 45 HOH HOH . 
O 8 HOH A 44 344 20 HOH HOH . 
O 8 HOH A 45 345 40 HOH HOH . 
O 8 HOH A 46 346 43 HOH HOH . 
O 8 HOH A 47 347 37 HOH HOH . 
O 8 HOH A 48 348 67 HOH HOH . 
O 8 HOH A 49 349 71 HOH HOH . 
O 8 HOH A 50 350 42 HOH HOH . 
O 8 HOH A 51 351 32 HOH HOH . 
O 8 HOH A 52 352 81 HOH HOH . 
O 8 HOH A 53 353 56 HOH HOH . 
O 8 HOH A 54 354 73 HOH HOH . 
O 8 HOH A 55 355 51 HOH HOH . 
O 8 HOH A 56 356 82 HOH HOH . 
O 8 HOH A 57 357 48 HOH HOH . 
P 8 HOH B 1 301 65 HOH HOH . 
P 8 HOH B 2 302 75 HOH HOH . 
P 8 HOH B 3 303 29 HOH HOH . 
P 8 HOH B 4 304 74 HOH HOH . 
P 8 HOH B 5 305 23 HOH HOH . 
P 8 HOH B 6 306 28 HOH HOH . 
P 8 HOH B 7 307 52 HOH HOH . 
P 8 HOH B 8 308 16 HOH HOH . 
P 8 HOH B 9 309 25 HOH HOH . 
P 8 HOH B 10 310 1 HOH HOH . 
P 8 HOH B 11 311 27 HOH HOH . 
P 8 HOH B 12 312 24 HOH HOH . 
P 8 HOH B 13 313 83 HOH HOH . 
P 8 HOH B 14 314 36 HOH HOH . 
P 8 HOH B 15 315 26 HOH HOH . 
P 8 HOH B 16 316 78 HOH HOH . 
P 8 HOH B 17 317 66 HOH HOH . 
P 8 HOH B 18 318 79 HOH HOH . 
P 8 HOH B 19 319 76 HOH HOH . 
P 8 HOH B 20 320 80 HOH HOH . 
P 8 HOH B 21 321 39 HOH HOH . 
P 8 HOH B 22 322 46 HOH HOH . 
P 8 HOH B 23 323 49 HOH HOH . 
P 8 HOH B 24 324 22 HOH HOH . 
P 8 HOH B 25 325 77 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 . . . C 3 9.559 -40.665 -22.001 1 44.51 ? PG GNP 201 A 1 
HETATM 2 O O1G GNP . . . C 3 10.519 -39.667 -22.49 1 45.17 ? O1G GNP 201 A 1 
HETATM 3 O O2G GNP . . . C 3 8.724 -41.128 -23.122 1 46.74 ? O2G GNP 201 A 1 
HETATM 4 O O3G GNP . . . C 3 10.342 -41.82 -21.563 1 45.06 ? O3G GNP 201 A 1 
HETATM 5 N N3B GNP . . . C 3 8.669 -40.021 -20.814 1 43.83 ? N3B GNP 201 A 1 
HETATM 6 P PB GNP . . . C 3 9.27 -39.336 -19.482 1 42.14 ? PB GNP 201 A 1 
HETATM 7 O O1B GNP . . . C 3 10.296 -38.319 -19.847 1 41.08 ? O1B GNP 201 A 1 
HETATM 8 O O2B GNP . . . C 3 9.603 -40.336 -18.432 1 41.43 ? O2B GNP 201 A 1 
HETATM 9 O O3A GNP . . . C 3 8.063 -38.529 -18.868 1 42.76 ? O3A GNP 201 A 1 
HETATM 10 P PA GNP . . . C 3 7.629 -37.01 -19.023 1 43.25 ? PA GNP 201 A 1 
HETATM 11 O O1A GNP . . . C 3 7.381 -36.758 -20.462 1 43.85 ? O1A GNP 201 A 1 
HETATM 12 O O2A GNP . . . C 3 8.607 -36.152 -18.318 1 42.63 ? O2A GNP 201 A 1 
HETATM 13 O O5' GNP . . . C 3 6.261 -37.007 -18.222 1 41.61 ? O5' GNP 201 A 1 
HETATM 14 C C5' GNP . . . C 3 5.137 -37.717 -18.776 1 47.11 ? C5' GNP 201 A 1 
HETATM 15 C C4' GNP . . . C 3 3.853 -37.07 -18.324 1 46.71 ? C4' GNP 201 A 1 
HETATM 16 O O4' GNP . . . C 3 3.802 -37.068 -16.879 1 41.29 ? O4' GNP 201 A 1 
HETATM 17 C C3' GNP . . . C 3 3.638 -35.613 -18.747 1 45.48 ? C3' GNP 201 A 1 
HETATM 18 O O3' GNP . . . C 3 2.267 -35.353 -18.997 1 48.04 ? O3' GNP 201 A 1 
HETATM 19 C C2' GNP . . . C 3 4.084 -34.827 -17.517 1 44.68 ? C2' GNP 201 A 1 
HETATM 20 O O2' GNP . . . C 3 3.462 -33.57 -17.42 1 45.14 ? O2' GNP 201 A 1 
HETATM 21 C C1' GNP . . . C 3 3.635 -35.758 -16.4 1 41.08 ? C1' GNP 201 A 1 
HETATM 22 N N9 GNP . . . C 3 4.426 -35.63 -15.189 1 40.18 ? N9 GNP 201 A 1 
HETATM 23 C C8 GNP . . . C 3 5.785 -35.736 -15.083 1 39.6 ? C8 GNP 201 A 1 
HETATM 24 N N7 GNP . . . C 3 6.22 -35.576 -13.862 1 38.97 ? N7 GNP 201 A 1 
HETATM 25 C C5 GNP . . . C 3 5.071 -35.364 -13.119 1 37.83 ? C5 GNP 201 A 1 
HETATM 26 C C6 GNP . . . C 3 4.915 -35.135 -11.736 1 36.32 ? C6 GNP 201 A 1 
HETATM 27 O O6 GNP . . . C 3 5.786 -35.084 -10.864 1 36.45 ? O6 GNP 201 A 1 
HETATM 28 N N1 GNP . . . C 3 3.576 -34.977 -11.403 1 35.42 ? N1 GNP 201 A 1 
HETATM 29 C C2 GNP . . . C 3 2.525 -35.022 -12.278 1 39.11 ? C2 GNP 201 A 1 
HETATM 30 N N2 GNP . . . C 3 1.307 -34.845 -11.762 1 35.78 ? N2 GNP 201 A 1 
HETATM 31 N N3 GNP . . . C 3 2.666 -35.233 -13.579 1 37.67 ? N3 GNP 201 A 1 
HETATM 32 C C4 GNP . . . C 3 3.96 -35.396 -13.925 1 37.77 ? C4 GNP 201 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           22 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           294 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           32 
#