data_6GQX
#
_model_server_result.job_id            YmFiCyUyfaBA49XOnw_org 
_model_server_result.datetime_utc      '2024-11-02 12:26:00' 
_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          6gqx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":202}' 
#
_entry.id    6GQX 
#
_exptl.entry_id    6GQX 
_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    6 
_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            6GQX 
_cell.length_a            63.187 
_cell.length_b            118.032 
_cell.length_c            156.371 
_cell.Z_PDB               20 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6GQX 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
? monomeric 1 author_defined_assembly 5 
? monomeric 1 author_defined_assembly 6 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,G,H,I,S 1 1 
B,J,K,L,T 2 1 
C,M,N,O,U 3 1 
D,P,V 4 1 
E,Q,W 5 1 
F,R,X 6 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 H N N 
? 4 K N N 
? 4 N N N 
? 4 P N N 
? 4 Q N N 
? 4 R 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 21 A SER 17 1_555 G MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? 
metalc ? metalc2 A OG1 THR 39 A THR 35 1_555 G MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? 
metalc ? metalc3 G MG MG . A MG 201 1_555 H O2B GNP . A GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
metalc ? metalc4 G MG MG . A MG 201 1_555 H O2G GNP . A GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
metalc ? metalc5 G MG MG . A MG 201 1_555 S O HOH . A HOH 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? 
metalc ? metalc6 G MG MG . A MG 201 1_555 S O HOH . A HOH 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? 
metalc ? metalc7 B OG SER 20 B SER 17 1_555 J MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? 
metalc ? metalc8 B OG1 THR 38 B THR 35 1_555 J MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? 
metalc ? metalc9 J MG MG . B MG 201 1_555 K O2B GNP . B GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? 
metalc ? metalc10 J MG MG . B MG 201 1_555 K O2G GNP . B GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? 
metalc ? metalc11 J MG MG . B MG 201 1_555 T O HOH . B HOH 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? 
metalc ? metalc12 J MG MG . B MG 201 1_555 T O HOH . B HOH 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? 
metalc ? metalc13 C OG SER 21 C SER 17 1_555 M MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? 
metalc ? metalc14 C OG1 THR 39 C THR 35 1_555 M MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? 
metalc ? metalc15 M MG MG . C MG 201 1_555 N O1G GNP . C GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? 
metalc ? metalc16 M MG MG . C MG 201 1_555 N O1B GNP . C GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.776 ? 
metalc ? metalc17 M MG MG . C MG 201 1_555 U O HOH . C HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? 
metalc ? metalc18 M MG MG . C MG 201 1_555 U O HOH . C HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? 
#
_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 185 n n 
PG O2G GNP sing 186 n n 
PG O3G GNP sing 187 n n 
PG N3B GNP sing 188 n n 
O2G HOG2 GNP sing 189 n n 
O3G HOG3 GNP sing 190 n n 
N3B PB GNP sing 191 n n 
N3B HNB3 GNP sing 192 n n 
PB O1B GNP doub 193 n n 
PB O2B GNP sing 194 n n 
PB O3A GNP sing 195 n n 
O2B HOB2 GNP sing 196 n n 
O3A PA GNP sing 197 n n 
PA O1A GNP doub 198 n n 
PA O2A GNP sing 199 n n 
PA O5' GNP sing 200 n n 
O2A HOA2 GNP sing 201 n n 
O5' C5' GNP sing 202 n n 
C5' C4' GNP sing 203 n n 
C5' "H5'2" GNP sing 204 n n 
C5' "H5'1" GNP sing 205 n n 
C4' O4' GNP sing 206 n n 
C4' C3' GNP sing 207 n n 
C4' H4' GNP sing 208 n n 
O4' C1' GNP sing 209 n n 
C3' O3' GNP sing 210 n n 
C3' C2' GNP sing 211 n n 
C3' H3' GNP sing 212 n n 
O3' HO3' GNP sing 213 n n 
C2' O2' GNP sing 214 n n 
C2' C1' GNP sing 215 n n 
C2' H2' GNP sing 216 n n 
O2' HO2' GNP sing 217 n n 
C1' N9 GNP sing 218 n n 
C1' H1' GNP sing 219 n n 
N9 C8 GNP sing 220 n y 
N9 C4 GNP sing 221 n y 
C8 N7 GNP doub 222 n y 
C8 H8 GNP sing 223 n n 
N7 C5 GNP sing 224 n y 
C5 C6 GNP sing 225 n y 
C5 C4 GNP doub 226 n y 
C6 O6 GNP doub 227 n n 
C6 N1 GNP sing 228 n y 
N1 C2 GNP sing 229 n y 
N1 HN1 GNP sing 230 n n 
C2 N2 GNP sing 231 n n 
C2 N3 GNP doub 232 n y 
N2 HN21 GNP sing 233 n n 
N2 HN22 GNP sing 234 n n 
N3 C4 GNP sing 235 n y 
#
_atom_sites.entry_id                     6GQX 
_atom_sites.fract_transf_matrix[1][1]    0.015826 
_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]    0.008472 
_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]    0.006395 
_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
G 3 MG A 1 201 202 MG MG . 
H 4 GNP A 1 202 201 GNP GNP . 
I 5 F8K A 1 203 203 F8K Ch2 . 
J 3 MG B 1 201 202 MG MG . 
K 4 GNP B 1 202 201 GNP GNP . 
L 5 F8K B 1 203 203 F8K Ch2 . 
M 3 MG C 1 201 202 MG MG . 
N 4 GNP C 1 202 201 GNP GNP . 
O 5 F8K C 1 203 203 F8K Ch2 . 
P 4 GNP D 1 201 201 GNP GNP . 
Q 4 GNP E 1 201 201 GNP GNP . 
R 4 GNP F 1 201 201 GNP GNP . 
S 6 HOH A 1 301 87 HOH HOH . 
S 6 HOH A 2 302 38 HOH HOH . 
S 6 HOH A 3 303 79 HOH HOH . 
S 6 HOH A 4 304 62 HOH HOH . 
S 6 HOH A 5 305 29 HOH HOH . 
S 6 HOH A 6 306 9 HOH HOH . 
S 6 HOH A 7 307 92 HOH HOH . 
S 6 HOH A 8 308 5 HOH HOH . 
S 6 HOH A 9 309 18 HOH HOH . 
S 6 HOH A 10 310 15 HOH HOH . 
S 6 HOH A 11 311 44 HOH HOH . 
S 6 HOH A 12 312 12 HOH HOH . 
S 6 HOH A 13 313 39 HOH HOH . 
S 6 HOH A 14 314 8 HOH HOH . 
S 6 HOH A 15 315 91 HOH HOH . 
S 6 HOH A 16 316 10 HOH HOH . 
S 6 HOH A 17 317 56 HOH HOH . 
S 6 HOH A 18 318 20 HOH HOH . 
S 6 HOH A 19 319 51 HOH HOH . 
S 6 HOH A 20 320 23 HOH HOH . 
S 6 HOH A 21 321 63 HOH HOH . 
S 6 HOH A 22 322 58 HOH HOH . 
S 6 HOH A 23 323 50 HOH HOH . 
S 6 HOH A 24 324 41 HOH HOH . 
S 6 HOH A 25 325 86 HOH HOH . 
S 6 HOH A 26 326 83 HOH HOH . 
S 6 HOH A 27 327 90 HOH HOH . 
S 6 HOH A 28 328 88 HOH HOH . 
S 6 HOH A 29 329 21 HOH HOH . 
S 6 HOH A 30 330 82 HOH HOH . 
T 6 HOH B 1 301 64 HOH HOH . 
T 6 HOH B 2 302 67 HOH HOH . 
T 6 HOH B 3 303 61 HOH HOH . 
T 6 HOH B 4 304 31 HOH HOH . 
T 6 HOH B 5 305 94 HOH HOH . 
T 6 HOH B 6 306 59 HOH HOH . 
T 6 HOH B 7 307 60 HOH HOH . 
T 6 HOH B 8 308 32 HOH HOH . 
T 6 HOH B 9 309 34 HOH HOH . 
T 6 HOH B 10 310 3 HOH HOH . 
T 6 HOH B 11 311 85 HOH HOH . 
T 6 HOH B 12 312 19 HOH HOH . 
T 6 HOH B 13 313 11 HOH HOH . 
T 6 HOH B 14 314 80 HOH HOH . 
T 6 HOH B 15 315 22 HOH HOH . 
T 6 HOH B 16 316 24 HOH HOH . 
T 6 HOH B 17 317 17 HOH HOH . 
T 6 HOH B 18 318 1 HOH HOH . 
T 6 HOH B 19 319 95 HOH HOH . 
T 6 HOH B 20 320 13 HOH HOH . 
T 6 HOH B 21 321 69 HOH HOH . 
T 6 HOH B 22 322 6 HOH HOH . 
T 6 HOH B 23 323 78 HOH HOH . 
T 6 HOH B 24 324 72 HOH HOH . 
T 6 HOH B 25 325 73 HOH HOH . 
T 6 HOH B 26 326 30 HOH HOH . 
T 6 HOH B 27 327 52 HOH HOH . 
T 6 HOH B 28 328 45 HOH HOH . 
U 6 HOH C 1 301 66 HOH HOH . 
U 6 HOH C 2 302 65 HOH HOH . 
U 6 HOH C 3 303 48 HOH HOH . 
U 6 HOH C 4 304 74 HOH HOH . 
U 6 HOH C 5 305 33 HOH HOH . 
U 6 HOH C 6 306 75 HOH HOH . 
U 6 HOH C 7 307 36 HOH HOH . 
U 6 HOH C 8 308 49 HOH HOH . 
U 6 HOH C 9 309 43 HOH HOH . 
U 6 HOH C 10 310 89 HOH HOH . 
V 6 HOH D 1 301 68 HOH HOH . 
V 6 HOH D 2 302 40 HOH HOH . 
V 6 HOH D 3 303 7 HOH HOH . 
V 6 HOH D 4 304 84 HOH HOH . 
V 6 HOH D 5 305 46 HOH HOH . 
V 6 HOH D 6 306 26 HOH HOH . 
V 6 HOH D 7 307 27 HOH HOH . 
V 6 HOH D 8 308 47 HOH HOH . 
V 6 HOH D 9 309 55 HOH HOH . 
V 6 HOH D 10 310 53 HOH HOH . 
W 6 HOH E 1 301 96 HOH HOH . 
W 6 HOH E 2 302 71 HOH HOH . 
W 6 HOH E 3 303 81 HOH HOH . 
W 6 HOH E 4 304 14 HOH HOH . 
W 6 HOH E 5 305 57 HOH HOH . 
W 6 HOH E 6 306 37 HOH HOH . 
W 6 HOH E 7 307 77 HOH HOH . 
X 6 HOH F 1 301 76 HOH HOH . 
X 6 HOH F 2 302 42 HOH HOH . 
X 6 HOH F 3 303 54 HOH HOH . 
X 6 HOH F 4 304 2 HOH HOH . 
X 6 HOH F 5 305 93 HOH HOH . 
X 6 HOH F 6 306 28 HOH HOH . 
X 6 HOH F 7 307 16 HOH HOH . 
X 6 HOH F 8 308 25 HOH HOH . 
X 6 HOH F 9 309 35 HOH HOH . 
X 6 HOH F 10 310 70 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 . . . K 4 31.747 93.917 10.257 1 27.91 ? PG GNP 202 B 1 
HETATM 2 O O1G GNP . . . K 4 31.577 92.495 9.674 1 26.46 ? O1G GNP 202 B 1 
HETATM 3 O O2G GNP . . . K 4 32.351 93.678 11.627 1 25.22 ? O2G GNP 202 B 1 
HETATM 4 O O3G GNP . . . K 4 30.448 94.576 10.448 1 24.82 ? O3G GNP 202 B 1 
HETATM 5 N N3B GNP . . . K 4 32.703 94.93 9.389 1 24.01 ? N3B GNP 202 B 1 
HETATM 6 P PB GNP . . . K 4 33.363 96.271 10.027 1 21.87 ? PB GNP 202 B 1 
HETATM 7 O O1B GNP . . . K 4 32.455 97.449 9.899 1 21.18 ? O1B GNP 202 B 1 
HETATM 8 O O2B GNP . . . K 4 34.048 96.014 11.341 1 18.83 ? O2B GNP 202 B 1 
HETATM 9 O O3A GNP . . . K 4 34.598 96.623 9.017 1 20.92 ? O3A GNP 202 B 1 
HETATM 10 P PA GNP . . . K 4 36.172 96.237 9.04 1 21.74 ? PA GNP 202 B 1 
HETATM 11 O O1A GNP . . . K 4 36.391 94.759 9.143 1 21.77 ? O1A GNP 202 B 1 
HETATM 12 O O2A GNP . . . K 4 36.749 97.102 10.104 1 21.17 ? O2A GNP 202 B 1 
HETATM 13 O O5' GNP . . . K 4 36.632 96.757 7.611 1 20.23 ? O5' GNP 202 B 1 
HETATM 14 C C5' GNP . . . K 4 36.178 96.151 6.38 1 22.43 ? C5' GNP 202 B 1 
HETATM 15 C C4' GNP . . . K 4 37.219 96.325 5.284 1 20.63 ? C4' GNP 202 B 1 
HETATM 16 O O4' GNP . . . K 4 37.38 97.737 4.972 1 19.88 ? O4' GNP 202 B 1 
HETATM 17 C C3' GNP . . . K 4 38.629 95.857 5.628 1 20.8 ? C3' GNP 202 B 1 
HETATM 18 O O3' GNP . . . K 4 39.274 95.391 4.46 1 21.17 ? O3' GNP 202 B 1 
HETATM 19 C C2' GNP . . . K 4 39.313 97.143 6.115 1 20.91 ? C2' GNP 202 B 1 
HETATM 20 O O2' GNP . . . K 4 40.704 97.087 5.896 1 21.58 ? O2' GNP 202 B 1 
HETATM 21 C C1' GNP . . . K 4 38.702 98.169 5.181 1 18.8 ? C1' GNP 202 B 1 
HETATM 22 N N9 GNP . . . K 4 38.683 99.515 5.735 1 19.26 ? N9 GNP 202 B 1 
HETATM 23 C C8 GNP . . . K 4 38.091 99.915 6.909 1 20.86 ? C8 GNP 202 B 1 
HETATM 24 N N7 GNP . . . K 4 38.256 101.192 7.158 1 20.86 ? N7 GNP 202 B 1 
HETATM 25 C C5 GNP . . . K 4 38.962 101.663 6.059 1 18.72 ? C5 GNP 202 B 1 
HETATM 26 C C6 GNP . . . K 4 39.394 102.967 5.76 1 20.07 ? C6 GNP 202 B 1 
HETATM 27 O O6 GNP . . . K 4 39.213 103.986 6.435 1 25.17 ? O6 GNP 202 B 1 
HETATM 28 N N1 GNP . . . K 4 40.044 103.035 4.527 1 20.19 ? N1 GNP 202 B 1 
HETATM 29 C C2 GNP . . . K 4 40.269 101.962 3.699 1 22.23 ? C2 GNP 202 B 1 
HETATM 30 N N2 GNP . . . K 4 41.003 102.176 2.595 1 21.52 ? N2 GNP 202 B 1 
HETATM 31 N N3 GNP . . . K 4 39.881 100.727 3.994 1 19.5 ? N3 GNP 202 B 1 
HETATM 32 C C4 GNP . . . K 4 39.218 100.653 5.172 1 18.96 ? C4 GNP 202 B 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           218 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           32 
#