data_6GQY
#
_model_server_result.job_id            XK9XK4csyM6eyjoXqixvvQ 
_model_server_result.datetime_utc      '2024-11-02 12:34:07' 
_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          6gqy 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":202}' 
#
_entry.id    6GQY 
#
_exptl.entry_id    6GQY 
_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    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            6GQY 
_cell.length_a            63.531 
_cell.length_b            118.678 
_cell.length_c            156.996 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6GQY 
_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,W 1 1 
B,J,K,L,X 2 1 
C,M,N,O,Y 3 1 
D,P,Q,R,Z 4 1 
E,S,T,AA 5 1 
F,U,V,BA 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
? 3 H N N 
? 3 K N N 
? 3 N N N 
? 3 Q N N 
? 3 T N N 
? 3 V 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? 
metalc ? metalc2 A OG1 THR 39 A THR 35 1_555 G MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? 
metalc ? metalc3 G MG MG . A MG 201 1_555 H O2B GNP . A GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc4 G MG MG . A MG 201 1_555 H O2G GNP . A GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? 
metalc ? metalc5 G MG MG . A MG 201 1_555 W O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? 
metalc ? metalc6 B OG SER 21 B SER 17 1_555 J MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.48 ? 
metalc ? metalc7 B OG1 THR 39 B THR 35 1_555 J MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? 
metalc ? metalc8 J MG MG . B MG 201 1_555 K O2B GNP . B GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? 
metalc ? metalc9 J MG MG . B MG 201 1_555 K O1A GNP . B GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.862 ? 
metalc ? metalc10 J MG MG . B MG 201 1_555 K O2G GNP . B GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? 
metalc ? metalc11 J MG MG . B MG 201 1_555 X O HOH . B HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.651 ? 
metalc ? metalc12 C OG SER 21 C SER 17 1_555 M MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.224 ? 
metalc ? metalc13 C OG1 THR 39 C THR 35 1_555 M MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? 
metalc ? metalc14 M MG MG . C MG 201 1_555 N O1G GNP . C GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? 
metalc ? metalc15 M MG MG . C MG 201 1_555 N O1B GNP . C GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? 
metalc ? metalc16 D OG SER 21 D SER 17 1_555 P MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? 
metalc ? metalc17 D OG1 THR 39 D THR 35 1_555 P MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? 
metalc ? metalc18 P MG MG . D MG 201 1_555 Q O2G GNP . D GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? 
metalc ? metalc19 P MG MG . D MG 201 1_555 Q O2B GNP . D GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? 
metalc ? metalc20 E OG SER 21 E SER 17 1_555 S MG MG . E MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.746 ? 
metalc ? metalc21 E OG1 THR 39 E THR 35 1_555 S MG MG . E MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? 
metalc ? metalc22 E O THR 62 E THR 58 1_555 S MG MG . E MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.962 ? 
metalc ? metalc23 S MG MG . E MG 201 1_555 T O1G GNP . E GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? 
metalc ? metalc24 S MG MG . E MG 201 1_555 T O1B GNP . E GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.752 ? 
metalc ? metalc25 F OG SER 21 F SER 17 1_555 U MG MG . F MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? 
metalc ? metalc26 F OG1 THR 39 F THR 35 1_555 U MG MG . F MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? 
metalc ? metalc27 U MG MG . F MG 201 1_555 V O1B GNP . F GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? 
metalc ? metalc28 U MG MG . F MG 201 1_555 V O1G GNP . F GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.506 ? 
#
_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                     6GQY 
_atom_sites.fract_transf_matrix[1][1]    0.01574 
_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]    0.008426 
_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]    0.00637 
_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 2 MG A 1 201 202 MG MG . 
H 3 GNP A 1 202 201 GNP GNP . 
I 4 F8Q A 1 203 203 F8Q 902 . 
J 2 MG B 1 201 202 MG MG . 
K 3 GNP B 1 202 201 GNP GNP . 
L 4 F8Q B 1 203 203 F8Q 902 . 
M 2 MG C 1 201 202 MG MG . 
N 3 GNP C 1 202 201 GNP GNP . 
O 4 F8Q C 1 203 203 F8Q 902 . 
P 2 MG D 1 201 202 MG MG . 
Q 3 GNP D 1 202 201 GNP GNP . 
R 4 F8Q D 1 203 203 F8Q 902 . 
S 2 MG E 1 201 202 MG MG . 
T 3 GNP E 1 202 201 GNP GNP . 
U 2 MG F 1 201 202 MG MG . 
V 3 GNP F 1 202 201 GNP GNP . 
W 5 HOH A 1 301 218 HOH HOH . 
W 5 HOH A 2 302 119 HOH HOH . 
W 5 HOH A 3 303 120 HOH HOH . 
W 5 HOH A 4 304 213 HOH HOH . 
W 5 HOH A 5 305 1 HOH HOH . 
W 5 HOH A 6 306 124 HOH HOH . 
W 5 HOH A 7 307 45 HOH HOH . 
W 5 HOH A 8 308 18 HOH HOH . 
W 5 HOH A 9 309 40 HOH HOH . 
W 5 HOH A 10 310 56 HOH HOH . 
W 5 HOH A 11 311 29 HOH HOH . 
W 5 HOH A 12 312 214 HOH HOH . 
X 5 HOH B 1 301 116 HOH HOH . 
X 5 HOH B 2 302 24 HOH HOH . 
X 5 HOH B 3 303 219 HOH HOH . 
X 5 HOH B 4 304 115 HOH HOH . 
X 5 HOH B 5 305 122 HOH HOH . 
X 5 HOH B 6 306 129 HOH HOH . 
X 5 HOH B 7 307 25 HOH HOH . 
X 5 HOH B 8 308 112 HOH HOH . 
X 5 HOH B 9 309 7 HOH HOH . 
X 5 HOH B 10 310 79 HOH HOH . 
Y 5 HOH C 1 301 66 HOH HOH . 
Y 5 HOH C 2 302 125 HOH HOH . 
Y 5 HOH C 3 303 121 HOH HOH . 
Y 5 HOH C 4 304 11 HOH HOH . 
Y 5 HOH C 5 305 114 HOH HOH . 
Y 5 HOH C 6 306 123 HOH HOH . 
Y 5 HOH C 7 307 21 HOH HOH . 
Y 5 HOH C 8 308 13 HOH HOH . 
Y 5 HOH C 9 309 29 HOH HOH . 
Z 5 HOH D 1 301 128 HOH HOH . 
Z 5 HOH D 2 302 126 HOH HOH . 
Z 5 HOH D 3 303 120 HOH HOH . 
Z 5 HOH D 4 304 49 HOH HOH . 
Z 5 HOH D 5 305 217 HOH HOH . 
Z 5 HOH D 6 306 23 HOH HOH . 
Z 5 HOH D 7 307 4 HOH HOH . 
Z 5 HOH D 8 308 34 HOH HOH . 
AA 5 HOH E 1 301 127 HOH HOH . 
AA 5 HOH E 2 302 9 HOH HOH . 
AA 5 HOH E 3 303 117 HOH HOH . 
AA 5 HOH E 4 304 6 HOH HOH . 
AA 5 HOH E 5 305 27 HOH HOH . 
AA 5 HOH E 6 306 170 HOH HOH . 
BA 5 HOH F 1 301 216 HOH HOH . 
BA 5 HOH F 2 302 118 HOH HOH . 
BA 5 HOH F 3 303 42 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 . . . H 3 69.754 108.029 2.158 1 19.48 ? PG GNP 202 A 1 
HETATM 2 O O1G GNP . . . H 3 70.756 108.55 1.118 1 20.04 ? O1G GNP 202 A 1 
HETATM 3 O O2G GNP . . . H 3 70.196 108.256 3.598 1 17.47 ? O2G GNP 202 A 1 
HETATM 4 O O3G GNP . . . H 3 69.609 106.555 1.925 1 20.19 ? O3G GNP 202 A 1 
HETATM 5 N N3B GNP . . . H 3 68.301 108.69 1.92 1 18.6 ? N3B GNP 202 A 1 
HETATM 6 P PB GNP . . . H 3 66.991 108.312 2.795 1 17.75 ? PB GNP 202 A 1 
HETATM 7 O O1B GNP . . . H 3 66.447 106.975 2.372 1 18.55 ? O1B GNP 202 A 1 
HETATM 8 O O2B GNP . . . H 3 67.232 108.504 4.256 1 17.68 ? O2B GNP 202 A 1 
HETATM 9 O O3A GNP . . . H 3 66.011 109.467 2.248 1 17.63 ? O3A GNP 202 A 1 
HETATM 10 P PA GNP . . . H 3 65.742 110.854 3.009 1 19.27 ? PA GNP 202 A 1 
HETATM 11 O O1A GNP . . . H 3 67.029 111.628 2.987 1 20.45 ? O1A GNP 202 A 1 
HETATM 12 O O2A GNP . . . H 3 65.112 110.562 4.336 1 18.42 ? O2A GNP 202 A 1 
HETATM 13 O O5' GNP . . . H 3 64.661 111.556 2.068 1 19.28 ? O5' GNP 202 A 1 
HETATM 14 C C5' GNP . . . H 3 65.018 111.764 0.683 1 20.97 ? C5' GNP 202 A 1 
HETATM 15 C C4' GNP . . . H 3 64.172 112.88 0.114 1 21.24 ? C4' GNP 202 A 1 
HETATM 16 O O4' GNP . . . H 3 62.815 112.402 0.016 1 22.46 ? O4' GNP 202 A 1 
HETATM 17 C C3' GNP . . . H 3 64.085 114.157 0.954 1 21.86 ? C3' GNP 202 A 1 
HETATM 18 O O3' GNP . . . H 3 63.874 115.335 0.209 1 21.08 ? O3' GNP 202 A 1 
HETATM 19 C C2' GNP . . . H 3 62.781 114.006 1.73 1 23.44 ? C2' GNP 202 A 1 
HETATM 20 O O2' GNP . . . H 3 62.25 115.282 2.004 1 24.57 ? O2' GNP 202 A 1 
HETATM 21 C C1' GNP . . . H 3 61.93 113.234 0.735 1 23.43 ? C1' GNP 202 A 1 
HETATM 22 N N9 GNP . . . H 3 60.919 112.387 1.367 1 23.39 ? N9 GNP 202 A 1 
HETATM 23 C C8 GNP . . . H 3 61.151 111.404 2.288 1 23.5 ? C8 GNP 202 A 1 
HETATM 24 N N7 GNP . . . H 3 60.062 110.78 2.67 1 23.34 ? N7 GNP 202 A 1 
HETATM 25 C C5 GNP . . . H 3 59.054 111.4 1.963 1 21.66 ? C5 GNP 202 A 1 
HETATM 26 C C6 GNP . . . H 3 57.669 111.155 1.998 1 23.3 ? C6 GNP 202 A 1 
HETATM 27 O O6 GNP . . . H 3 57.06 110.301 2.669 1 21.39 ? O6 GNP 202 A 1 
HETATM 28 N N1 GNP . . . H 3 57.003 112.021 1.125 1 24.32 ? N1 GNP 202 A 1 
HETATM 29 C C2 GNP . . . H 3 57.589 112.975 0.33 1 23.04 ? C2 GNP 202 A 1 
HETATM 30 N N2 GNP . . . H 3 56.776 113.709 -0.444 1 23.33 ? N2 GNP 202 A 1 
HETATM 31 N N3 GNP . . . H 3 58.894 113.21 0.318 1 21.84 ? N3 GNP 202 A 1 
HETATM 32 C C4 GNP . . . H 3 59.559 112.388 1.155 1 21.91 ? C4 GNP 202 A 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           298 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           32 
#