data_7YZK
#
_model_server_result.job_id            99nR49FyjdGUBINmVsVvgA 
_model_server_result.datetime_utc      '2024-12-01 06:01:53' 
_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          7yzk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":501}' 
#
_entry.id    7YZK 
#
_exptl.entry_id    7YZK 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              656.328 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "3'-O-(N-METHYLANTHRANILOYL)-GUANOSINE-5'-TRIPHOSPHATE" 
_entity.pdbx_number_of_molecules    2 
_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            7YZK 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7YZK 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J 
_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    ? 
_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 E N N 
? 3 H 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
disulf ? disulf1 C SG CYS 24 C CYS 27 1_555 C SG CYS 97 C CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf2 D SG CYS 24 D CYS 27 1_555 D SG CYS 97 D CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
metalc ? metalc1 A OD2 ASP 282 A ASP 256 1_555 F MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? 
metalc ? metalc2 A OD1 ASP 282 A ASP 256 1_555 G MN MN . A MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? 
metalc ? metalc3 A O ILE 283 A ILE 257 1_555 F MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? 
metalc ? metalc4 A OD2 ASP 326 A ASP 300 1_555 F MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.489 ? 
metalc ? metalc5 A OD1 ASP 326 A ASP 300 1_555 G MN MN . A MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? 
metalc ? metalc6 A OD2 ASP 326 A ASP 300 1_555 G MN MN . A MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? 
metalc ? metalc7 E O2G ONM . A ONM 501 1_555 F MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? 
metalc ? metalc8 E O2A ONM . A ONM 501 1_555 G MN MN . A MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.923 ? 
metalc ? metalc9 B OD2 ASP 282 B ASP 256 1_555 I MN MN . B MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? 
metalc ? metalc10 B OD1 ASP 282 B ASP 256 1_555 J MN MN . B MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.538 ? 
metalc ? metalc11 B O ILE 283 B ILE 257 1_555 I MN MN . B MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? 
metalc ? metalc12 B OD2 ASP 326 B ASP 300 1_555 I MN MN . B MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.489 ? 
metalc ? metalc13 B OD1 ASP 326 B ASP 300 1_555 J MN MN . B MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? 
metalc ? metalc14 B OD2 ASP 326 B ASP 300 1_555 J MN MN . B MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? 
metalc ? metalc15 H O2G ONM . B ONM 501 1_555 I MN MN . B MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? 
metalc ? metalc16 H O2A ONM . B ONM 501 1_555 J MN MN . B MN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.923 ? 
#
_chem_comp.formula           'C18 H23 N6 O15 P3' 
_chem_comp.formula_weight    656.328 
_chem_comp.id                ONM 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "3'-O-(N-METHYLANTHRANILOYL)-GUANOSINE-5'-TRIPHOSPHATE" 
_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
CA7 NA1 ONM sing 235 n n 
CA7 HA71 ONM sing 236 n n 
CA7 HA72 ONM sing 237 n n 
CA7 HA73 ONM sing 238 n n 
NA1 CA6 ONM sing 239 n n 
NA1 HA1 ONM sing 240 n n 
CA6 CA5 ONM doub 241 n y 
CA6 CA1 ONM sing 242 n y 
CA5 CA4 ONM sing 243 n y 
CA5 HA5 ONM sing 244 n n 
CA4 CA3 ONM doub 245 n y 
CA4 HA4 ONM sing 246 n n 
CA3 CA2 ONM sing 247 n y 
CA3 HA3 ONM sing 248 n n 
CA2 CA1 ONM doub 249 n y 
CA2 HA2 ONM sing 250 n n 
CA1 CA ONM sing 251 n n 
CA OA ONM doub 252 n n 
CA O3' ONM sing 253 n n 
O3' C3' ONM sing 254 n n 
C3' C2' ONM sing 255 n n 
C3' C4' ONM sing 256 n n 
C3' H3' ONM sing 257 n n 
C2' O2' ONM sing 258 n n 
C2' C1' ONM sing 259 n n 
C2' H1 ONM sing 260 n n 
O2' H2' ONM sing 261 n n 
C4' C5' ONM sing 262 n n 
C4' O4' ONM sing 263 n n 
C4' H4' ONM sing 264 n n 
C5' O5' ONM sing 265 n n 
C5' "H5'1" ONM sing 266 n n 
C5' "H5'2" ONM sing 267 n n 
O5' PA ONM sing 268 n n 
PA O3A ONM doub 269 n n 
PA O2A ONM sing 270 n n 
PA O1A ONM sing 271 n n 
O2A H2A ONM sing 272 n n 
O1A PB ONM sing 273 n n 
PB O3B ONM doub 274 n n 
PB O2B ONM sing 275 n n 
PB O1B ONM sing 276 n n 
O2B H2B ONM sing 277 n n 
O1B PG ONM sing 278 n n 
PG O2G ONM doub 279 n n 
PG O3G ONM sing 280 n n 
PG O1G ONM sing 281 n n 
O3G H3G ONM sing 282 n n 
O1G H1G ONM sing 283 n n 
O4' C1' ONM sing 284 n n 
C1' N9 ONM sing 285 n n 
C1' H1' ONM sing 286 n n 
N9 C8 ONM sing 287 n y 
N9 C4 ONM sing 288 n y 
C8 N7 ONM doub 289 n y 
C8 H8 ONM sing 290 n n 
N7 C5 ONM sing 291 n y 
C5 C4 ONM doub 292 n y 
C5 C6 ONM sing 293 n n 
C4 N3 ONM sing 294 n n 
N3 C2 ONM doub 295 n n 
C2 N2 ONM sing 296 n n 
C2 N1 ONM sing 297 n n 
N2 HN21 ONM sing 298 n n 
N2 HN22 ONM sing 299 n n 
N1 C6 ONM sing 300 n n 
N1 HN1 ONM sing 301 n n 
C6 O6 ONM doub 302 n n 
#
_atom_sites.entry_id                     7YZK 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
E 3 ONM A 1 501 429 ONM ONM . 
F 4 MN A 1 502 431 MN MN . 
G 4 MN A 1 503 432 MN MN . 
H 3 ONM B 1 501 429 ONM ONM . 
I 4 MN B 1 502 431 MN MN . 
J 4 MN B 1 503 432 MN MN . 
#
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 C CA7 ONM . . . H 3 120.004 120.709 71.812 1 38.94 ? CA7 ONM 501 B 1 
HETATM 2 N NA1 ONM . . . H 3 121.183 121.523 72.205 1 38.94 ? NA1 ONM 501 B 1 
HETATM 3 C CA6 ONM . . . H 3 121.821 121.298 73.463 1 38.94 ? CA6 ONM 501 B 1 
HETATM 4 C CA5 ONM . . . H 3 121.206 120.52 74.422 1 38.94 ? CA5 ONM 501 B 1 
HETATM 5 C CA4 ONM . . . H 3 121.823 120.302 75.639 1 38.94 ? CA4 ONM 501 B 1 
HETATM 6 C CA3 ONM . . . H 3 123.062 120.863 75.899 1 38.94 ? CA3 ONM 501 B 1 
HETATM 7 C CA2 ONM . . . H 3 123.68 121.641 74.94 1 38.94 ? CA2 ONM 501 B 1 
HETATM 8 C CA1 ONM . . . H 3 123.063 121.861 73.722 1 38.94 ? CA1 ONM 501 B 1 
HETATM 9 C CA ONM . . . H 3 123.788 122.756 72.637 1 38.94 ? CA ONM 501 B 1 
HETATM 10 O OA ONM . . . H 3 123.207 123.087 71.648 1 38.94 ? OA ONM 501 B 1 
HETATM 11 O O3' ONM . . . H 3 125.145 123.15 72.866 1 38.94 ? O3' ONM 501 B 1 
HETATM 12 C C3' ONM . . . H 3 125.7 123.998 71.95 1 38.94 ? C3' ONM 501 B 1 
HETATM 13 C C2' ONM . . . H 3 125.559 125.416 72.409 1 38.94 ? C2' ONM 501 B 1 
HETATM 14 O O2' ONM . . . H 3 124.256 125.628 73.118 1 38.94 ? O2' ONM 501 B 1 
HETATM 15 C C4' ONM . . . H 3 127.274 123.769 71.906 1 38.94 ? C4' ONM 501 B 1 
HETATM 16 C C5' ONM . . . H 3 127.773 123.694 70.44 1 38.94 ? C5' ONM 501 B 1 
HETATM 17 O O5' ONM . . . H 3 127.556 124.927 69.792 1 38.94 ? O5' ONM 501 B 1 
HETATM 18 P PA ONM . . . H 3 128.844 125.671 69.106 1 38.94 ? PA ONM 501 B 1 
HETATM 19 O O3A ONM . . . H 3 128.481 127.103 68.788 1 38.94 ? O3A ONM 501 B 1 
HETATM 20 O O2A ONM . . . H 3 130.01 125.645 70.058 1 38.94 ? O2A ONM 501 B 1 
HETATM 21 O O1A ONM . . . H 3 129.262 124.884 67.697 1 38.94 ? O1A ONM 501 B 1 
HETATM 22 P PB ONM . . . H 3 129.273 123.247 67.496 1 38.94 ? PB ONM 501 B 1 
HETATM 23 O O3B ONM . . . H 3 130.018 122.595 68.634 1 38.94 ? O3B ONM 501 B 1 
HETATM 24 O O2B ONM . . . H 3 127.864 122.723 67.439 1 38.94 ? O2B ONM 501 B 1 
HETATM 25 O O1B ONM . . . H 3 130.052 122.901 66.086 1 38.94 ? O1B ONM 501 B 1 
HETATM 26 P PG ONM . . . H 3 131.555 123.5 65.741 0.45 38.94 ? PG ONM 501 B 1 
HETATM 27 O O2G ONM . . . H 3 132.594 122.434 65.991 1 38.94 ? O2G ONM 501 B 1 
HETATM 28 O O3G ONM . . . H 3 131.83 124.692 66.647 1 38.94 ? O3G ONM 501 B 1 
HETATM 29 O O1G ONM . . . H 3 131.611 123.941 64.293 1 38.94 ? O1G ONM 501 B 1 
HETATM 30 O O4' ONM . . . H 3 127.797 124.788 72.498 1 38.94 ? O4' ONM 501 B 1 
HETATM 31 C C1' ONM . . . H 3 126.581 125.527 73.257 1 38.94 ? C1' ONM 501 B 1 
HETATM 32 N N9 ONM . . . H 3 126.905 126.894 73.526 1 38.94 ? N9 ONM 501 B 1 
HETATM 33 C C8 ONM . . . H 3 127.536 127.713 72.666 1 38.94 ? C8 ONM 501 B 1 
HETATM 34 N N7 ONM . . . H 3 127.674 128.919 73.261 1 38.94 ? N7 ONM 501 B 1 
HETATM 35 C C5 ONM . . . H 3 127.138 128.841 74.474 1 38.94 ? C5 ONM 501 B 1 
HETATM 36 C C4 ONM . . . H 3 126.659 127.577 74.64 1 38.94 ? C4 ONM 501 B 1 
HETATM 37 N N3 ONM . . . H 3 125.991 127.177 75.92 1 38.94 ? N3 ONM 501 B 1 
HETATM 38 C C2 ONM . . . H 3 125.85 128.151 77.002 1 38.94 ? C2 ONM 501 B 1 
HETATM 39 N N2 ONM . . . H 3 125.2 127.765 78.248 1 38.94 ? N2 ONM 501 B 1 
HETATM 40 N N1 ONM . . . H 3 126.354 129.494 76.836 1 38.94 ? N1 ONM 501 B 1 
HETATM 41 C C6 ONM . . . H 3 126.992 129.87 75.61 1 38.94 ? C6 ONM 501 B 1 
HETATM 42 O O6 ONM . . . H 3 127.409 130.973 75.468 1 38.94 ? O6 ONM 501 B 1 
HETATM 43 H HA71 ONM . . . H 3 119.274 120.88 72.427 1 36.56 ? HA71 ONM 501 B 1 
HETATM 44 H HA72 ONM . . . H 3 119.732 120.946 70.912 1 36.56 ? HA72 ONM 501 B 1 
HETATM 45 H HA73 ONM . . . H 3 120.238 119.768 71.841 1 36.56 ? HA73 ONM 501 B 1 
HETATM 46 H HA1 ONM . . . H 3 121.48 122.131 71.675 1 36.56 ? HA1 ONM 501 B 1 
HETATM 47 H HA5 ONM . . . H 3 120.375 120.142 74.252 1 36.56 ? HA5 ONM 501 B 1 
HETATM 48 H HA4 ONM . . . H 3 121.407 119.778 76.284 1 36.56 ? HA4 ONM 501 B 1 
HETATM 49 H HA3 ONM . . . H 3 123.477 120.716 76.718 1 36.56 ? HA3 ONM 501 B 1 
HETATM 50 H HA2 ONM . . . H 3 124.511 122.019 75.113 1 36.56 ? HA2 ONM 501 B 1 
HETATM 51 H H3' ONM . . . H 3 125.315 123.881 71.069 1 36.56 ? H3' ONM 501 B 1 
HETATM 52 H H1 ONM . . . H 3 125.659 126.027 71.664 1 36.56 ? H1 ONM 501 B 1 
HETATM 53 H H2' ONM . . . H 3 124.19 126.443 73.347 1 36.56 ? H2' ONM 501 B 1 
HETATM 54 H H4' ONM . . . H 3 127.502 122.956 72.383 1 36.56 ? H4' ONM 501 B 1 
HETATM 55 H "H5'1" ONM . . . H 3 128.721 123.491 70.429 1 36.56 ? "H5'1" ONM 501 B 1 
HETATM 56 H "H5'2" ONM . . . H 3 127.29 122.997 69.971 1 36.56 ? "H5'2" ONM 501 B 1 
HETATM 57 H H1' ONM . . . H 3 126.371 125.062 74.082 1 36.56 ? H1' ONM 501 B 1 
HETATM 58 H H8 ONM . . . H 3 127.823 127.489 71.811 1 36.56 ? H8 ONM 501 B 1 
HETATM 59 H HN21 ONM . . . H 3 124.9 126.965 78.345 1 36.56 ? HN21 ONM 501 B 1 
HETATM 60 H HN22 ONM . . . H 3 125.116 128.337 78.885 1 36.56 ? HN22 ONM 501 B 1 
HETATM 61 H HN1 ONM . . . H 3 126.269 130.064 77.471 1 36.56 ? HN1 ONM 501 B 1 
#
_model_server_stats.io_time_ms              25 
_model_server_stats.parse_time_ms           41 
_model_server_stats.create_model_time_ms    42 
_model_server_stats.query_time_ms           478 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           61 
#