data_6R4O
#
_model_server_result.job_id            ezZnI-5kG70x0BZiW2ZHnQ 
_model_server_result.datetime_utc      '2025-03-05 18:40:18' 
_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          6r4o 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":501}' 
#
_entry.id    6R4O 
#
_exptl.entry_id    6R4O 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              539.246 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE" 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      6 
_struct_asym.id                             G 
_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 O ILE 400 A ILE 400 1_555 F MN MN . A MN 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.774 ? 
metalc ? metalc2 A OD1 ASP 443 A ASP 443 1_555 E MN MN . A MN 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.693 ? 
metalc ? metalc3 C O2A ONM . A ONM 2000 1_555 E MN MN . A MN 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.694 ? 
metalc ? metalc4 C O3B ONM . A ONM 2000 1_555 E MN MN . A MN 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? 
metalc ? metalc5 C O2B ONM . A ONM 2000 1_555 F MN MN . A MN 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? 
metalc ? metalc6 C O1B ONM . A ONM 2000 1_555 F MN MN . A MN 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.784 ? 
metalc ? metalc7 C O1G ONM . A ONM 2000 1_555 F MN MN . A MN 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? 
metalc ? metalc8 B OG SER 54 B SER 54 1_555 H MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.582 ? 
metalc ? metalc9 B OG1 THR 205 B THR 204 1_555 H MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? 
metalc ? metalc10 G O3B GSP . B GSP 501 1_555 H MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? 
metalc ? metalc11 G O2G GSP . B GSP 501 1_555 H MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? 
metalc ? metalc12 G O2B GSP . B GSP 501 1_555 H MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? 
#
_chem_comp.formula           'C10 H16 N5 O13 P3 S' 
_chem_comp.formula_weight    539.246 
_chem_comp.id                GSP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE" 
_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 O3B GSP sing 194 n n 
PG S1G GSP doub 195 n n 
PG O2G GSP sing 196 n n 
PG O3G GSP sing 197 n n 
O3B PB GSP sing 198 n n 
O2G HOG2 GSP sing 199 n n 
O3G HOG3 GSP sing 200 n n 
PB O1B GSP doub 201 n n 
PB O2B GSP sing 202 n n 
PB O3A GSP sing 203 n n 
O2B HOB2 GSP sing 204 n n 
PA O1A GSP doub 205 n n 
PA O2A GSP sing 206 n n 
PA O3A GSP sing 207 n n 
PA O5' GSP sing 208 n n 
O2A HOA2 GSP sing 209 n n 
O5' C5' GSP sing 210 n n 
C5' C4' GSP sing 211 n n 
C5' "H5'1" GSP sing 212 n n 
C5' "H5'2" GSP sing 213 n n 
C4' O4' GSP sing 214 n n 
C4' C3' GSP sing 215 n n 
C4' H4' GSP sing 216 n n 
O4' C1' GSP sing 217 n n 
C3' O3' GSP sing 218 n n 
C3' C2' GSP sing 219 n n 
C3' H3' GSP sing 220 n n 
O3' HO3' GSP sing 221 n n 
C2' O2' GSP sing 222 n n 
C2' C1' GSP sing 223 n n 
C2' H2' GSP sing 224 n n 
O2' HO2' GSP sing 225 n n 
C1' N9 GSP sing 226 n n 
C1' H1' GSP sing 227 n n 
N9 C8 GSP sing 228 n y 
N9 C4 GSP sing 229 n y 
C8 N7 GSP doub 230 n y 
C8 H8 GSP sing 231 n n 
N7 C5 GSP sing 232 n y 
C5 C6 GSP sing 233 n n 
C5 C4 GSP doub 234 n y 
C6 O6 GSP doub 235 n n 
C6 N1 GSP sing 236 n n 
N1 C2 GSP sing 237 n n 
N1 HN1 GSP sing 238 n n 
C2 N2 GSP sing 239 n n 
C2 N3 GSP doub 240 n n 
N2 HN21 GSP sing 241 n n 
N2 HN22 GSP sing 242 n n 
N3 C4 GSP sing 243 n n 
#
_atom_sites.entry_id                     6R4O 
_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
C 3 ONM A 1 2000 2000 ONM ONM . 
D 4 FOK A 1 2001 2001 FOK FOK . 
E 5 MN A 1 2002 2002 MN MN . 
F 5 MN A 1 2003 2003 MN MN . 
G 6 GSP B 1 501 395 GSP GSP . 
H 7 MG B 1 502 396 MG MG . 
#
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 GSP . . . G 6 97.997 206.26 167.966 1 225.47 ? PG GSP 501 B 1 
HETATM 2 O O3B GSP . . . G 6 97.814 207.698 168.65 1 225.47 ? O3B GSP 501 B 1 
HETATM 3 S S1G GSP . . . G 6 96.908 206.091 166.681 1 225.47 ? S1G GSP 501 B 1 
HETATM 4 O O2G GSP . . . G 6 99.449 206.085 167.5 1 225.47 ? O2G GSP 501 B 1 
HETATM 5 O O3G GSP . . . G 6 97.747 205.154 169 1 225.47 ? O3G GSP 501 B 1 
HETATM 6 P PB GSP . . . G 6 98.655 208 169.979 1 225.47 ? PB GSP 501 B 1 
HETATM 7 O O1B GSP . . . G 6 98.871 206.726 170.688 1 225.47 ? O1B GSP 501 B 1 
HETATM 8 O O2B GSP . . . G 6 99.932 208.682 169.69 1 225.47 ? O2B GSP 501 B 1 
HETATM 9 P PA GSP . . . G 6 97.601 210.51 170.629 1 225.47 ? PA GSP 501 B 1 
HETATM 10 O O1A GSP . . . G 6 98.895 211.146 170.925 1 225.47 ? O1A GSP 501 B 1 
HETATM 11 O O2A GSP . . . G 6 97.106 210.839 169.281 1 225.47 ? O2A GSP 501 B 1 
HETATM 12 O O3A GSP . . . G 6 97.68 208.926 170.848 1 225.47 ? O3A GSP 501 B 1 
HETATM 13 O O5' GSP . . . G 6 96.571 210.939 171.773 1 225.47 ? O5' GSP 501 B 1 
HETATM 14 C C5' GSP . . . G 6 95.203 210.962 171.485 1 225.47 ? C5' GSP 501 B 1 
HETATM 15 C C4' GSP . . . G 6 94.599 212.13 172.237 1 225.47 ? C4' GSP 501 B 1 
HETATM 16 O O4' GSP . . . G 6 94.557 211.837 173.619 1 225.47 ? O4' GSP 501 B 1 
HETATM 17 C C3' GSP . . . G 6 95.437 213.381 172.065 1 225.47 ? C3' GSP 501 B 1 
HETATM 18 O O3' GSP . . . G 6 94.654 214.385 171.477 1 225.47 ? O3' GSP 501 B 1 
HETATM 19 C C2' GSP . . . G 6 95.79 213.82 173.462 1 225.47 ? C2' GSP 501 B 1 
HETATM 20 O O2' GSP . . . G 6 95.475 215.182 173.622 1 225.47 ? O2' GSP 501 B 1 
HETATM 21 C C1' GSP . . . G 6 94.929 212.968 174.371 1 225.47 ? C1' GSP 501 B 1 
HETATM 22 N N9 GSP . . . G 6 95.72 212.589 175.549 1 225.47 ? N9 GSP 501 B 1 
HETATM 23 C C8 GSP . . . G 6 96.857 211.832 175.553 1 225.47 ? C8 GSP 501 B 1 
HETATM 24 N N7 GSP . . . G 6 97.287 211.722 176.829 1 225.47 ? N7 GSP 501 B 1 
HETATM 25 C C5 GSP . . . G 6 96.445 212.403 177.635 1 225.47 ? C5 GSP 501 B 1 
HETATM 26 C C6 GSP . . . G 6 96.426 212.627 179.003 1 225.47 ? C6 GSP 501 B 1 
HETATM 27 O O6 GSP . . . G 6 97.287 212.131 179.72 1 225.47 ? O6 GSP 501 B 1 
HETATM 28 N N1 GSP . . . G 6 95.417 213.368 179.57 1 225.47 ? N1 GSP 501 B 1 
HETATM 29 C C2 GSP . . . G 6 94.444 213.909 178.764 1 225.47 ? C2 GSP 501 B 1 
HETATM 30 N N2 GSP . . . G 6 93.473 214.639 179.302 1 225.47 ? N2 GSP 501 B 1 
HETATM 31 N N3 GSP . . . G 6 94.475 213.695 177.403 1 225.47 ? N3 GSP 501 B 1 
HETATM 32 C C4 GSP . . . G 6 95.459 212.956 176.843 1 225.47 ? C4 GSP 501 B 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           323 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           32 
#