data_6R4P
#
_model_server_result.job_id            RkLjSWgpq0Mq4dz-8M5zLA 
_model_server_result.datetime_utc      '2025-03-05 19:15:36' 
_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          6r4p 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":501}' 
#
_entry.id    6R4P 
#
_exptl.entry_id    6R4P 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              539.246 
_entity.id                          3 
_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 
_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                      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 B OG SER 54 B SER 54 1_555 D MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? 
metalc ? metalc2 B OG1 THR 204 B THR 204 1_555 D MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? 
metalc ? metalc3 C O2G GSP . B GSP 501 1_555 D MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? 
metalc ? metalc4 C O2B GSP . B GSP 501 1_555 D MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? 
#
_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 129 n n 
PG S1G GSP doub 130 n n 
PG O2G GSP sing 131 n n 
PG O3G GSP sing 132 n n 
O3B PB GSP sing 133 n n 
O2G HOG2 GSP sing 134 n n 
O3G HOG3 GSP sing 135 n n 
PB O1B GSP doub 136 n n 
PB O2B GSP sing 137 n n 
PB O3A GSP sing 138 n n 
O2B HOB2 GSP sing 139 n n 
PA O1A GSP doub 140 n n 
PA O2A GSP sing 141 n n 
PA O3A GSP sing 142 n n 
PA O5' GSP sing 143 n n 
O2A HOA2 GSP sing 144 n n 
O5' C5' GSP sing 145 n n 
C5' C4' GSP sing 146 n n 
C5' "H5'1" GSP sing 147 n n 
C5' "H5'2" GSP sing 148 n n 
C4' O4' GSP sing 149 n n 
C4' C3' GSP sing 150 n n 
C4' H4' GSP sing 151 n n 
O4' C1' GSP sing 152 n n 
C3' O3' GSP sing 153 n n 
C3' C2' GSP sing 154 n n 
C3' H3' GSP sing 155 n n 
O3' HO3' GSP sing 156 n n 
C2' O2' GSP sing 157 n n 
C2' C1' GSP sing 158 n n 
C2' H2' GSP sing 159 n n 
O2' HO2' GSP sing 160 n n 
C1' N9 GSP sing 161 n n 
C1' H1' GSP sing 162 n n 
N9 C8 GSP sing 163 n y 
N9 C4 GSP sing 164 n y 
C8 N7 GSP doub 165 n y 
C8 H8 GSP sing 166 n n 
N7 C5 GSP sing 167 n y 
C5 C6 GSP sing 168 n n 
C5 C4 GSP doub 169 n y 
C6 O6 GSP doub 170 n n 
C6 N1 GSP sing 171 n n 
N1 C2 GSP sing 172 n n 
N1 HN1 GSP sing 173 n n 
C2 N2 GSP sing 174 n n 
C2 N3 GSP doub 175 n n 
N2 HN21 GSP sing 176 n n 
N2 HN22 GSP sing 177 n n 
N3 C4 GSP sing 178 n n 
#
_atom_sites.entry_id                     6R4P 
_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 GSP B 1 501 395 GSP GSP . 
D 4 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 . . . C 3 54.313 159.691 125.486 1 76.34 ? PG GSP 501 B 1 
HETATM 2 O O3B GSP . . . C 3 54.127 160.75 126.665 1 76.34 ? O3B GSP 501 B 1 
HETATM 3 S S1G GSP . . . C 3 52.887 159.575 124.581 1 76.34 ? S1G GSP 501 B 1 
HETATM 4 O O2G GSP . . . C 3 55.466 160.209 124.629 1 76.34 ? O2G GSP 501 B 1 
HETATM 5 O O3G GSP . . . C 3 54.675 158.321 126.066 1 76.34 ? O3G GSP 501 B 1 
HETATM 6 P PB GSP . . . C 3 55.45 161.333 127.34 1 76.34 ? PB GSP 501 B 1 
HETATM 7 O O1B GSP . . . C 3 56.196 160.222 127.944 1 76.34 ? O1B GSP 501 B 1 
HETATM 8 O O2B GSP . . . C 3 56.259 162.033 126.333 1 76.34 ? O2B GSP 501 B 1 
HETATM 9 P PA GSP . . . C 3 54.936 163.92 128.201 1 76.34 ? PA GSP 501 B 1 
HETATM 10 O O1A GSP . . . C 3 56.293 164.452 128.395 1 76.34 ? O1A GSP 501 B 1 
HETATM 11 O O2A GSP . . . C 3 54.409 164.241 126.866 1 76.34 ? O2A GSP 501 B 1 
HETATM 12 O O3A GSP . . . C 3 54.927 162.343 128.466 1 76.34 ? O3A GSP 501 B 1 
HETATM 13 O O5' GSP . . . C 3 53.997 164.494 129.359 1 76.34 ? O5' GSP 501 B 1 
HETATM 14 C C5' GSP . . . C 3 52.604 164.435 129.218 1 76.34 ? C5' GSP 501 B 1 
HETATM 15 C C4' GSP . . . C 3 51.959 165.515 130.068 1 76.34 ? C4' GSP 501 B 1 
HETATM 16 O O4' GSP . . . C 3 52.36 165.356 131.407 1 76.34 ? O4' GSP 501 B 1 
HETATM 17 C C3' GSP . . . C 3 52.371 166.905 129.641 1 76.34 ? C3' GSP 501 B 1 
HETATM 18 O O3' GSP . . . C 3 51.218 167.695 129.553 1 76.34 ? O3' GSP 501 B 1 
HETATM 19 C C2' GSP . . . C 3 53.189 167.444 130.776 1 76.34 ? C2' GSP 501 B 1 
HETATM 20 O O2' GSP . . . C 3 52.826 168.774 131.025 1 76.34 ? O2' GSP 501 B 1 
HETATM 21 C C1' GSP . . . C 3 52.759 166.594 131.941 1 76.34 ? C1' GSP 501 B 1 
HETATM 22 N N9 GSP . . . C 3 53.878 166.421 132.867 1 76.34 ? N9 GSP 501 B 1 
HETATM 23 C C8 GSP . . . C 3 55.051 165.767 132.632 1 76.34 ? C8 GSP 501 B 1 
HETATM 24 N N7 GSP . . . C 3 55.805 165.847 133.745 1 76.34 ? N7 GSP 501 B 1 
HETATM 25 C C5 GSP . . . C 3 55.128 166.547 134.677 1 76.34 ? C5 GSP 501 B 1 
HETATM 26 C C6 GSP . . . C 3 55.43 166.923 135.971 1 76.34 ? C6 GSP 501 B 1 
HETATM 27 O O6 GSP . . . C 3 56.505 166.606 136.467 1 76.34 ? O6 GSP 501 B 1 
HETATM 28 N N1 GSP . . . C 3 54.525 167.652 136.701 1 76.34 ? N1 GSP 501 B 1 
HETATM 29 C C2 GSP . . . C 3 53.326 168.004 136.138 1 76.34 ? C2 GSP 501 B 1 
HETATM 30 N N2 GSP . . . C 3 52.449 168.706 136.839 1 76.34 ? N2 GSP 501 B 1 
HETATM 31 N N3 GSP . . . C 3 53.028 167.632 134.854 1 76.34 ? N3 GSP 501 B 1 
HETATM 32 C C4 GSP . . . C 3 53.917 166.915 134.135 1 76.34 ? C4 GSP 501 B 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           32 
#