data_7TR0
#
_model_server_result.job_id            MWPEvQJ-tYWMllxAKUYtxA 
_model_server_result.datetime_utc      '2024-11-26 05:56:18' 
_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          7tr0 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":501}' 
#
_entry.id    7TR0 
#
_exptl.entry_id    7TR0 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              443.201 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "GUANOSINE-5'-DIPHOSPHATE" 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
_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                             F 
_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 D O1G GTP . A GTP 501 1_555 E MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? 
metalc ? metalc2 D O2B GTP . A GTP 501 1_555 E MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? 
#
_chem_comp.formula           'C10 H15 N5 O11 P2' 
_chem_comp.formula_weight    443.201 
_chem_comp.id                GDP 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "GUANOSINE-5'-DIPHOSPHATE" 
_chem_comp.type              'rna linking' 
_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
PB O1B GDP doub 133 n n 
PB O2B GDP sing 134 n n 
PB O3B GDP sing 135 n n 
PB O3A GDP sing 136 n n 
O2B HOB2 GDP sing 137 n n 
O3B HOB3 GDP sing 138 n n 
O3A PA GDP sing 139 n n 
PA O1A GDP doub 140 n n 
PA O2A GDP sing 141 n n 
PA O5' GDP sing 142 n n 
O2A HOA2 GDP sing 143 n n 
O5' C5' GDP sing 144 n n 
C5' C4' GDP sing 145 n n 
C5' H5' GDP sing 146 n n 
C5' "H5''" GDP sing 147 n n 
C4' O4' GDP sing 148 n n 
C4' C3' GDP sing 149 n n 
C4' H4' GDP sing 150 n n 
O4' C1' GDP sing 151 n n 
C3' O3' GDP sing 152 n n 
C3' C2' GDP sing 153 n n 
C3' H3' GDP sing 154 n n 
O3' HO3' GDP sing 155 n n 
C2' O2' GDP sing 156 n n 
C2' C1' GDP sing 157 n n 
C2' H2' GDP sing 158 n n 
O2' HO2' GDP sing 159 n n 
C1' N9 GDP sing 160 n n 
C1' H1' GDP sing 161 n n 
N9 C8 GDP sing 162 n y 
N9 C4 GDP sing 163 n y 
C8 N7 GDP doub 164 n y 
C8 H8 GDP sing 165 n n 
N7 C5 GDP sing 166 n y 
C5 C6 GDP sing 167 n n 
C5 C4 GDP doub 168 n y 
C6 O6 GDP doub 169 n n 
C6 N1 GDP sing 170 n n 
N1 C2 GDP sing 171 n n 
N1 HN1 GDP sing 172 n n 
C2 N2 GDP sing 173 n n 
C2 N3 GDP doub 174 n n 
N2 HN21 GDP sing 175 n n 
N2 HN22 GDP sing 176 n n 
N3 C4 GDP sing 177 n n 
#
_atom_sites.entry_id                     7TR0 
_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
D 4 GTP A 1 501 501 GTP GTP . 
E 5 MG A 1 502 502 MG MG . 
F 6 GDP B 1 501 501 GDP GDP . 
G 7 TA1 B 1 502 502 TA1 TA1 . 
H 8 ANP K 1 501 807 ANP ANP . 
#
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 PB GDP . . . F 6 170.175 177.815 207.537 1 53.76 ? PB GDP 501 B 1 
HETATM 2 O O1B GDP . . . F 6 169.652 177.741 206.126 1 55.01 ? O1B GDP 501 B 1 
HETATM 3 O O2B GDP . . . F 6 169.993 176.481 208.215 1 55.99 ? O2B GDP 501 B 1 
HETATM 4 O O3B GDP . . . F 6 169.43 178.876 208.305 1 53.39 ? O3B GDP 501 B 1 
HETATM 5 O O3A GDP . . . F 6 171.74 178.161 207.5 1 45.07 ? O3A GDP 501 B 1 
HETATM 6 P PA GDP . . . F 6 172.272 179.564 206.932 1 43.64 ? PA GDP 501 B 1 
HETATM 7 O O1A GDP . . . F 6 171.623 179.878 205.608 1 52.05 ? O1A GDP 501 B 1 
HETATM 8 O O2A GDP . . . F 6 172.041 180.674 207.924 1 48.94 ? O2A GDP 501 B 1 
HETATM 9 O O5' GDP . . . F 6 173.84 179.28 206.741 1 47.66 ? O5' GDP 501 B 1 
HETATM 10 C C5' GDP . . . F 6 174.811 180.092 207.389 1 46.38 ? C5' GDP 501 B 1 
HETATM 11 C C4' GDP . . . F 6 175.938 180.346 206.406 1 44.73 ? C4' GDP 501 B 1 
HETATM 12 O O4' GDP . . . F 6 175.384 181.044 205.296 1 48 ? O4' GDP 501 B 1 
HETATM 13 C C3' GDP . . . F 6 177.045 181.199 206.997 1 55 ? C3' GDP 501 B 1 
HETATM 14 O O3' GDP . . . F 6 178.278 180.472 206.99 1 60.02 ? O3' GDP 501 B 1 
HETATM 15 C C2' GDP . . . F 6 177.133 182.439 206.128 1 53.87 ? C2' GDP 501 B 1 
HETATM 16 O O2' GDP . . . F 6 178.419 182.541 205.508 1 55.99 ? O2' GDP 501 B 1 
HETATM 17 C C1' GDP . . . F 6 176.051 182.283 205.067 1 52.14 ? C1' GDP 501 B 1 
HETATM 18 N N9 GDP . . . F 6 175.049 183.373 205.14 1 49.28 ? N9 GDP 501 B 1 
HETATM 19 C C8 GDP . . . F 6 174.223 183.604 206.176 1 47.21 ? C8 GDP 501 B 1 
HETATM 20 N N7 GDP . . . F 6 173.424 184.668 205.925 1 51.98 ? N7 GDP 501 B 1 
HETATM 21 C C5 GDP . . . F 6 173.727 185.122 204.702 1 45.46 ? C5 GDP 501 B 1 
HETATM 22 C C6 GDP . . . F 6 173.255 186.216 203.831 1 47.65 ? C6 GDP 501 B 1 
HETATM 23 O O6 GDP . . . F 6 172.348 186.989 204.203 1 57.75 ? O6 GDP 501 B 1 
HETATM 24 N N1 GDP . . . F 6 173.824 186.358 202.634 1 42.53 ? N1 GDP 501 B 1 
HETATM 25 C C2 GDP . . . F 6 174.805 185.543 202.204 1 44.83 ? C2 GDP 501 B 1 
HETATM 26 N N2 GDP . . . F 6 175.338 185.746 200.975 1 47.89 ? N2 GDP 501 B 1 
HETATM 27 N N3 GDP . . . F 6 175.287 184.519 202.95 1 49.88 ? N3 GDP 501 B 1 
HETATM 28 C C4 GDP . . . F 6 174.795 184.264 204.184 1 46.15 ? C4 GDP 501 B 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    27 
_model_server_stats.query_time_ms           263 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           28 
#