data_6L54
#
_model_server_result.job_id            eDiz58RCF-TyqJKzJKF3BA 
_model_server_result.datetime_utc      '2024-11-04 20:36:59' 
_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          6l54 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":601}' 
#
_entry.id    6L54 
#
_exptl.entry_id    6L54 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              523.18 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "GUANOSINE-5'-TRIPHOSPHATE" 
_entity.pdbx_number_of_molecules    1 
_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            6L54 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6L54 
_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    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 
_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                      4 
_struct_asym.id                             D 
_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 C OG SER 218 C SER 218 1_555 E MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? 
metalc ? metalc2 C OG1 THR 253 C THR 253 1_555 E MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? 
metalc ? metalc3 D O3B GTP . C GTP 601 1_555 E MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.813 ? 
metalc ? metalc4 D O1B GTP . C GTP 601 1_555 E MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? 
metalc ? metalc5 D O2B GTP . C GTP 601 1_555 E MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? 
#
_chem_comp.formula           'C10 H16 N5 O14 P3' 
_chem_comp.formula_weight    523.18 
_chem_comp.id                GTP 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "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
PG O1G GTP doub 129 n n 
PG O2G GTP sing 130 n n 
PG O3G GTP sing 131 n n 
PG O3B GTP sing 132 n n 
O2G HOG2 GTP sing 133 n n 
O3G HOG3 GTP sing 134 n n 
O3B PB GTP sing 135 n n 
PB O1B GTP doub 136 n n 
PB O2B GTP sing 137 n n 
PB O3A GTP sing 138 n n 
O2B HOB2 GTP sing 139 n n 
O3A PA GTP sing 140 n n 
PA O1A GTP doub 141 n n 
PA O2A GTP sing 142 n n 
PA O5' GTP sing 143 n n 
O2A HOA2 GTP sing 144 n n 
O5' C5' GTP sing 145 n n 
C5' C4' GTP sing 146 n n 
C5' H5' GTP sing 147 n n 
C5' "H5''" GTP sing 148 n n 
C4' O4' GTP sing 149 n n 
C4' C3' GTP sing 150 n n 
C4' H4' GTP sing 151 n n 
O4' C1' GTP sing 152 n n 
C3' O3' GTP sing 153 n n 
C3' C2' GTP sing 154 n n 
C3' H3' GTP sing 155 n n 
O3' HO3' GTP sing 156 n n 
C2' O2' GTP sing 157 n n 
C2' C1' GTP sing 158 n n 
C2' H2' GTP sing 159 n n 
O2' HO2' GTP sing 160 n n 
C1' N9 GTP sing 161 n n 
C1' H1' GTP sing 162 n n 
N9 C8 GTP sing 163 n y 
N9 C4 GTP sing 164 n y 
C8 N7 GTP doub 165 n y 
C8 H8 GTP sing 166 n n 
N7 C5 GTP sing 167 n y 
C5 C6 GTP sing 168 n n 
C5 C4 GTP doub 169 n y 
C6 O6 GTP doub 170 n n 
C6 N1 GTP sing 171 n n 
N1 C2 GTP sing 172 n n 
N1 HN1 GTP sing 173 n n 
C2 N2 GTP sing 174 n n 
C2 N3 GTP doub 175 n n 
N2 HN21 GTP sing 176 n n 
N2 HN22 GTP sing 177 n n 
N3 C4 GTP sing 178 n n 
#
_atom_sites.entry_id                     6L54 
_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 C 1 601 1 GTP GTP . 
E 5 MG C 1 602 1 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 GTP . . . D 4 161.535 204.32 177.157 1 48.14 ? PG GTP 601 C 1 
HETATM 2 O O1G GTP . . . D 4 163.015 204.511 177.381 1 48.14 ? O1G GTP 601 C 1 
HETATM 3 O O2G GTP . . . D 4 160.806 204.335 178.479 1 48.14 ? O2G GTP 601 C 1 
HETATM 4 O O3G GTP . . . D 4 161.003 205.428 176.281 1 48.14 ? O3G GTP 601 C 1 
HETATM 5 O O3B GTP . . . D 4 161.314 202.896 176.442 1 48.14 ? O3B GTP 601 C 1 
HETATM 6 P PB GTP . . . D 4 161.484 202.742 174.85 1 48.14 ? PB GTP 601 C 1 
HETATM 7 O O1B GTP . . . D 4 160.685 201.538 174.424 1 48.14 ? O1B GTP 601 C 1 
HETATM 8 O O2B GTP . . . D 4 161.029 203.984 174.122 1 48.14 ? O2B GTP 601 C 1 
HETATM 9 O O3A GTP . . . D 4 163.042 202.44 174.58 1 48.14 ? O3A GTP 601 C 1 
HETATM 10 P PA GTP . . . D 4 163.426 201.424 173.389 1 48.14 ? PA GTP 601 C 1 
HETATM 11 O O1A GTP . . . D 4 163.144 202.103 172.071 1 48.14 ? O1A GTP 601 C 1 
HETATM 12 O O2A GTP . . . D 4 162.656 200.13 173.476 1 48.14 ? O2A GTP 601 C 1 
HETATM 13 O O5' GTP . . . D 4 165.014 201.185 173.506 1 48.14 ? O5' GTP 601 C 1 
HETATM 14 C C5' GTP . . . D 4 165.811 201.897 174.424 1 48.14 ? C5' GTP 601 C 1 
HETATM 15 C C4' GTP . . . D 4 166.899 202.589 173.618 1 48.14 ? C4' GTP 601 C 1 
HETATM 16 O O4' GTP . . . D 4 168.089 201.827 173.671 1 48.14 ? O4' GTP 601 C 1 
HETATM 17 C C3' GTP . . . D 4 166.498 202.665 172.156 1 48.14 ? C3' GTP 601 C 1 
HETATM 18 O O3' GTP . . . D 4 166.066 203.963 171.824 1 48.14 ? O3' GTP 601 C 1 
HETATM 19 C C2' GTP . . . D 4 167.746 202.313 171.376 1 48.14 ? C2' GTP 601 C 1 
HETATM 20 O O2' GTP . . . D 4 168.255 203.458 170.734 1 48.14 ? O2' GTP 601 C 1 
HETATM 21 C C1' GTP . . . D 4 168.737 201.808 172.412 1 48.14 ? C1' GTP 601 C 1 
HETATM 22 N N9 GTP . . . D 4 169.162 200.433 172.09 1 48.14 ? N9 GTP 601 C 1 
HETATM 23 C C8 GTP . . . D 4 170.277 200.082 171.375 1 48.14 ? C8 GTP 601 C 1 
HETATM 24 N N7 GTP . . . D 4 170.332 198.733 171.296 1 48.14 ? N7 GTP 601 C 1 
HETATM 25 C C5 GTP . . . D 4 169.274 198.218 171.958 1 48.14 ? C5 GTP 601 C 1 
HETATM 26 C C6 GTP . . . D 4 168.861 196.912 172.183 1 48.14 ? C6 GTP 601 C 1 
HETATM 27 O O6 GTP . . . D 4 169.514 195.971 171.736 1 48.14 ? O6 GTP 601 C 1 
HETATM 28 N N1 GTP . . . D 4 167.714 196.677 172.91 1 48.14 ? N1 GTP 601 C 1 
HETATM 29 C C2 GTP . . . D 4 166.985 197.738 173.409 1 48.14 ? C2 GTP 601 C 1 
HETATM 30 N N2 GTP . . . D 4 165.879 197.507 174.113 1 48.14 ? N2 GTP 601 C 1 
HETATM 31 N N3 GTP . . . D 4 167.403 199.034 173.181 1 48.14 ? N3 GTP 601 C 1 
HETATM 32 C C4 GTP . . . D 4 168.529 199.274 172.466 1 48.14 ? C4 GTP 601 C 1 
#
_model_server_stats.io_time_ms              135 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    117 
_model_server_stats.query_time_ms           271 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           32 
#