data_8KB8
#
_model_server_result.job_id            sE1vl1RmaoqVID752d0FBA 
_model_server_result.datetime_utc      '2024-11-24 08:05:54' 
_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          8kb8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":202}' 
#
_entry.id    8KB8 
#
_exptl.entry_id    8KB8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_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    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          94.406 
_cell.angle_gamma         90 
_cell.entry_id            8KB8 
_cell.length_a            55.452 
_cell.length_b            81.077 
_cell.length_c            116.404 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8KB8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    'P 2yb' 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? dimeric 2 author_defined_assembly 1 
? dimeric 2 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
C,E,F,K 1 1 
A,I 1 2 
D,G,H,L 2 1 
B,J 2 3 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_445 -x-1,y-1/2,-z -1 0 0 0 1 0 0 0 -1 -55.452 -40.5385 0 
3 'crystal symmetry operation' 2_646 -x+1,y-1/2,-z+1 -1 0 0 0 1 0 0 0 -1 46.509444 -40.5385 116.059993 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 F N N 
? 4 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
metalc ? metalc1 C OG1 THR 27 C THR 22 1_555 E MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? 
metalc ? metalc2 C OG1 THR 45 C THR 40 1_555 E MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? 
metalc ? metalc3 E MG MG . C MG 201 1_555 F O1G GTP . C GTP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? 
metalc ? metalc4 E MG MG . C MG 201 1_555 F O1B GTP . C GTP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? 
metalc ? metalc5 D OG1 THR 27 D THR 22 1_555 G MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.912 ? 
metalc ? metalc6 D OG1 THR 45 D THR 40 1_555 G MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? 
metalc ? metalc7 G MG MG . D MG 201 1_555 H O1G GTP . D GTP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? 
metalc ? metalc8 G MG MG . D MG 201 1_555 H O1B GTP . D GTP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? 
metalc ? metalc9 G MG MG . D MG 201 1_555 L O HOH . D HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.458 ? 
metalc ? metalc10 G MG MG . D MG 201 1_555 L O HOH . D HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? 
#
_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                     8KB8 
_atom_sites.fract_transf_matrix[1][1]    0.018034 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00139 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012334 
_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]    0.008616 
_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 MG C 1 201 201 MG MG . 
F 4 GTP C 1 202 202 GTP GTP . 
G 3 MG D 1 201 201 MG MG . 
H 4 GTP D 1 202 202 GTP GTP . 
I 5 HOH A 1 801 14 HOH HOH . 
I 5 HOH A 2 802 24 HOH HOH . 
I 5 HOH A 3 803 17 HOH HOH . 
I 5 HOH A 4 804 6 HOH HOH . 
I 5 HOH A 5 805 26 HOH HOH . 
I 5 HOH A 6 806 7 HOH HOH . 
I 5 HOH A 7 807 28 HOH HOH . 
I 5 HOH A 8 808 15 HOH HOH . 
I 5 HOH A 9 809 5 HOH HOH . 
I 5 HOH A 10 810 22 HOH HOH . 
I 5 HOH A 11 811 2 HOH HOH . 
I 5 HOH A 12 812 11 HOH HOH . 
J 5 HOH B 1 801 29 HOH HOH . 
J 5 HOH B 2 802 1 HOH HOH . 
J 5 HOH B 3 803 3 HOH HOH . 
J 5 HOH B 4 804 19 HOH HOH . 
J 5 HOH B 5 805 16 HOH HOH . 
J 5 HOH B 6 806 12 HOH HOH . 
J 5 HOH B 7 807 8 HOH HOH . 
J 5 HOH B 8 808 9 HOH HOH . 
J 5 HOH B 9 809 10 HOH HOH . 
K 5 HOH C 1 301 25 HOH HOH . 
K 5 HOH C 2 302 18 HOH HOH . 
L 5 HOH D 1 301 4 HOH HOH . 
L 5 HOH D 2 302 13 HOH HOH . 
L 5 HOH D 3 303 21 HOH HOH . 
L 5 HOH D 4 304 30 HOH HOH . 
#
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 . . . F 4 2.185 -22.645 32.861 1 81.25 ? PG GTP 202 C 1 
HETATM 2 O O1G GTP . . . F 4 1.49 -23.737 32.069 1 80.43 ? O1G GTP 202 C 1 
HETATM 3 O O2G GTP . . . F 4 1.56 -21.276 32.608 1 71.15 ? O2G GTP 202 C 1 
HETATM 4 O O3G GTP . . . F 4 3.614 -22.638 32.375 1 83.89 ? O3G GTP 202 C 1 
HETATM 5 O O3B GTP . . . F 4 2.133 -22.982 34.464 1 77.85 ? O3B GTP 202 C 1 
HETATM 6 P PB GTP . . . F 4 0.832 -23.553 35.271 1 67.5 ? PB GTP 202 C 1 
HETATM 7 O O1B GTP . . . F 4 -0.047 -24.451 34.42 1 64.37 ? O1B GTP 202 C 1 
HETATM 8 O O2B GTP . . . F 4 0.043 -22.385 35.835 1 71.81 ? O2B GTP 202 C 1 
HETATM 9 O O3A GTP . . . F 4 1.449 -24.358 36.529 1 78.76 ? O3A GTP 202 C 1 
HETATM 10 P PA GTP . . . F 4 1.19 -25.918 36.799 1 75.89 ? PA GTP 202 C 1 
HETATM 11 O O1A GTP . . . F 4 -0.244 -26.196 37.19 1 72.14 ? O1A GTP 202 C 1 
HETATM 12 O O2A GTP . . . F 4 1.659 -26.704 35.581 1 68.48 ? O2A GTP 202 C 1 
HETATM 13 O O5' GTP . . . F 4 2.051 -26.25 38.117 1 80.7 ? O5' GTP 202 C 1 
HETATM 14 C C5' GTP . . . F 4 3.231 -25.588 38.505 1 79.65 ? C5' GTP 202 C 1 
HETATM 15 C C4' GTP . . . F 4 3.895 -26.481 39.546 1 83.9 ? C4' GTP 202 C 1 
HETATM 16 O O4' GTP . . . F 4 3.349 -26.177 40.811 1 74.42 ? O4' GTP 202 C 1 
HETATM 17 C C3' GTP . . . F 4 3.582 -27.938 39.265 1 86.84 ? C3' GTP 202 C 1 
HETATM 18 O O3' GTP . . . F 4 4.784 -28.664 39.316 1 89.87 ? O3' GTP 202 C 1 
HETATM 19 C C2' GTP . . . F 4 2.665 -28.37 40.386 1 77.38 ? C2' GTP 202 C 1 
HETATM 20 O O2' GTP . . . F 4 2.993 -29.657 40.829 1 87.38 ? O2' GTP 202 C 1 
HETATM 21 C C1' GTP . . . F 4 2.912 -27.345 41.466 1 74.56 ? C1' GTP 202 C 1 
HETATM 22 N N9 GTP . . . F 4 1.647 -27.023 42.132 1 80.26 ? N9 GTP 202 C 1 
HETATM 23 C C8 GTP . . . F 4 0.496 -26.591 41.524 1 78.39 ? C8 GTP 202 C 1 
HETATM 24 N N7 GTP . . . F 4 -0.445 -26.379 42.475 1 75.85 ? N7 GTP 202 C 1 
HETATM 25 C C5 GTP . . . F 4 0.089 -26.68 43.68 1 77.06 ? C5 GTP 202 C 1 
HETATM 26 C C6 GTP . . . F 4 -0.439 -26.652 44.956 1 75.11 ? C6 GTP 202 C 1 
HETATM 27 O O6 GTP . . . F 4 -1.601 -26.302 45.144 1 75.51 ? O6 GTP 202 C 1 
HETATM 28 N N1 GTP . . . F 4 0.358 -27.011 46.013 1 79.18 ? N1 GTP 202 C 1 
HETATM 29 C C2 GTP . . . F 4 1.661 -27.4 45.786 1 78.56 ? C2 GTP 202 C 1 
HETATM 30 N N2 GTP . . . F 4 2.431 -27.751 46.806 1 80.84 ? N2 GTP 202 C 1 
HETATM 31 N N3 GTP . . . F 4 2.176 -27.44 44.516 1 74.37 ? N3 GTP 202 C 1 
HETATM 32 C C4 GTP . . . F 4 1.403 -27.078 43.48 1 78.87 ? C4 GTP 202 C 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           324 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           32 
#