data_6VCM # _model_server_result.job_id 9xCEMglnk6QEMya7BCZqfg _model_server_result.datetime_utc '2024-12-26 12:48:25' _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 6vcm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":206}' # _entry.id 6VCM # _exptl.entry_id 6VCM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 5 _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 6VCM _cell.length_a 162.357 _cell.length_b 192.948 _cell.length_c 51.1 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VCM _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall 'C 2c 2' _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,I,J,K _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 x,y,z _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 5 _struct_asym.id H _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 O GLN 38 B GLN 37 1_555 F MG MG . B MG 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? metalc ? metalc2 B OE2 GLU 54 B GLU 53 1_555 D MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc3 B OE1 GLU 54 B GLU 53 1_555 E MG MG . B MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.645 ? metalc ? metalc4 F MG MG . B MG 204 1_555 H O3G GTP . B GTP 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.635 ? metalc ? metalc5 G MG MG . B MG 205 1_555 H O2G GTP . B GTP 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? # _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 6VCM _atom_sites.fract_transf_matrix[1][1] 0.006159 _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] 0.005183 _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] 0.019569 _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 CL B 1 201 1 CL CL . D 4 MG B 1 202 1 MG MG . E 4 MG B 1 203 2 MG MG . F 4 MG B 1 204 3 MG MG . G 4 MG B 1 205 4 MG MG . H 5 GTP B 1 206 1 GTP GTP . I 6 F B 1 207 1 F F . J 7 HOH A 1 301 45 HOH HOH . J 7 HOH A 2 302 58 HOH HOH . J 7 HOH A 3 303 14 HOH HOH . J 7 HOH A 4 304 61 HOH HOH . J 7 HOH A 5 305 46 HOH HOH . J 7 HOH A 6 306 48 HOH HOH . J 7 HOH A 7 307 47 HOH HOH . J 7 HOH A 8 308 37 HOH HOH . J 7 HOH A 9 309 5 HOH HOH . J 7 HOH A 10 310 4 HOH HOH . J 7 HOH A 11 311 20 HOH HOH . J 7 HOH A 12 312 13 HOH HOH . J 7 HOH A 13 313 50 HOH HOH . J 7 HOH A 14 314 73 HOH HOH . J 7 HOH A 15 315 55 HOH HOH . J 7 HOH A 16 316 10 HOH HOH . J 7 HOH A 17 317 21 HOH HOH . J 7 HOH A 18 318 59 HOH HOH . J 7 HOH A 19 319 31 HOH HOH . J 7 HOH A 20 320 70 HOH HOH . J 7 HOH A 21 321 72 HOH HOH . J 7 HOH A 22 322 67 HOH HOH . J 7 HOH A 23 323 56 HOH HOH . J 7 HOH A 24 324 2 HOH HOH . J 7 HOH A 25 325 1 HOH HOH . J 7 HOH A 26 326 49 HOH HOH . J 7 HOH A 27 327 17 HOH HOH . J 7 HOH A 28 328 15 HOH HOH . J 7 HOH A 29 329 41 HOH HOH . J 7 HOH A 30 330 36 HOH HOH . J 7 HOH A 31 331 53 HOH HOH . J 7 HOH A 32 332 8 HOH HOH . J 7 HOH A 33 333 9 HOH HOH . J 7 HOH A 34 334 66 HOH HOH . K 7 HOH B 1 301 43 HOH HOH . K 7 HOH B 2 302 42 HOH HOH . K 7 HOH B 3 303 65 HOH HOH . K 7 HOH B 4 304 51 HOH HOH . K 7 HOH B 5 305 40 HOH HOH . K 7 HOH B 6 306 69 HOH HOH . K 7 HOH B 7 307 39 HOH HOH . K 7 HOH B 8 308 27 HOH HOH . K 7 HOH B 9 309 60 HOH HOH . K 7 HOH B 10 310 28 HOH HOH . K 7 HOH B 11 311 54 HOH HOH . K 7 HOH B 12 312 57 HOH HOH . K 7 HOH B 13 313 24 HOH HOH . K 7 HOH B 14 314 32 HOH HOH . K 7 HOH B 15 315 11 HOH HOH . K 7 HOH B 16 316 29 HOH HOH . K 7 HOH B 17 317 38 HOH HOH . K 7 HOH B 18 318 26 HOH HOH . K 7 HOH B 19 319 3 HOH HOH . K 7 HOH B 20 320 25 HOH HOH . K 7 HOH B 21 321 18 HOH HOH . K 7 HOH B 22 322 30 HOH HOH . K 7 HOH B 23 323 52 HOH HOH . K 7 HOH B 24 324 63 HOH HOH . K 7 HOH B 25 325 23 HOH HOH . K 7 HOH B 26 326 64 HOH HOH . K 7 HOH B 27 327 35 HOH HOH . K 7 HOH B 28 328 12 HOH HOH . K 7 HOH B 29 329 22 HOH HOH . K 7 HOH B 30 330 34 HOH HOH . K 7 HOH B 31 331 44 HOH HOH . K 7 HOH B 32 332 68 HOH HOH . K 7 HOH B 33 333 71 HOH HOH . K 7 HOH B 34 334 19 HOH HOH . K 7 HOH B 35 335 33 HOH HOH . K 7 HOH B 36 336 16 HOH HOH . K 7 HOH B 37 337 62 HOH HOH . K 7 HOH B 38 338 6 HOH HOH . K 7 HOH B 39 339 7 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 . . . H 5 -64.289 -55.218 10.485 0.62 64.33 ? PG GTP 206 B 1 HETATM 2 O O1G GTP . . . H 5 -64.754 -55.182 9.049 0.62 54.48 ? O1G GTP 206 B 1 HETATM 3 O O2G GTP . . . H 5 -65.397 -55.772 11.348 0.62 72.98 -1 O2G GTP 206 B 1 HETATM 4 O O3G GTP . . . H 5 -63.922 -53.825 10.938 0.62 68.4 ? O3G GTP 206 B 1 HETATM 5 O O3B GTP . . . H 5 -63.011 -56.199 10.559 0.62 72.25 ? O3B GTP 206 B 1 HETATM 6 P PB GTP . . . H 5 -61.523 -55.64 10.818 0.62 89.99 ? PB GTP 206 B 1 HETATM 7 O O1B GTP . . . H 5 -61.372 -54.28 10.176 0.62 84.9 -1 O1B GTP 206 B 1 HETATM 8 O O2B GTP . . . H 5 -61.23 -55.578 12.298 0.62 73.12 ? O2B GTP 206 B 1 HETATM 9 O O3A GTP . . . H 5 -60.575 -56.725 10.096 0.62 83.75 ? O3A GTP 206 B 1 HETATM 10 P PA GTP . . . H 5 -59.598 -56.364 8.864 0.62 89.16 ? PA GTP 206 B 1 HETATM 11 O O1A GTP . . . H 5 -59.954 -57.181 7.644 0.62 56.11 -1 O1A GTP 206 B 1 HETATM 12 O O2A GTP . . . H 5 -59.622 -54.889 8.538 0.62 68.04 ? O2A GTP 206 B 1 HETATM 13 O O5' GTP . . . H 5 -58.146 -56.806 9.409 0.62 83.04 ? O5' GTP 206 B 1 HETATM 14 C C5' GTP . . . H 5 -57.994 -57.674 10.514 0.62 80.77 ? C5' GTP 206 B 1 HETATM 15 C C4' GTP . . . H 5 -56.707 -57.315 11.251 0.62 83.08 ? C4' GTP 206 B 1 HETATM 16 O O4' GTP . . . H 5 -55.821 -56.705 10.334 0.62 81.05 ? O4' GTP 206 B 1 HETATM 17 C C3' GTP . . . H 5 -56.921 -56.324 12.383 0.62 85.98 ? C3' GTP 206 B 1 HETATM 18 O O3' GTP . . . H 5 -56.912 -56.974 13.632 0.62 76.15 ? O3' GTP 206 B 1 HETATM 19 C C2' GTP . . . H 5 -55.751 -55.365 12.278 0.62 88.75 ? C2' GTP 206 B 1 HETATM 20 O O2' GTP . . . H 5 -54.759 -55.7 13.22 0.62 85.32 ? O2' GTP 206 B 1 HETATM 21 C C1' GTP . . . H 5 -55.211 -55.547 10.87 0.62 79.19 ? C1' GTP 206 B 1 HETATM 22 N N9 GTP . . . H 5 -55.641 -54.41 10.04 0.62 79.78 ? N9 GTP 206 B 1 HETATM 23 C C8 GTP . . . H 5 -56.924 -54.2 9.616 0.62 79.13 ? C8 GTP 206 B 1 HETATM 24 N N7 GTP . . . H 5 -56.967 -53.079 8.871 0.62 77.72 ? N7 GTP 206 B 1 HETATM 25 C C5 GTP . . . H 5 -55.722 -52.569 8.81 0.62 66.31 ? C5 GTP 206 B 1 HETATM 26 C C6 GTP . . . H 5 -55.229 -51.441 8.178 0.62 71.46 ? C6 GTP 206 B 1 HETATM 27 O O6 GTP . . . H 5 -55.994 -50.72 7.538 0.62 65.87 ? O6 GTP 206 B 1 HETATM 28 N N1 GTP . . . H 5 -53.886 -51.147 8.274 0.62 68.71 ? N1 GTP 206 B 1 HETATM 29 C C2 GTP . . . H 5 -53.048 -51.97 9.002 0.62 68.92 ? C2 GTP 206 B 1 HETATM 30 N N2 GTP . . . H 5 -51.753 -51.68 9.096 0.62 60.71 ? N2 GTP 206 B 1 HETATM 31 N N3 GTP . . . H 5 -53.551 -53.095 9.629 0.62 70 ? N3 GTP 206 B 1 HETATM 32 C C4 GTP . . . H 5 -54.87 -53.392 9.535 0.62 70.25 ? C4 GTP 206 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #