data_6SCX # _model_server_result.job_id wHEmGE35BqXQXDJ8lfK-Kg _model_server_result.datetime_utc '2024-12-21 14:33:13' _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 6scx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":504}' # _entry.id 6SCX # _exptl.entry_id 6SCX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 538.215 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "7-METHYL-GUANOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 3 _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 120 _cell.entry_id 6SCX _cell.length_a 229.859 _cell.length_b 229.859 _cell.length_c 159.012 _cell.Z_PDB 54 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6SCX _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,D,E,F,G,H,I,J,K,L,P,Q 1 1 C,M,N,O,R 2 1,2 # 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' 5_554 x-y,-y,-z-1 1 0 0 0 -1 0 0 0 -1 0 0 -159.012 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 H N N ? 3 L N N ? 3 O 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 disulf ? disulf1 A SG CYS 7 A CYS 117 1_555 A SG CYS 277 A CYS 387 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 A SG CYS 67 A CYS 177 1_555 A SG CYS 137 A CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf3 B SG CYS 7 B CYS 117 1_555 B SG CYS 277 B CYS 387 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf4 B SG CYS 67 B CYS 177 1_555 B SG CYS 137 B CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf5 C SG CYS 7 C CYS 117 1_555 C SG CYS 277 C CYS 387 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf6 C SG CYS 67 C CYS 177 1_555 C SG CYS 137 C CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? metalc ? metalc1 A NE2 HIS 141 A HIS 251 1_555 G CD CD . A CD 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.908 ? metalc ? metalc2 A SG CYS 174 A CYS 284 1_555 D CD CD . A CD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc3 A SG CYS 177 A CYS 287 1_555 D CD CD . A CD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc4 A SG CYS 192 A CYS 302 1_555 D CD CD . A CD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.446 ? metalc ? metalc5 A SG CYS 197 A CYS 307 1_555 D CD CD . A CD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? metalc ? metalc6 A OE2 GLU 264 A GLU 374 1_555 E CD CD . A CD 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.625 ? metalc ? metalc7 G CD CD . A CD 504 1_555 C NE2 HIS 141 C HIS 251 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc8 B NE2 HIS 141 B HIS 251 1_555 K CD CD . B CD 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.977 ? metalc ? metalc9 B SG CYS 174 B CYS 284 1_555 I CD CD . B CD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? metalc ? metalc10 B SG CYS 177 B CYS 287 1_555 I CD CD . B CD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.52 ? metalc ? metalc11 B SG CYS 192 B CYS 302 1_555 I CD CD . B CD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc12 B SG CYS 197 B CYS 307 1_555 I CD CD . B CD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc13 J CD CD . B CD 502 1_555 L O2A MGP . B MGP 504 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.663 ? metalc ? metalc14 C SG CYS 174 C CYS 284 1_555 M CD CD . C CD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.526 ? metalc ? metalc15 C SG CYS 177 C CYS 287 1_555 M CD CD . C CD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc16 C SG CYS 192 C CYS 302 1_555 M CD CD . C CD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc17 C SG CYS 197 C CYS 307 1_555 M CD CD . C CD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? # _chem_comp.formula 'C11 H19 N5 O14 P3 1' _chem_comp.formula_weight 538.215 _chem_comp.id MGP _chem_comp.mon_nstd_flag . _chem_comp.name "7-METHYL-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 PA O1A MGP sing 237 n n PA O2A MGP doub 238 n n PA O3A MGP sing 239 n n PA O5' MGP sing 240 n n O3A PB MGP sing 241 n n O5' C5' MGP sing 242 n n PB O1B MGP sing 243 n n PB O2B MGP doub 244 n n PB O3B MGP sing 245 n n O3B PC MGP sing 246 n n PC O1C MGP sing 247 n n PC O2C MGP doub 248 n n PC O3C MGP sing 249 n n C5' C4' MGP sing 250 n n C5' H5' MGP sing 251 n n C5' "H5'A" MGP sing 252 n n C4' O4' MGP sing 253 n n C4' C3' MGP sing 254 n n C4' H4' MGP sing 255 n n O4' C1' MGP sing 256 n n C3' O3' MGP sing 257 n n C3' C2' MGP sing 258 n n C3' H3' MGP sing 259 n n O3' HO3' MGP sing 260 n n C2' O2' MGP sing 261 n n C2' C1' MGP sing 262 n n C2' H2' MGP sing 263 n n O2' HO2' MGP sing 264 n n C1' N9 MGP sing 265 n n C1' H1' MGP sing 266 n n N9 C8 MGP sing 267 n y N9 C4 MGP sing 268 n y C8 N7 MGP doub 269 n y C8 H8 MGP sing 270 n n N7 CM7 MGP sing 271 n n N7 C5 MGP sing 272 n y CM7 HM7 MGP sing 273 n n CM7 HM7A MGP sing 274 n n CM7 HM7B MGP sing 275 n n C5 C6 MGP sing 276 n n C5 C4 MGP doub 277 n y C6 O6 MGP doub 278 n n C6 N1 MGP sing 279 n n N1 C2 MGP sing 280 n n N1 HN1 MGP sing 281 n n C2 N2 MGP sing 282 n n C2 N3 MGP doub 283 n n N2 HN2 MGP sing 284 n n N2 HN2A MGP sing 285 n n N3 C4 MGP sing 286 n n O1A H16 MGP sing 287 n n O1B H17 MGP sing 288 n n O1C H18 MGP sing 289 n n O3C H19 MGP sing 290 n n # _atom_sites.entry_id 6SCX _atom_sites.fract_transf_matrix[1][1] 0.00435 _atom_sites.fract_transf_matrix[1][2] 0.002512 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005024 _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] 0.006289 _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 2 CD A 1 501 501 CD CD . E 2 CD A 1 502 502 CD CD . F 2 CD A 1 503 503 CD CD . G 2 CD A 1 504 504 CD CD . H 3 MGP A 1 505 505 MGP MGP . I 2 CD B 1 501 501 CD CD . J 2 CD B 1 502 502 CD CD . K 2 CD B 1 503 504 CD CD . L 3 MGP B 1 504 505 MGP MGP . M 2 CD C 1 501 501 CD CD . N 2 CD C 1 502 502 CD CD . O 3 MGP C 1 503 505 MGP MGP . P 4 HOH A 1 601 601 HOH HOH . Q 4 HOH B 1 601 601 HOH HOH . R 4 HOH C 1 601 601 HOH HOH . R 4 HOH C 2 602 602 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 PA MGP . A . L 3 -36.608 21.986 -13.859 0.62 51.56 ? PA MGP 504 B 1 HETATM 2 P PA MGP . B . L 3 -34.521 27.88 -12.252 0.38 58.15 ? PA MGP 504 B 1 HETATM 3 O O1A MGP . A . L 3 -35.882 21.591 -15.123 0.62 53.82 ? O1A MGP 504 B 1 HETATM 4 O O1A MGP . B . L 3 -33.366 28.323 -11.363 0.38 59.96 ? O1A MGP 504 B 1 HETATM 5 O O2A MGP . A . L 3 -38.014 21.548 -13.886 0.62 50.18 ? O2A MGP 504 B 1 HETATM 6 O O2A MGP . B . L 3 -34.397 28.386 -13.629 0.38 58.16 ? O2A MGP 504 B 1 HETATM 7 O O3A MGP . A . L 3 -36.538 23.575 -13.793 0.62 52.36 ? O3A MGP 504 B 1 HETATM 8 O O3A MGP . B . L 3 -35.865 28.447 -11.609 0.38 51.26 ? O3A MGP 504 B 1 HETATM 9 O O5' MGP . A . L 3 -35.822 21.267 -12.597 0.62 51.87 ? O5' MGP 504 B 1 HETATM 10 O O5' MGP . B . L 3 -34.518 26.236 -12.232 0.38 62.35 ? O5' MGP 504 B 1 HETATM 11 P PB MGP . A . L 3 -37.406 24.587 -14.661 0.62 53.12 ? PB MGP 504 B 1 HETATM 12 P PB MGP . B . L 3 -37.248 28.837 -12.296 0.38 44.13 ? PB MGP 504 B 1 HETATM 13 O O1B MGP . A . L 3 -37.728 23.85 -15.951 0.62 52.81 ? O1B MGP 504 B 1 HETATM 14 O O1B MGP . B . L 3 -37.098 28.565 -13.786 0.38 41.32 ? O1B MGP 504 B 1 HETATM 15 O O2B MGP . A . L 3 -38.584 25.077 -13.91 0.62 52 ? O2B MGP 504 B 1 HETATM 16 O O2B MGP . B . L 3 -38.419 28.167 -11.686 0.38 45.27 ? O2B MGP 504 B 1 HETATM 17 O O3B MGP . A . L 3 -36.376 25.755 -15.008 0.62 56.9 ? O3B MGP 504 B 1 HETATM 18 O O3B MGP . B . L 3 -37.317 30.414 -12.084 0.38 39.31 ? O3B MGP 504 B 1 HETATM 19 P PC MGP . A . L 3 -35.73 26.934 -14.141 0.62 58.49 ? PC MGP 504 B 1 HETATM 20 P PC MGP . B . L 3 -38.384 31.235 -11.226 0.38 34.92 ? PC MGP 504 B 1 HETATM 21 O O1C MGP . A . L 3 -34.29 26.491 -13.896 0.62 59.75 ? O1C MGP 504 B 1 HETATM 22 O O1C MGP . B . L 3 -37.81 31.362 -9.84 0.38 32.71 ? O1C MGP 504 B 1 HETATM 23 O O2C MGP . A . L 3 -36.507 27.12 -12.885 0.62 60.28 ? O2C MGP 504 B 1 HETATM 24 O O2C MGP . B . L 3 -39.701 30.525 -11.22 0.38 33.61 ? O2C MGP 504 B 1 HETATM 25 O O3C MGP . A . L 3 -35.664 28.232 -14.968 0.62 58.42 ? O3C MGP 504 B 1 HETATM 26 O O3C MGP . B . L 3 -38.451 32.666 -11.768 0.38 33.39 ? O3C MGP 504 B 1 HETATM 27 C C5' MGP . A . L 3 -34.591 20.54 -12.806 0.62 54 ? C5' MGP 504 B 1 HETATM 28 C C5' MGP . B . L 3 -34.109 25.436 -13.362 0.38 65.61 ? C5' MGP 504 B 1 HETATM 29 C C4' MGP . A . L 3 -33.437 21.467 -12.527 0.62 59.06 ? C4' MGP 504 B 1 HETATM 30 C C4' MGP . B . L 3 -33.35 24.249 -12.832 0.38 69.39 ? C4' MGP 504 B 1 HETATM 31 O O4' MGP . A . L 3 -32.261 21.058 -13.252 0.62 63.45 ? O4' MGP 504 B 1 HETATM 32 O O4' MGP . B . L 3 -33.326 23.197 -13.818 0.38 71.26 ? O4' MGP 504 B 1 HETATM 33 C C3' MGP . A . L 3 -33.625 22.918 -12.932 0.62 59.49 ? C3' MGP 504 B 1 HETATM 34 C C3' MGP . B . L 3 -31.889 24.482 -12.462 0.38 70.23 ? C3' MGP 504 B 1 HETATM 35 O O3' MGP . A . L 3 -34.465 23.575 -11.991 0.62 58.2 ? O3' MGP 504 B 1 HETATM 36 O O3' MGP . B . L 3 -31.786 25.051 -11.16 0.38 69.82 ? O3' MGP 504 B 1 HETATM 37 C C2' MGP . A . L 3 -32.185 23.422 -12.955 0.62 62.87 ? C2' MGP 504 B 1 HETATM 38 C C2' MGP . B . L 3 -31.3 23.07 -12.568 0.38 70.68 ? C2' MGP 504 B 1 HETATM 39 O O2' MGP . A . L 3 -31.723 23.73 -11.644 0.62 63.65 ? O2' MGP 504 B 1 HETATM 40 O O2' MGP . B . L 3 -31.564 22.289 -11.407 0.38 70.32 ? O2' MGP 504 B 1 HETATM 41 C C1' MGP . A . L 3 -31.437 22.192 -13.493 0.62 66.55 ? C1' MGP 504 B 1 HETATM 42 C C1' MGP . B . L 3 -32.099 22.488 -13.742 0.38 72.33 ? C1' MGP 504 B 1 HETATM 43 N N9 MGP . A . L 3 -31.127 22.27 -14.945 0.62 73.01 ? N9 MGP 504 B 1 HETATM 44 N N9 MGP . B . L 3 -31.437 22.564 -15.07 0.38 76.3 ? N9 MGP 504 B 1 HETATM 45 C C8 MGP . A . L 3 -30.1 22.953 -15.453 0.62 74.07 ? C8 MGP 504 B 1 HETATM 46 C C8 MGP . B . L 3 -30.321 23.204 -15.421 0.38 75.8 ? C8 MGP 504 B 1 HETATM 47 N N7 MGP . A . L 3 -30.133 22.867 -16.767 0.62 77.57 ? N7 MGP 504 B 1 HETATM 48 N N7 MGP . B . L 3 -30.121 23.033 -16.729 0.38 76.79 ? N7 MGP 504 B 1 HETATM 49 C CM7 MGP . A . L 3 -29.197 23.561 -17.658 0.62 77 ? CM7 MGP 504 B 1 HETATM 50 C CM7 MGP . B . L 3 -28.963 23.609 -17.435 0.38 73.78 ? CM7 MGP 504 B 1 HETATM 51 C C5 MGP . A . L 3 -31.221 22.081 -17.163 0.62 81.87 ? C5 MGP 504 B 1 HETATM 52 C C5 MGP . B . L 3 -31.095 22.261 -17.266 0.38 81.27 ? C5 MGP 504 B 1 HETATM 53 C C6 MGP . A . L 3 -31.744 21.637 -18.425 0.62 88.17 ? C6 MGP 504 B 1 HETATM 54 C C6 MGP . B . L 3 -31.407 21.763 -18.576 0.38 87.73 ? C6 MGP 504 B 1 HETATM 55 O O6 MGP . A . L 3 -31.341 21.894 -19.56 0.62 87.63 ? O6 MGP 504 B 1 HETATM 56 O O6 MGP . B . L 3 -30.78 21.933 -19.617 0.38 91.83 ? O6 MGP 504 B 1 HETATM 57 N N1 MGP . A . L 3 -32.866 20.842 -18.235 0.62 91.56 ? N1 MGP 504 B 1 HETATM 58 N N1 MGP . B . L 3 -32.579 21.024 -18.563 0.38 90.59 ? N1 MGP 504 B 1 HETATM 59 C C2 MGP . A . L 3 -33.409 20.51 -17.02 0.62 91.1 ? C2 MGP 504 B 1 HETATM 60 C C2 MGP . B . L 3 -33.364 20.777 -17.461 0.38 90.21 ? C2 MGP 504 B 1 HETATM 61 N N2 MGP . A . L 3 -34.488 19.724 -17.027 0.62 92.02 ? N2 MGP 504 B 1 HETATM 62 N N2 MGP . B . L 3 -34.467 20.043 -17.652 0.38 94.18 ? N2 MGP 504 B 1 HETATM 63 N N3 MGP . A . L 3 -32.921 20.934 -15.859 0.62 85.68 ? N3 MGP 504 B 1 HETATM 64 N N3 MGP . B . L 3 -33.084 21.236 -16.245 0.38 84.15 ? N3 MGP 504 B 1 HETATM 65 C C4 MGP . A . L 3 -31.834 21.71 -15.987 0.62 79.04 ? C4 MGP 504 B 1 HETATM 66 C C4 MGP . B . L 3 -31.946 21.966 -16.201 0.38 80.54 ? C4 MGP 504 B 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 36 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 66 #