data_6SCX # _model_server_result.job_id lHxxitA5XCrQvPI1kGcOWw _model_server_result.datetime_utc '2024-12-21 15:02:55' _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":"H","auth_seq_id":505}' # _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 . H 3 -25.987 32.45 -39.616 0.65 53.81 ? PA MGP 505 A 1 HETATM 2 P PA MGP . B . H 3 -31.703 29.792 -41.267 0.35 76.17 ? PA MGP 505 A 1 HETATM 3 O O1A MGP . A . H 3 -25.514 31.816 -38.323 0.65 55.11 ? O1A MGP 505 A 1 HETATM 4 O O1A MGP . B . H 3 -32.018 28.566 -42.112 0.35 80.56 ? O1A MGP 505 A 1 HETATM 5 O O2A MGP . A . H 3 -25.684 33.89 -39.661 0.65 50.48 ? O2A MGP 505 A 1 HETATM 6 O O2A MGP . B . H 3 -32.232 29.675 -39.899 0.35 80.11 ? O2A MGP 505 A 1 HETATM 7 O O3A MGP . A . H 3 -27.562 32.221 -39.667 0.65 59.09 ? O3A MGP 505 A 1 HETATM 8 O O3A MGP . B . H 3 -32.376 31.047 -41.982 0.35 65.75 ? O3A MGP 505 A 1 HETATM 9 O O5' MGP . A . H 3 -25.195 31.677 -40.84 0.65 51.15 ? O5' MGP 505 A 1 HETATM 10 O O5' MGP . B . H 3 -30.062 29.931 -41.242 0.35 76.01 ? O5' MGP 505 A 1 HETATM 11 P PB MGP . A . H 3 -28.683 33.006 -38.854 0.65 62.08 ? PB MGP 505 A 1 HETATM 12 P PB MGP . B . H 3 -32.91 32.418 -41.372 0.35 55.47 ? PB MGP 505 A 1 HETATM 13 O O1B MGP . A . H 3 -28.037 33.416 -37.544 0.65 64.39 ? O1B MGP 505 A 1 HETATM 14 O O1B MGP . B . H 3 -32.711 32.341 -39.868 0.35 50.89 ? O1B MGP 505 A 1 HETATM 15 O O2B MGP . A . H 3 -29.244 34.126 -39.642 0.65 56.59 ? O2B MGP 505 A 1 HETATM 16 O O2B MGP . B . H 3 -32.304 33.621 -41.981 0.35 55.32 ? O2B MGP 505 A 1 HETATM 17 O O3B MGP . A . H 3 -29.772 31.883 -38.536 0.65 67 ? O3B MGP 505 A 1 HETATM 18 O O3B MGP . B . H 3 -34.473 32.359 -41.677 0.35 52.1 ? O3B MGP 505 A 1 HETATM 19 P PC MGP . A . H 3 -30.879 31.132 -39.413 0.65 67.64 ? PC MGP 505 A 1 HETATM 20 P PC MGP . B . H 3 -35.311 33.32 -42.639 0.35 47.79 ? PC MGP 505 A 1 HETATM 21 O O1C MGP . A . H 3 -30.328 29.717 -39.603 0.65 66.48 ? O1C MGP 505 A 1 HETATM 22 O O1C MGP . B . H 3 -35.293 32.662 -43.999 0.35 44.84 ? O1C MGP 505 A 1 HETATM 23 O O2C MGP . A . H 3 -31.09 31.85 -40.692 0.65 70.58 ? O2C MGP 505 A 1 HETATM 24 O O2C MGP . B . H 3 -34.71 34.687 -42.666 0.35 47.81 ? O2C MGP 505 A 1 HETATM 25 O O3C MGP . A . H 3 -32.19 31.007 -38.62 0.65 65.85 ? O3C MGP 505 A 1 HETATM 26 O O3C MGP . B . H 3 -36.772 33.303 -42.186 0.35 45.67 ? O3C MGP 505 A 1 HETATM 27 C C5' MGP . A . H 3 -24.357 30.531 -40.573 0.65 53.29 ? C5' MGP 505 A 1 HETATM 28 C C5' MGP . B . H 3 -29.264 29.633 -40.077 0.35 76.01 ? C5' MGP 505 A 1 HETATM 29 C C4' MGP . A . H 3 -25.168 29.283 -40.802 0.65 52.82 ? C4' MGP 505 A 1 HETATM 30 C C4' MGP . B . H 3 -28 28.964 -40.549 0.35 77.69 ? C4' MGP 505 A 1 HETATM 31 O O4' MGP . A . H 3 -24.677 28.2 -39.987 0.65 55.23 ? O4' MGP 505 A 1 HETATM 32 O O4' MGP . B . H 3 -26.974 29.082 -39.542 0.35 78.74 ? O4' MGP 505 A 1 HETATM 33 C C3' MGP . A . H 3 -26.641 29.362 -40.445 0.65 52.3 ? C3' MGP 505 A 1 HETATM 34 C C3' MGP . B . H 3 -28.089 27.474 -40.856 0.35 76.73 ? C3' MGP 505 A 1 HETATM 35 O O3' MGP . A . H 3 -27.346 30.088 -41.444 0.65 52.12 ? O3' MGP 505 A 1 HETATM 36 O O3' MGP . B . H 3 -28.612 27.263 -42.164 0.35 76.43 ? O3' MGP 505 A 1 HETATM 37 C C2' MGP . A . H 3 -27.016 27.887 -40.344 0.65 56.17 ? C2' MGP 505 A 1 HETATM 38 C C2' MGP . B . H 3 -26.633 27.024 -40.695 0.35 75.38 ? C2' MGP 505 A 1 HETATM 39 O O2' MGP . A . H 3 -27.28 27.317 -41.62 0.65 57.25 ? O2' MGP 505 A 1 HETATM 40 O O2' MGP . B . H 3 -25.849 27.314 -41.848 0.35 73.63 ? O2' MGP 505 A 1 HETATM 41 C C1' MGP . A . H 3 -25.735 27.281 -39.745 0.65 58.79 ? C1' MGP 505 A 1 HETATM 42 C C1' MGP . B . H 3 -26.158 27.921 -39.543 0.35 75.4 ? C1' MGP 505 A 1 HETATM 43 N N9 MGP . A . H 3 -25.842 27.03 -38.284 0.65 61.84 ? N9 MGP 505 A 1 HETATM 44 N N9 MGP . B . H 3 -26.217 27.314 -38.191 0.35 69.49 ? N9 MGP 505 A 1 HETATM 45 C C8 MGP . A . H 3 -26.462 25.979 -37.744 0.65 62.59 ? C8 MGP 505 A 1 HETATM 46 C C8 MGP . B . H 3 -26.782 26.166 -37.806 0.35 68.04 ? C8 MGP 505 A 1 HETATM 47 N N7 MGP . A . H 3 -26.463 26.069 -36.438 0.65 64.26 ? N7 MGP 505 A 1 HETATM 48 N N7 MGP . B . H 3 -26.637 26.013 -36.504 0.35 65.6 ? N7 MGP 505 A 1 HETATM 49 C CM7 MGP . A . H 3 -27.112 25.136 -35.527 0.65 64.24 ? CM7 MGP 505 A 1 HETATM 50 C CM7 MGP . B . H 3 -27.126 24.862 -35.746 0.35 63.31 ? CM7 MGP 505 A 1 HETATM 51 C C5 MGP . A . H 3 -25.754 27.257 -36.067 0.65 66.02 ? C5 MGP 505 A 1 HETATM 52 C C5 MGP . B . H 3 -25.944 27.117 -35.982 0.35 66.51 ? C5 MGP 505 A 1 HETATM 53 C C6 MGP . A . H 3 -25.449 27.884 -34.818 0.65 69.85 ? C6 MGP 505 A 1 HETATM 54 C C6 MGP . B . H 3 -25.533 27.514 -34.669 0.35 69.41 ? C6 MGP 505 A 1 HETATM 55 O O6 MGP . A . H 3 -25.722 27.52 -33.673 0.65 70.71 ? O6 MGP 505 A 1 HETATM 56 O O6 MGP . B . H 3 -25.7 26.933 -33.599 0.35 70.09 ? O6 MGP 505 A 1 HETATM 57 N N1 MGP . A . H 3 -24.74 29.061 -35.037 0.65 70.48 ? N1 MGP 505 A 1 HETATM 58 N N1 MGP . B . H 3 -24.894 28.747 -34.713 0.35 69.09 ? N1 MGP 505 A 1 HETATM 59 C C2 MGP . A . H 3 -24.387 29.559 -36.263 0.65 70.21 ? C2 MGP 505 A 1 HETATM 60 C C2 MGP . B . H 3 -24.684 29.497 -35.841 0.35 68.55 ? C2 MGP 505 A 1 HETATM 61 N N2 MGP . A . H 3 -23.707 30.708 -36.286 0.65 70.39 ? N2 MGP 505 A 1 HETATM 62 N N2 MGP . B . H 3 -24.057 30.668 -35.686 0.35 70.48 ? N2 MGP 505 A 1 HETATM 63 N N3 MGP . A . H 3 -24.696 28.968 -37.412 0.65 66.93 ? N3 MGP 505 A 1 HETATM 64 N N3 MGP . B . H 3 -25.072 29.119 -37.057 0.35 65.5 ? N3 MGP 505 A 1 HETATM 65 C C4 MGP . A . H 3 -25.391 27.833 -37.261 0.65 63.73 ? C4 MGP 505 A 1 HETATM 66 C C4 MGP . B . H 3 -25.696 27.922 -37.073 0.35 65.5 ? C4 MGP 505 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 253 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 66 #