data_4NJG # _model_server_result.job_id 0Fwdqk9cbbWYAPUx0Vu70w _model_server_result.datetime_utc '2024-11-24 23:42:56' _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 4njg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":302}' # _entry.id 4NJG # _exptl.entry_id 4NJG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYLMETHIONINE _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 90 _cell.angle_gamma 90 _cell.entry_id 4NJG _cell.length_a 118.956 _cell.length_b 118.956 _cell.length_c 101.952 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4NJG _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 G 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 A SG CYS 51 A CYS 31 1_555 C FE4 SF4 . A SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc2 A SG CYS 66 A CYS 46 1_555 C FE1 SF4 . A SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc3 A SG CYS 69 A CYS 49 1_555 C FE2 SF4 . A SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc4 C FE3 SF4 . A SF4 301 1_555 D O SAM . A SAM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc5 C FE3 SF4 . A SF4 301 1_555 D N SAM . A SAM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? metalc ? metalc6 B SG CYS 51 B CYS 31 1_555 F FE4 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc7 B SG CYS 66 B CYS 46 1_555 F FE1 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc8 B SG CYS 69 B CYS 49 1_555 F FE2 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc9 F FE3 SF4 . B SF4 301 1_555 G N SAM . B SAM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc10 F FE3 SF4 . B SF4 301 1_555 G O SAM . B SAM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? # _chem_comp.formula 'C15 H22 N6 O5 S' _chem_comp.formula_weight 398.437 _chem_comp.id SAM _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYLMETHIONINE _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 N CA SAM sing 298 n n N HN1 SAM sing 299 n n N HN2 SAM sing 300 n n CA C SAM sing 301 n n CA CB SAM sing 302 n n CA HA SAM sing 303 n n C O SAM doub 304 n n C OXT SAM sing 305 n n CB CG SAM sing 306 n n CB HB1 SAM sing 307 n n CB HB2 SAM sing 308 n n CG SD SAM sing 309 n n CG HG1 SAM sing 310 n n CG HG2 SAM sing 311 n n SD CE SAM sing 312 n n SD C5' SAM sing 313 n n CE HE1 SAM sing 314 n n CE HE2 SAM sing 315 n n CE HE3 SAM sing 316 n n C5' C4' SAM sing 317 n n C5' "H5'1" SAM sing 318 n n C5' "H5'2" SAM sing 319 n n C4' O4' SAM sing 320 n n C4' C3' SAM sing 321 n n C4' H4' SAM sing 322 n n O4' C1' SAM sing 323 n n C3' O3' SAM sing 324 n n C3' C2' SAM sing 325 n n C3' H3' SAM sing 326 n n O3' HO3' SAM sing 327 n n C2' O2' SAM sing 328 n n C2' C1' SAM sing 329 n n C2' H2' SAM sing 330 n n O2' HO2' SAM sing 331 n n C1' N9 SAM sing 332 n n C1' H1' SAM sing 333 n n N9 C8 SAM sing 334 n y N9 C4 SAM sing 335 n y C8 N7 SAM doub 336 n y C8 H8 SAM sing 337 n n N7 C5 SAM sing 338 n y C5 C6 SAM sing 339 n y C5 C4 SAM doub 340 n y C6 N6 SAM sing 341 n n C6 N1 SAM doub 342 n y N6 HN61 SAM sing 343 n n N6 HN62 SAM sing 344 n n N1 C2 SAM sing 345 n y C2 N3 SAM doub 346 n y C2 H2 SAM sing 347 n n N3 C4 SAM sing 348 n y # _atom_sites.entry_id 4NJG _atom_sites.fract_transf_matrix[1][1] 0.008406 _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] 0.008406 _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] 0.009809 _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 2 SF4 A 1 301 240 SF4 SF4 . D 3 SAM A 1 302 241 SAM SAM . E 4 HHS A 1 303 242 HHS HHS . F 2 SF4 B 1 301 240 SF4 SF4 . G 3 SAM B 1 302 241 SAM SAM . H 4 HHS B 1 303 242 HHS HHS . I 5 HOH A 1 401 2 HOH HOH . I 5 HOH A 2 402 3 HOH HOH . I 5 HOH A 3 403 4 HOH HOH . I 5 HOH A 4 404 5 HOH HOH . I 5 HOH A 5 405 9 HOH HOH . I 5 HOH A 6 406 11 HOH HOH . I 5 HOH A 7 407 14 HOH HOH . I 5 HOH A 8 408 16 HOH HOH . I 5 HOH A 9 409 20 HOH HOH . I 5 HOH A 10 410 21 HOH HOH . I 5 HOH A 11 411 24 HOH HOH . I 5 HOH A 12 412 25 HOH HOH . I 5 HOH A 13 413 26 HOH HOH . I 5 HOH A 14 414 27 HOH HOH . I 5 HOH A 15 415 28 HOH HOH . I 5 HOH A 16 416 30 HOH HOH . I 5 HOH A 17 417 33 HOH HOH . I 5 HOH A 18 418 35 HOH HOH . I 5 HOH A 19 419 37 HOH HOH . I 5 HOH A 20 420 39 HOH HOH . I 5 HOH A 21 421 40 HOH HOH . I 5 HOH A 22 422 41 HOH HOH . I 5 HOH A 23 423 42 HOH HOH . I 5 HOH A 24 424 44 HOH HOH . I 5 HOH A 25 425 47 HOH HOH . I 5 HOH A 26 426 48 HOH HOH . I 5 HOH A 27 427 49 HOH HOH . I 5 HOH A 28 428 51 HOH HOH . I 5 HOH A 29 429 52 HOH HOH . I 5 HOH A 30 430 53 HOH HOH . I 5 HOH A 31 431 55 HOH HOH . I 5 HOH A 32 432 57 HOH HOH . I 5 HOH A 33 433 59 HOH HOH . I 5 HOH A 34 434 60 HOH HOH . I 5 HOH A 35 435 62 HOH HOH . I 5 HOH A 36 436 66 HOH HOH . I 5 HOH A 37 437 68 HOH HOH . I 5 HOH A 38 438 69 HOH HOH . I 5 HOH A 39 439 71 HOH HOH . I 5 HOH A 40 440 74 HOH HOH . I 5 HOH A 41 441 75 HOH HOH . I 5 HOH A 42 442 78 HOH HOH . I 5 HOH A 43 443 79 HOH HOH . I 5 HOH A 44 444 80 HOH HOH . I 5 HOH A 45 445 83 HOH HOH . I 5 HOH A 46 446 84 HOH HOH . I 5 HOH A 47 447 85 HOH HOH . I 5 HOH A 48 448 86 HOH HOH . I 5 HOH A 49 449 87 HOH HOH . I 5 HOH A 50 450 88 HOH HOH . I 5 HOH A 51 451 89 HOH HOH . I 5 HOH A 52 452 90 HOH HOH . I 5 HOH A 53 453 91 HOH HOH . I 5 HOH A 54 454 92 HOH HOH . I 5 HOH A 55 455 93 HOH HOH . I 5 HOH A 56 456 100 HOH HOH . J 5 HOH B 1 401 1 HOH HOH . J 5 HOH B 2 402 6 HOH HOH . J 5 HOH B 3 403 7 HOH HOH . J 5 HOH B 4 404 8 HOH HOH . J 5 HOH B 5 405 10 HOH HOH . J 5 HOH B 6 406 12 HOH HOH . J 5 HOH B 7 407 13 HOH HOH . J 5 HOH B 8 408 15 HOH HOH . J 5 HOH B 9 409 17 HOH HOH . J 5 HOH B 10 410 18 HOH HOH . J 5 HOH B 11 411 19 HOH HOH . J 5 HOH B 12 412 22 HOH HOH . J 5 HOH B 13 413 23 HOH HOH . J 5 HOH B 14 414 29 HOH HOH . J 5 HOH B 15 415 31 HOH HOH . J 5 HOH B 16 416 32 HOH HOH . J 5 HOH B 17 417 34 HOH HOH . J 5 HOH B 18 418 36 HOH HOH . J 5 HOH B 19 419 38 HOH HOH . J 5 HOH B 20 420 43 HOH HOH . J 5 HOH B 21 421 45 HOH HOH . J 5 HOH B 22 422 46 HOH HOH . J 5 HOH B 23 423 50 HOH HOH . J 5 HOH B 24 424 54 HOH HOH . J 5 HOH B 25 425 56 HOH HOH . J 5 HOH B 26 426 58 HOH HOH . J 5 HOH B 27 427 61 HOH HOH . J 5 HOH B 28 428 63 HOH HOH . J 5 HOH B 29 429 64 HOH HOH . J 5 HOH B 30 430 65 HOH HOH . J 5 HOH B 31 431 67 HOH HOH . J 5 HOH B 32 432 70 HOH HOH . J 5 HOH B 33 433 72 HOH HOH . J 5 HOH B 34 434 73 HOH HOH . J 5 HOH B 35 435 76 HOH HOH . J 5 HOH B 36 436 77 HOH HOH . J 5 HOH B 37 437 81 HOH HOH . J 5 HOH B 38 438 82 HOH HOH . J 5 HOH B 39 439 94 HOH HOH . J 5 HOH B 40 440 95 HOH HOH . J 5 HOH B 41 441 96 HOH HOH . J 5 HOH B 42 442 97 HOH HOH . J 5 HOH B 43 443 98 HOH HOH . J 5 HOH B 44 444 99 HOH HOH . J 5 HOH B 45 445 101 HOH HOH . J 5 HOH B 46 446 102 HOH HOH . J 5 HOH B 47 447 103 HOH HOH . J 5 HOH B 48 448 104 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 N N SAM . . . D 3 -18.731 85.877 22.045 1 39.3 ? N SAM 302 A 1 HETATM 2 C CA SAM . . . D 3 -17.636 86.664 21.441 1 38.49 ? CA SAM 302 A 1 HETATM 3 C C SAM . . . D 3 -17.447 86.428 19.898 1 43.48 ? C SAM 302 A 1 HETATM 4 O O SAM . . . D 3 -18.264 85.669 19.33 1 45.42 ? O SAM 302 A 1 HETATM 5 O OXT SAM . . . D 3 -16.494 87.019 19.344 1 40.06 ? OXT SAM 302 A 1 HETATM 6 C CB SAM . . . D 3 -16.279 86.341 22.108 1 36.01 ? CB SAM 302 A 1 HETATM 7 C CG SAM . . . D 3 -16.203 84.894 22.637 1 35.41 ? CG SAM 302 A 1 HETATM 8 S SD SAM . . . D 3 -15.922 83.741 21.319 1 54.3 ? SD SAM 302 A 1 HETATM 9 C CE SAM . . . D 3 -15.898 82.244 22.214 1 55.67 ? CE SAM 302 A 1 HETATM 10 C C5' SAM . . . D 3 -14.17 83.981 21.028 1 58.49 ? C5' SAM 302 A 1 HETATM 11 C C4' SAM . . . D 3 -13.712 83.779 19.564 1 55.37 ? C4' SAM 302 A 1 HETATM 12 O O4' SAM . . . D 3 -13.705 82.376 19.213 1 53.89 ? O4' SAM 302 A 1 HETATM 13 C C3' SAM . . . D 3 -14.595 84.481 18.527 1 55.15 ? C3' SAM 302 A 1 HETATM 14 O O3' SAM . . . D 3 -13.789 85.147 17.562 1 54.98 ? O3' SAM 302 A 1 HETATM 15 C C2' SAM . . . D 3 -15.382 83.327 17.902 1 54.85 ? C2' SAM 302 A 1 HETATM 16 O O2' SAM . . . D 3 -15.765 83.601 16.559 1 56.61 ? O2' SAM 302 A 1 HETATM 17 C C1' SAM . . . D 3 -14.344 82.214 17.964 1 52.34 ? C1' SAM 302 A 1 HETATM 18 N N9 SAM . . . D 3 -14.898 80.867 17.886 1 47.88 ? N9 SAM 302 A 1 HETATM 19 C C8 SAM . . . D 3 -15.966 80.365 18.584 1 46.27 ? C8 SAM 302 A 1 HETATM 20 N N7 SAM . . . D 3 -16.26 79.123 18.289 1 44.58 ? N7 SAM 302 A 1 HETATM 21 C C5 SAM . . . D 3 -15.318 78.779 17.329 1 45.12 ? C5 SAM 302 A 1 HETATM 22 C C6 SAM . . . D 3 -15.09 77.594 16.604 1 45.49 ? C6 SAM 302 A 1 HETATM 23 N N6 SAM . . . D 3 -15.832 76.492 16.732 1 45 ? N6 SAM 302 A 1 HETATM 24 N N1 SAM . . . D 3 -14.062 77.584 15.725 1 45.76 ? N1 SAM 302 A 1 HETATM 25 C C2 SAM . . . D 3 -13.323 78.688 15.588 1 44.48 ? C2 SAM 302 A 1 HETATM 26 N N3 SAM . . . D 3 -13.446 79.862 16.212 1 45.44 ? N3 SAM 302 A 1 HETATM 27 C C4 SAM . . . D 3 -14.471 79.843 17.075 1 46.38 ? C4 SAM 302 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 27 #