data_4IJ8 # _model_server_result.job_id ruYAjtlGFDBhKC-t1o5-IQ _model_server_result.datetime_utc '2024-11-13 02:52:11' _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 4ij8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":501}' # _entry.id 4IJ8 # _exptl.entry_id 4IJ8 _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 120 _cell.entry_id 4IJ8 _cell.length_a 101.439 _cell.length_b 101.439 _cell.length_c 140.799 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4IJ8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 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 software_defined_assembly 1 PISA monomeric 1 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,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA 1 1 C 2 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 R N N # _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 277 n n N HN1 SAM sing 278 n n N HN2 SAM sing 279 n n CA C SAM sing 280 n n CA CB SAM sing 281 n n CA HA SAM sing 282 n n C O SAM doub 283 n n C OXT SAM sing 284 n n CB CG SAM sing 285 n n CB HB1 SAM sing 286 n n CB HB2 SAM sing 287 n n CG SD SAM sing 288 n n CG HG1 SAM sing 289 n n CG HG2 SAM sing 290 n n SD CE SAM sing 291 n n SD C5' SAM sing 292 n n CE HE1 SAM sing 293 n n CE HE2 SAM sing 294 n n CE HE3 SAM sing 295 n n C5' C4' SAM sing 296 n n C5' "H5'1" SAM sing 297 n n C5' "H5'2" SAM sing 298 n n C4' O4' SAM sing 299 n n C4' C3' SAM sing 300 n n C4' H4' SAM sing 301 n n O4' C1' SAM sing 302 n n C3' O3' SAM sing 303 n n C3' C2' SAM sing 304 n n C3' H3' SAM sing 305 n n O3' HO3' SAM sing 306 n n C2' O2' SAM sing 307 n n C2' C1' SAM sing 308 n n C2' H2' SAM sing 309 n n O2' HO2' SAM sing 310 n n C1' N9 SAM sing 311 n n C1' H1' SAM sing 312 n n N9 C8 SAM sing 313 n y N9 C4 SAM sing 314 n y C8 N7 SAM doub 315 n y C8 H8 SAM sing 316 n n N7 C5 SAM sing 317 n y C5 C6 SAM sing 318 n y C5 C4 SAM doub 319 n y C6 N6 SAM sing 320 n n C6 N1 SAM doub 321 n y N6 HN61 SAM sing 322 n n N6 HN62 SAM sing 323 n n N1 C2 SAM sing 324 n y C2 N3 SAM doub 325 n y C2 H2 SAM sing 326 n n N3 C4 SAM sing 327 n y # _atom_sites.entry_id 4IJ8 _atom_sites.fract_transf_matrix[1][1] 0.009858 _atom_sites.fract_transf_matrix[1][2] 0.005692 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011383 _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] 0.007102 _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 3 SAM A 1 501 501 SAM SAM . E 4 UNX A 1 502 1 UNX UNX . F 4 UNX A 1 503 4 UNX UNX . G 4 UNX A 1 504 5 UNX UNX . H 4 UNX A 1 505 6 UNX UNX . I 4 UNX A 1 506 18 UNX UNX . J 4 UNX A 1 507 20 UNX UNX . K 4 UNX A 1 508 21 UNX UNX . L 4 UNX A 1 509 22 UNX UNX . M 4 UNX A 1 510 23 UNX UNX . N 4 UNX A 1 511 25 UNX UNX . O 4 UNX A 1 512 29 UNX UNX . P 4 UNX A 1 513 30 UNX UNX . Q 4 UNX A 1 514 31 UNX UNX . R 3 SAM B 1 501 501 SAM SAM . S 4 UNX B 1 502 3 UNX UNX . T 4 UNX B 1 503 7 UNX UNX . U 4 UNX B 1 504 8 UNX UNX . V 4 UNX B 1 505 10 UNX UNX . W 4 UNX B 1 506 13 UNX UNX . X 4 UNX B 1 507 14 UNX UNX . Y 4 UNX B 1 508 17 UNX UNX . Z 4 UNX B 1 509 19 UNX UNX . AA 4 UNX B 1 510 28 UNX UNX . BA 5 HOH A 1 601 3 HOH HOH . BA 5 HOH A 2 602 8 HOH HOH . BA 5 HOH A 3 603 9 HOH HOH . BA 5 HOH A 4 604 11 HOH HOH . BA 5 HOH A 5 605 13 HOH HOH . BA 5 HOH A 6 606 14 HOH HOH . BA 5 HOH A 7 607 21 HOH HOH . BA 5 HOH A 8 608 22 HOH HOH . BA 5 HOH A 9 609 27 HOH HOH . BA 5 HOH A 10 610 31 HOH HOH . BA 5 HOH A 11 611 32 HOH HOH . BA 5 HOH A 12 612 34 HOH HOH . BA 5 HOH A 13 613 36 HOH HOH . BA 5 HOH A 14 614 242 HOH HOH . BA 5 HOH A 15 615 243 HOH HOH . BA 5 HOH A 16 616 244 HOH HOH . BA 5 HOH A 17 617 245 HOH HOH . BA 5 HOH A 18 618 253 HOH HOH . BA 5 HOH A 19 619 255 HOH HOH . BA 5 HOH A 20 620 259 HOH HOH . BA 5 HOH A 21 621 260 HOH HOH . BA 5 HOH A 22 622 262 HOH HOH . BA 5 HOH A 23 623 266 HOH HOH . BA 5 HOH A 24 624 267 HOH HOH . BA 5 HOH A 25 625 270 HOH HOH . BA 5 HOH A 26 626 271 HOH HOH . BA 5 HOH A 27 627 279 HOH HOH . BA 5 HOH A 28 628 284 HOH HOH . BA 5 HOH A 29 629 285 HOH HOH . BA 5 HOH A 30 630 286 HOH HOH . BA 5 HOH A 31 631 287 HOH HOH . BA 5 HOH A 32 632 288 HOH HOH . BA 5 HOH A 33 633 289 HOH HOH . BA 5 HOH A 34 634 290 HOH HOH . BA 5 HOH A 35 635 291 HOH HOH . BA 5 HOH A 36 636 293 HOH HOH . BA 5 HOH A 37 637 295 HOH HOH . BA 5 HOH A 38 638 296 HOH HOH . BA 5 HOH A 39 639 307 HOH HOH . BA 5 HOH A 40 640 308 HOH HOH . BA 5 HOH A 41 641 316 HOH HOH . BA 5 HOH A 42 642 317 HOH HOH . BA 5 HOH A 43 643 318 HOH HOH . BA 5 HOH A 44 644 319 HOH HOH . BA 5 HOH A 45 645 321 HOH HOH . BA 5 HOH A 46 646 322 HOH HOH . BA 5 HOH A 47 647 323 HOH HOH . BA 5 HOH A 48 648 324 HOH HOH . BA 5 HOH A 49 649 325 HOH HOH . BA 5 HOH A 50 650 328 HOH HOH . BA 5 HOH A 51 651 329 HOH HOH . BA 5 HOH A 52 652 330 HOH HOH . BA 5 HOH A 53 653 333 HOH HOH . BA 5 HOH A 54 654 334 HOH HOH . BA 5 HOH A 55 655 335 HOH HOH . BA 5 HOH A 56 656 336 HOH HOH . BA 5 HOH A 57 657 357 HOH HOH . BA 5 HOH A 58 658 358 HOH HOH . BA 5 HOH A 59 659 359 HOH HOH . BA 5 HOH A 60 660 360 HOH HOH . BA 5 HOH A 61 661 362 HOH HOH . BA 5 HOH A 62 662 364 HOH HOH . BA 5 HOH A 63 663 365 HOH HOH . CA 5 HOH B 1 601 1 HOH HOH . CA 5 HOH B 2 602 4 HOH HOH . CA 5 HOH B 3 603 5 HOH HOH . CA 5 HOH B 4 604 6 HOH HOH . CA 5 HOH B 5 605 7 HOH HOH . CA 5 HOH B 6 606 10 HOH HOH . CA 5 HOH B 7 607 12 HOH HOH . CA 5 HOH B 8 608 16 HOH HOH . CA 5 HOH B 9 609 17 HOH HOH . CA 5 HOH B 10 610 18 HOH HOH . CA 5 HOH B 11 611 19 HOH HOH . CA 5 HOH B 12 612 20 HOH HOH . CA 5 HOH B 13 613 23 HOH HOH . CA 5 HOH B 14 614 24 HOH HOH . CA 5 HOH B 15 615 25 HOH HOH . CA 5 HOH B 16 616 26 HOH HOH . CA 5 HOH B 17 617 28 HOH HOH . CA 5 HOH B 18 618 29 HOH HOH . CA 5 HOH B 19 619 30 HOH HOH . CA 5 HOH B 20 620 35 HOH HOH . CA 5 HOH B 21 621 247 HOH HOH . CA 5 HOH B 22 622 248 HOH HOH . CA 5 HOH B 23 623 251 HOH HOH . CA 5 HOH B 24 624 254 HOH HOH . CA 5 HOH B 25 625 257 HOH HOH . CA 5 HOH B 26 626 258 HOH HOH . CA 5 HOH B 27 627 261 HOH HOH . CA 5 HOH B 28 628 264 HOH HOH . CA 5 HOH B 29 629 265 HOH HOH . CA 5 HOH B 30 630 268 HOH HOH . CA 5 HOH B 31 631 272 HOH HOH . CA 5 HOH B 32 632 273 HOH HOH . CA 5 HOH B 33 633 281 HOH HOH . CA 5 HOH B 34 634 282 HOH HOH . CA 5 HOH B 35 635 294 HOH HOH . CA 5 HOH B 36 636 297 HOH HOH . CA 5 HOH B 37 637 300 HOH HOH . CA 5 HOH B 38 638 301 HOH HOH . CA 5 HOH B 39 639 302 HOH HOH . CA 5 HOH B 40 640 304 HOH HOH . CA 5 HOH B 41 641 305 HOH HOH . CA 5 HOH B 42 642 311 HOH HOH . CA 5 HOH B 43 643 313 HOH HOH . CA 5 HOH B 44 644 314 HOH HOH . CA 5 HOH B 45 645 315 HOH HOH . CA 5 HOH B 46 646 320 HOH HOH . CA 5 HOH B 47 647 327 HOH HOH . CA 5 HOH B 48 648 331 HOH HOH . CA 5 HOH B 49 649 332 HOH HOH . CA 5 HOH B 50 650 337 HOH HOH . CA 5 HOH B 51 651 338 HOH HOH . CA 5 HOH B 52 652 339 HOH HOH . CA 5 HOH B 53 653 340 HOH HOH . CA 5 HOH B 54 654 341 HOH HOH . CA 5 HOH B 55 655 342 HOH HOH . CA 5 HOH B 56 656 343 HOH HOH . CA 5 HOH B 57 657 344 HOH HOH . CA 5 HOH B 58 658 346 HOH HOH . CA 5 HOH B 59 659 347 HOH HOH . CA 5 HOH B 60 660 348 HOH HOH . CA 5 HOH B 61 661 349 HOH HOH . CA 5 HOH B 62 662 350 HOH HOH . CA 5 HOH B 63 663 351 HOH HOH . CA 5 HOH B 64 664 353 HOH HOH . CA 5 HOH B 65 665 354 HOH HOH . CA 5 HOH B 66 666 355 HOH HOH . CA 5 HOH B 67 667 356 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 -22.237 33.194 11.936 1 21.75 ? N SAM 501 A 1 HETATM 2 C CA SAM . . . D 3 -21.565 32.009 11.419 1 23.64 ? CA SAM 501 A 1 HETATM 3 C C SAM . . . D 3 -21.802 30.843 12.338 1 23.38 ? C SAM 501 A 1 HETATM 4 O O SAM . . . D 3 -22.351 31.01 13.476 1 23.35 ? O SAM 501 A 1 HETATM 5 O OXT SAM . . . D 3 -21.481 29.72 11.929 1 22.5 ? OXT SAM 501 A 1 HETATM 6 C CB SAM . . . D 3 -20.067 32.262 11.226 1 26.84 ? CB SAM 501 A 1 HETATM 7 C CG SAM . . . D 3 -19.736 32.828 9.816 1 32.24 ? CG SAM 501 A 1 HETATM 8 S SD SAM . . . D 3 -20.228 31.821 8.53 1 35.74 ? SD SAM 501 A 1 HETATM 9 C CE SAM . . . D 3 -18.88 31.657 7.523 1 35.76 ? CE SAM 501 A 1 HETATM 10 C C5' SAM . . . D 3 -21.494 32.406 7.508 1 27.61 ? C5' SAM 501 A 1 HETATM 11 C C4' SAM . . . D 3 -22.896 32.622 8.1 1 27.5 ? C4' SAM 501 A 1 HETATM 12 O O4' SAM . . . D 3 -22.863 33.688 9.084 1 25.01 ? O4' SAM 501 A 1 HETATM 13 C C3' SAM . . . D 3 -23.929 33.136 7.106 1 26.64 ? C3' SAM 501 A 1 HETATM 14 O O3' SAM . . . D 3 -24.492 32.181 6.182 1 24.86 ? O3' SAM 501 A 1 HETATM 15 C C2' SAM . . . D 3 -24.937 33.838 8.002 1 23.31 ? C2' SAM 501 A 1 HETATM 16 O O2' SAM . . . D 3 -25.856 32.957 8.699 1 24.6 ? O2' SAM 501 A 1 HETATM 17 C C1' SAM . . . D 3 -24.03 34.489 9.016 1 23.38 ? C1' SAM 501 A 1 HETATM 18 N N9 SAM . . . D 3 -23.608 35.865 8.681 1 21.89 ? N9 SAM 501 A 1 HETATM 19 C C8 SAM . . . D 3 -22.369 36.23 8.283 1 20.81 ? C8 SAM 501 A 1 HETATM 20 N N7 SAM . . . D 3 -22.287 37.554 8.109 1 22.43 ? N7 SAM 501 A 1 HETATM 21 C C5 SAM . . . D 3 -23.515 38.044 8.411 1 19.69 ? C5 SAM 501 A 1 HETATM 22 C C6 SAM . . . D 3 -24.101 39.335 8.387 1 20.39 ? C6 SAM 501 A 1 HETATM 23 N N6 SAM . . . D 3 -23.379 40.441 8.037 1 20.72 ? N6 SAM 501 A 1 HETATM 24 N N1 SAM . . . D 3 -25.394 39.448 8.761 1 21.46 ? N1 SAM 501 A 1 HETATM 25 C C2 SAM . . . D 3 -26.141 38.4 9.107 1 20.9 ? C2 SAM 501 A 1 HETATM 26 N N3 SAM . . . D 3 -25.653 37.15 9.107 1 21.35 ? N3 SAM 501 A 1 HETATM 27 C C4 SAM . . . D 3 -24.353 36.938 8.786 1 21.06 ? C4 SAM 501 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 27 #