data_4PGH # _model_server_result.job_id SkqdbDd3U4xSORhlHLIxqQ _model_server_result.datetime_utc '2024-10-19 08:30:31' _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 4pgh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":401}' # _entry.id 4PGH # _exptl.entry_id 4PGH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYLMETHIONINE _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 93.02 _cell.angle_gamma 90 _cell.entry_id 4PGH _cell.length_a 76.777 _cell.length_b 63.9 _cell.length_c 152.468 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PGH _symmetry.cell_setting . _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # 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,E,F,I,J 1 1 C,D,G,H,K,L 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 ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H 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 4PGH _atom_sites.fract_transf_matrix[1][1] 0.013025 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000687 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015649 _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] 0.006568 _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 E 2 SAM A 1 401 1 SAM SAM . F 2 SAM B 1 401 3 SAM SAM . G 2 SAM C 1 401 2 SAM SAM . H 2 SAM D 1 401 4 SAM SAM . I 3 HOH A 1 501 101 HOH HOH . I 3 HOH A 2 502 59 HOH HOH . I 3 HOH A 3 503 102 HOH HOH . I 3 HOH A 4 504 84 HOH HOH . I 3 HOH A 5 505 24 HOH HOH . I 3 HOH A 6 506 104 HOH HOH . I 3 HOH A 7 507 65 HOH HOH . I 3 HOH A 8 508 1 HOH HOH . I 3 HOH A 9 509 3 HOH HOH . I 3 HOH A 10 510 4 HOH HOH . I 3 HOH A 11 511 9 HOH HOH . I 3 HOH A 12 512 11 HOH HOH . I 3 HOH A 13 513 15 HOH HOH . I 3 HOH A 14 514 18 HOH HOH . I 3 HOH A 15 515 25 HOH HOH . I 3 HOH A 16 516 26 HOH HOH . I 3 HOH A 17 517 27 HOH HOH . I 3 HOH A 18 518 30 HOH HOH . I 3 HOH A 19 519 31 HOH HOH . I 3 HOH A 20 520 35 HOH HOH . I 3 HOH A 21 521 36 HOH HOH . I 3 HOH A 22 522 44 HOH HOH . I 3 HOH A 23 523 45 HOH HOH . I 3 HOH A 24 524 46 HOH HOH . I 3 HOH A 25 525 48 HOH HOH . I 3 HOH A 26 526 51 HOH HOH . I 3 HOH A 27 527 53 HOH HOH . I 3 HOH A 28 528 55 HOH HOH . I 3 HOH A 29 529 56 HOH HOH . I 3 HOH A 30 530 73 HOH HOH . I 3 HOH A 31 531 75 HOH HOH . I 3 HOH A 32 532 76 HOH HOH . I 3 HOH A 33 533 81 HOH HOH . I 3 HOH A 34 534 83 HOH HOH . I 3 HOH A 35 535 85 HOH HOH . I 3 HOH A 36 536 86 HOH HOH . I 3 HOH A 37 537 87 HOH HOH . I 3 HOH A 38 538 88 HOH HOH . I 3 HOH A 39 539 89 HOH HOH . I 3 HOH A 40 540 90 HOH HOH . I 3 HOH A 41 541 91 HOH HOH . I 3 HOH A 42 542 92 HOH HOH . I 3 HOH A 43 543 93 HOH HOH . I 3 HOH A 44 544 94 HOH HOH . I 3 HOH A 45 545 95 HOH HOH . I 3 HOH A 46 546 96 HOH HOH . I 3 HOH A 47 547 97 HOH HOH . I 3 HOH A 48 548 98 HOH HOH . I 3 HOH A 49 549 99 HOH HOH . I 3 HOH A 50 550 100 HOH HOH . I 3 HOH A 51 551 103 HOH HOH . I 3 HOH A 52 552 105 HOH HOH . I 3 HOH A 53 553 106 HOH HOH . I 3 HOH A 54 554 107 HOH HOH . I 3 HOH A 55 555 108 HOH HOH . I 3 HOH A 56 556 109 HOH HOH . I 3 HOH A 57 557 110 HOH HOH . I 3 HOH A 58 558 111 HOH HOH . I 3 HOH A 59 559 112 HOH HOH . I 3 HOH A 60 560 185 HOH HOH . I 3 HOH A 61 561 188 HOH HOH . I 3 HOH A 62 562 216 HOH HOH . J 3 HOH B 1 501 119 HOH HOH . J 3 HOH B 2 502 190 HOH HOH . J 3 HOH B 3 503 193 HOH HOH . J 3 HOH B 4 504 12 HOH HOH . J 3 HOH B 5 505 13 HOH HOH . J 3 HOH B 6 506 17 HOH HOH . J 3 HOH B 7 507 28 HOH HOH . J 3 HOH B 8 508 29 HOH HOH . J 3 HOH B 9 509 37 HOH HOH . J 3 HOH B 10 510 38 HOH HOH . J 3 HOH B 11 511 49 HOH HOH . J 3 HOH B 12 512 50 HOH HOH . J 3 HOH B 13 513 52 HOH HOH . J 3 HOH B 14 514 54 HOH HOH . J 3 HOH B 15 515 57 HOH HOH . J 3 HOH B 16 516 58 HOH HOH . J 3 HOH B 17 517 60 HOH HOH . J 3 HOH B 18 518 61 HOH HOH . J 3 HOH B 19 519 62 HOH HOH . J 3 HOH B 20 520 63 HOH HOH . J 3 HOH B 21 521 64 HOH HOH . J 3 HOH B 22 522 66 HOH HOH . J 3 HOH B 23 523 67 HOH HOH . J 3 HOH B 24 524 68 HOH HOH . J 3 HOH B 25 525 69 HOH HOH . J 3 HOH B 26 526 70 HOH HOH . J 3 HOH B 27 527 71 HOH HOH . J 3 HOH B 28 528 72 HOH HOH . J 3 HOH B 29 529 77 HOH HOH . J 3 HOH B 30 530 78 HOH HOH . J 3 HOH B 31 531 79 HOH HOH . J 3 HOH B 32 532 80 HOH HOH . J 3 HOH B 33 533 82 HOH HOH . J 3 HOH B 34 534 113 HOH HOH . J 3 HOH B 35 535 183 HOH HOH . J 3 HOH B 36 536 184 HOH HOH . J 3 HOH B 37 537 186 HOH HOH . J 3 HOH B 38 538 187 HOH HOH . J 3 HOH B 39 539 189 HOH HOH . J 3 HOH B 40 540 191 HOH HOH . J 3 HOH B 41 541 192 HOH HOH . J 3 HOH B 42 542 215 HOH HOH . J 3 HOH B 43 543 217 HOH HOH . K 3 HOH C 1 501 151 HOH HOH . K 3 HOH C 2 502 142 HOH HOH . K 3 HOH C 3 503 147 HOH HOH . K 3 HOH C 4 504 118 HOH HOH . K 3 HOH C 5 505 158 HOH HOH . K 3 HOH C 6 506 181 HOH HOH . K 3 HOH C 7 507 160 HOH HOH . K 3 HOH C 8 508 2 HOH HOH . K 3 HOH C 9 509 6 HOH HOH . K 3 HOH C 10 510 7 HOH HOH . K 3 HOH C 11 511 8 HOH HOH . K 3 HOH C 12 512 14 HOH HOH . K 3 HOH C 13 513 21 HOH HOH . K 3 HOH C 14 514 22 HOH HOH . K 3 HOH C 15 515 32 HOH HOH . K 3 HOH C 16 516 33 HOH HOH . K 3 HOH C 17 517 39 HOH HOH . K 3 HOH C 18 518 40 HOH HOH . K 3 HOH C 19 519 47 HOH HOH . K 3 HOH C 20 520 114 HOH HOH . K 3 HOH C 21 521 115 HOH HOH . K 3 HOH C 22 522 116 HOH HOH . K 3 HOH C 23 523 117 HOH HOH . K 3 HOH C 24 524 120 HOH HOH . K 3 HOH C 25 525 121 HOH HOH . K 3 HOH C 26 526 122 HOH HOH . K 3 HOH C 27 527 123 HOH HOH . K 3 HOH C 28 528 125 HOH HOH . K 3 HOH C 29 529 126 HOH HOH . K 3 HOH C 30 530 127 HOH HOH . K 3 HOH C 31 531 128 HOH HOH . K 3 HOH C 32 532 130 HOH HOH . K 3 HOH C 33 533 132 HOH HOH . K 3 HOH C 34 534 133 HOH HOH . K 3 HOH C 35 535 134 HOH HOH . K 3 HOH C 36 536 135 HOH HOH . K 3 HOH C 37 537 136 HOH HOH . K 3 HOH C 38 538 137 HOH HOH . K 3 HOH C 39 539 138 HOH HOH . K 3 HOH C 40 540 140 HOH HOH . K 3 HOH C 41 541 141 HOH HOH . K 3 HOH C 42 542 144 HOH HOH . K 3 HOH C 43 543 145 HOH HOH . K 3 HOH C 44 544 146 HOH HOH . K 3 HOH C 45 545 148 HOH HOH . K 3 HOH C 46 546 149 HOH HOH . K 3 HOH C 47 547 150 HOH HOH . K 3 HOH C 48 548 152 HOH HOH . K 3 HOH C 49 549 153 HOH HOH . K 3 HOH C 50 550 154 HOH HOH . K 3 HOH C 51 551 155 HOH HOH . K 3 HOH C 52 552 156 HOH HOH . K 3 HOH C 53 553 157 HOH HOH . K 3 HOH C 54 554 159 HOH HOH . K 3 HOH C 55 555 161 HOH HOH . K 3 HOH C 56 556 162 HOH HOH . K 3 HOH C 57 557 163 HOH HOH . K 3 HOH C 58 558 164 HOH HOH . K 3 HOH C 59 559 165 HOH HOH . K 3 HOH C 60 560 166 HOH HOH . K 3 HOH C 61 561 167 HOH HOH . K 3 HOH C 62 562 168 HOH HOH . K 3 HOH C 63 563 169 HOH HOH . K 3 HOH C 64 564 170 HOH HOH . K 3 HOH C 65 565 171 HOH HOH . K 3 HOH C 66 566 172 HOH HOH . K 3 HOH C 67 567 173 HOH HOH . K 3 HOH C 68 568 174 HOH HOH . K 3 HOH C 69 569 175 HOH HOH . K 3 HOH C 70 570 176 HOH HOH . K 3 HOH C 71 571 177 HOH HOH . K 3 HOH C 72 572 179 HOH HOH . K 3 HOH C 73 573 180 HOH HOH . K 3 HOH C 74 574 182 HOH HOH . K 3 HOH C 75 575 196 HOH HOH . K 3 HOH C 76 576 198 HOH HOH . K 3 HOH C 77 577 207 HOH HOH . K 3 HOH C 78 578 218 HOH HOH . L 3 HOH D 1 501 74 HOH HOH . L 3 HOH D 2 502 43 HOH HOH . L 3 HOH D 3 503 5 HOH HOH . L 3 HOH D 4 504 10 HOH HOH . L 3 HOH D 5 505 16 HOH HOH . L 3 HOH D 6 506 19 HOH HOH . L 3 HOH D 7 507 20 HOH HOH . L 3 HOH D 8 508 23 HOH HOH . L 3 HOH D 9 509 34 HOH HOH . L 3 HOH D 10 510 41 HOH HOH . L 3 HOH D 11 511 42 HOH HOH . L 3 HOH D 12 512 124 HOH HOH . L 3 HOH D 13 513 129 HOH HOH . L 3 HOH D 14 514 131 HOH HOH . L 3 HOH D 15 515 139 HOH HOH . L 3 HOH D 16 516 143 HOH HOH . L 3 HOH D 17 517 178 HOH HOH . L 3 HOH D 18 518 194 HOH HOH . L 3 HOH D 19 519 195 HOH HOH . L 3 HOH D 20 520 201 HOH HOH . L 3 HOH D 21 521 202 HOH HOH . L 3 HOH D 22 522 203 HOH HOH . L 3 HOH D 23 523 204 HOH HOH . L 3 HOH D 24 524 205 HOH HOH . L 3 HOH D 25 525 206 HOH HOH . L 3 HOH D 26 526 208 HOH HOH . L 3 HOH D 27 527 209 HOH HOH . L 3 HOH D 28 528 210 HOH HOH . L 3 HOH D 29 529 213 HOH HOH . L 3 HOH D 30 530 214 HOH HOH . L 3 HOH D 31 531 219 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 . . . H 2 62.017 26.106 137.279 1 124.06 ? N SAM 401 D 1 HETATM 2 C CA SAM . . . H 2 60.774 26.252 138.019 1 139.52 ? CA SAM 401 D 1 HETATM 3 C C SAM . . . H 2 59.597 25.975 137.115 1 144.89 ? C SAM 401 D 1 HETATM 4 O O SAM . . . H 2 59.78 25.804 135.871 1 146.86 ? O SAM 401 D 1 HETATM 5 O OXT SAM . . . H 2 58.432 25.92 137.598 1 138.55 ? OXT SAM 401 D 1 HETATM 6 C CB SAM . . . H 2 60.673 27.643 138.59 1 134.98 ? CB SAM 401 D 1 HETATM 7 C CG SAM . . . H 2 59.909 27.641 139.954 1 134.6 ? CG SAM 401 D 1 HETATM 8 S SD SAM . . . H 2 60.226 29.139 140.854 1 146.35 ? SD SAM 401 D 1 HETATM 9 C CE SAM . . . H 2 58.899 30.045 141.49 1 140.62 ? CE SAM 401 D 1 HETATM 10 C C5' SAM . . . H 2 61.91 29.636 141.217 1 148.05 ? C5' SAM 401 D 1 HETATM 11 C C4' SAM . . . H 2 62.564 28.572 142.085 1 150.86 ? C4' SAM 401 D 1 HETATM 12 O O4' SAM . . . H 2 63.877 28.982 142.447 1 169.13 ? O4' SAM 401 D 1 HETATM 13 C C3' SAM . . . H 2 61.808 28.38 143.357 1 145.53 ? C3' SAM 401 D 1 HETATM 14 O O3' SAM . . . H 2 61.227 27.087 143.389 1 141.81 ? O3' SAM 401 D 1 HETATM 15 C C2' SAM . . . H 2 62.819 28.506 144.445 1 142.96 ? C2' SAM 401 D 1 HETATM 16 O O2' SAM . . . H 2 62.689 27.466 145.395 1 138.35 ? O2' SAM 401 D 1 HETATM 17 C C1' SAM . . . H 2 64.087 28.385 143.761 1 149.16 ? C1' SAM 401 D 1 HETATM 18 N N9 SAM . . . H 2 65.092 29.064 144.467 1 150.11 ? N9 SAM 401 D 1 HETATM 19 C C8 SAM . . . H 2 65.056 30.275 145.007 1 145.63 ? C8 SAM 401 D 1 HETATM 20 N N7 SAM . . . H 2 66.235 30.522 145.59 1 144.93 ? N7 SAM 401 D 1 HETATM 21 C C5 SAM . . . H 2 67.028 29.441 145.413 1 161.79 ? C5 SAM 401 D 1 HETATM 22 C C6 SAM . . . H 2 68.374 29.052 145.773 1 171.52 ? C6 SAM 401 D 1 HETATM 23 N N6 SAM . . . H 2 69.206 29.953 146.516 1 158.71 ? N6 SAM 401 D 1 HETATM 24 N N1 SAM . . . H 2 68.851 27.848 145.405 1 179.2 ? N1 SAM 401 D 1 HETATM 25 C C2 SAM . . . H 2 68.089 26.992 144.717 1 163.45 ? C2 SAM 401 D 1 HETATM 26 N N3 SAM . . . H 2 66.85 27.288 144.36 1 147.41 ? N3 SAM 401 D 1 HETATM 27 C C4 SAM . . . H 2 66.292 28.499 144.689 1 154.76 ? C4 SAM 401 D 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #