data_3EMB
#
_model_server_result.job_id            l_OQ0taW-iaxYFJ40ICJsg 
_model_server_result.datetime_utc      '2024-11-29 14:10:02' 
_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          3emb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":4633}' 
#
_entry.id    3EMB 
#
_exptl.entry_id    3EMB 
_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    1 
_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            3EMB 
_cell.length_a            37.236 
_cell.length_b            61.297 
_cell.length_c            128.012 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3EMB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 364 n n 
N HN1 SAM sing 365 n n 
N HN2 SAM sing 366 n n 
CA C SAM sing 367 n n 
CA CB SAM sing 368 n n 
CA HA SAM sing 369 n n 
C O SAM doub 370 n n 
C OXT SAM sing 371 n n 
CB CG SAM sing 372 n n 
CB HB1 SAM sing 373 n n 
CB HB2 SAM sing 374 n n 
CG SD SAM sing 375 n n 
CG HG1 SAM sing 376 n n 
CG HG2 SAM sing 377 n n 
SD CE SAM sing 378 n n 
SD C5' SAM sing 379 n n 
CE HE1 SAM sing 380 n n 
CE HE2 SAM sing 381 n n 
CE HE3 SAM sing 382 n n 
C5' C4' SAM sing 383 n n 
C5' "H5'1" SAM sing 384 n n 
C5' "H5'2" SAM sing 385 n n 
C4' O4' SAM sing 386 n n 
C4' C3' SAM sing 387 n n 
C4' H4' SAM sing 388 n n 
O4' C1' SAM sing 389 n n 
C3' O3' SAM sing 390 n n 
C3' C2' SAM sing 391 n n 
C3' H3' SAM sing 392 n n 
O3' HO3' SAM sing 393 n n 
C2' O2' SAM sing 394 n n 
C2' C1' SAM sing 395 n n 
C2' H2' SAM sing 396 n n 
O2' HO2' SAM sing 397 n n 
C1' N9 SAM sing 398 n n 
C1' H1' SAM sing 399 n n 
N9 C8 SAM sing 400 n y 
N9 C4 SAM sing 401 n y 
C8 N7 SAM doub 402 n y 
C8 H8 SAM sing 403 n n 
N7 C5 SAM sing 404 n y 
C5 C6 SAM sing 405 n y 
C5 C4 SAM doub 406 n y 
C6 N6 SAM sing 407 n n 
C6 N1 SAM doub 408 n y 
N6 HN61 SAM sing 409 n n 
N6 HN62 SAM sing 410 n n 
N1 C2 SAM sing 411 n y 
C2 N3 SAM doub 412 n y 
C2 H2 SAM sing 413 n n 
N3 C4 SAM sing 414 n y 
#
_atom_sites.entry_id                     3EMB 
_atom_sites.fract_transf_matrix[1][1]    0.026856 
_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]    0.016314 
_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]    0.007812 
_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
B 2 SAM A 1 4633 4633 SAM SAM . 
C 3 GTG A 1 4634 1 GTG GTG . 
D 4 SO4 A 1 4635 4 SO4 SO4 . 
E 4 SO4 A 1 4636 5 SO4 SO4 . 
F 5 HOH A 1 4637 1 HOH HOH . 
F 5 HOH A 2 4638 2 HOH HOH . 
F 5 HOH A 3 4639 3 HOH HOH . 
F 5 HOH A 4 4640 4 HOH HOH . 
F 5 HOH A 5 4641 5 HOH HOH . 
F 5 HOH A 6 4642 6 HOH HOH . 
F 5 HOH A 7 4643 7 HOH HOH . 
F 5 HOH A 8 4644 8 HOH HOH . 
F 5 HOH A 9 4645 9 HOH HOH . 
F 5 HOH A 10 4646 10 HOH HOH . 
F 5 HOH A 11 4647 11 HOH HOH . 
F 5 HOH A 12 4648 12 HOH HOH . 
F 5 HOH A 13 4649 13 HOH HOH . 
F 5 HOH A 14 4650 14 HOH HOH . 
F 5 HOH A 15 4651 15 HOH HOH . 
F 5 HOH A 16 4652 16 HOH HOH . 
F 5 HOH A 17 4653 17 HOH HOH . 
F 5 HOH A 18 4654 18 HOH HOH . 
F 5 HOH A 19 4655 19 HOH HOH . 
F 5 HOH A 20 4656 20 HOH HOH . 
F 5 HOH A 21 4657 21 HOH HOH . 
F 5 HOH A 22 4658 22 HOH HOH . 
F 5 HOH A 23 4659 23 HOH HOH . 
F 5 HOH A 24 4660 24 HOH HOH . 
F 5 HOH A 25 4661 26 HOH HOH . 
F 5 HOH A 26 4662 27 HOH HOH . 
F 5 HOH A 27 4663 28 HOH HOH . 
F 5 HOH A 28 4664 29 HOH HOH . 
F 5 HOH A 29 4665 30 HOH HOH . 
F 5 HOH A 30 4666 31 HOH HOH . 
F 5 HOH A 31 4667 32 HOH HOH . 
F 5 HOH A 32 4668 33 HOH HOH . 
F 5 HOH A 33 4669 34 HOH HOH . 
F 5 HOH A 34 4670 35 HOH HOH . 
F 5 HOH A 35 4671 36 HOH HOH . 
F 5 HOH A 36 4672 37 HOH HOH . 
F 5 HOH A 37 4673 39 HOH HOH . 
F 5 HOH A 38 4674 40 HOH HOH . 
F 5 HOH A 39 4675 41 HOH HOH . 
F 5 HOH A 40 4676 42 HOH HOH . 
F 5 HOH A 41 4677 43 HOH HOH . 
F 5 HOH A 42 4678 44 HOH HOH . 
F 5 HOH A 43 4679 45 HOH HOH . 
F 5 HOH A 44 4680 46 HOH HOH . 
F 5 HOH A 45 4681 47 HOH HOH . 
F 5 HOH A 46 4682 48 HOH HOH . 
F 5 HOH A 47 4683 49 HOH HOH . 
F 5 HOH A 48 4684 50 HOH HOH . 
F 5 HOH A 49 4685 51 HOH HOH . 
F 5 HOH A 50 4686 53 HOH HOH . 
F 5 HOH A 51 4687 54 HOH HOH . 
F 5 HOH A 52 4688 55 HOH HOH . 
F 5 HOH A 53 4689 56 HOH HOH . 
F 5 HOH A 54 4690 57 HOH HOH . 
F 5 HOH A 55 4691 58 HOH HOH . 
F 5 HOH A 56 4692 59 HOH HOH . 
F 5 HOH A 57 4693 61 HOH HOH . 
F 5 HOH A 58 4694 62 HOH HOH . 
F 5 HOH A 59 4695 63 HOH HOH . 
F 5 HOH A 60 4696 64 HOH HOH . 
F 5 HOH A 61 4697 65 HOH HOH . 
F 5 HOH A 62 4698 66 HOH HOH . 
F 5 HOH A 63 4699 67 HOH HOH . 
F 5 HOH A 64 4700 68 HOH HOH . 
F 5 HOH A 65 4701 69 HOH HOH . 
F 5 HOH A 66 4702 70 HOH HOH . 
F 5 HOH A 67 4703 71 HOH HOH . 
F 5 HOH A 68 4704 72 HOH HOH . 
F 5 HOH A 69 4705 73 HOH HOH . 
F 5 HOH A 70 4706 74 HOH HOH . 
F 5 HOH A 71 4707 75 HOH HOH . 
F 5 HOH A 72 4708 76 HOH HOH . 
F 5 HOH A 73 4709 77 HOH HOH . 
F 5 HOH A 74 4710 78 HOH HOH . 
F 5 HOH A 75 4711 79 HOH HOH . 
F 5 HOH A 76 4712 80 HOH HOH . 
F 5 HOH A 77 4713 81 HOH HOH . 
F 5 HOH A 78 4714 82 HOH HOH . 
F 5 HOH A 79 4715 83 HOH HOH . 
F 5 HOH A 80 4716 84 HOH HOH . 
F 5 HOH A 81 4717 85 HOH HOH . 
F 5 HOH A 82 4718 86 HOH HOH . 
F 5 HOH A 83 4719 88 HOH HOH . 
F 5 HOH A 84 4720 89 HOH HOH . 
F 5 HOH A 85 4721 90 HOH HOH . 
F 5 HOH A 86 4722 91 HOH HOH . 
F 5 HOH A 87 4723 92 HOH HOH . 
F 5 HOH A 88 4724 93 HOH HOH . 
F 5 HOH A 89 4725 94 HOH HOH . 
F 5 HOH A 90 4726 95 HOH HOH . 
F 5 HOH A 91 4727 97 HOH HOH . 
F 5 HOH A 92 4728 98 HOH HOH . 
F 5 HOH A 93 4729 99 HOH HOH . 
F 5 HOH A 94 4730 102 HOH HOH . 
F 5 HOH A 95 4731 103 HOH HOH . 
F 5 HOH A 96 4732 104 HOH HOH . 
F 5 HOH A 97 4733 106 HOH HOH . 
F 5 HOH A 98 4734 108 HOH HOH . 
F 5 HOH A 99 4735 109 HOH HOH . 
F 5 HOH A 100 4736 110 HOH HOH . 
F 5 HOH A 101 4737 113 HOH HOH . 
F 5 HOH A 102 4738 117 HOH HOH . 
F 5 HOH A 103 4739 118 HOH HOH . 
F 5 HOH A 104 4740 120 HOH HOH . 
F 5 HOH A 105 4741 121 HOH HOH . 
F 5 HOH A 106 4742 122 HOH HOH . 
F 5 HOH A 107 4743 124 HOH HOH . 
F 5 HOH A 108 4744 126 HOH HOH . 
F 5 HOH A 109 4745 127 HOH HOH . 
F 5 HOH A 110 4746 128 HOH HOH . 
F 5 HOH A 111 4747 129 HOH HOH . 
F 5 HOH A 112 4748 130 HOH HOH . 
F 5 HOH A 113 4749 131 HOH HOH . 
F 5 HOH A 114 4750 133 HOH HOH . 
F 5 HOH A 115 4751 134 HOH HOH . 
F 5 HOH A 116 4752 135 HOH HOH . 
F 5 HOH A 117 4753 136 HOH HOH . 
F 5 HOH A 118 4754 137 HOH HOH . 
F 5 HOH A 119 4755 140 HOH HOH . 
F 5 HOH A 120 4756 141 HOH HOH . 
F 5 HOH A 121 4757 142 HOH HOH . 
F 5 HOH A 122 4758 143 HOH HOH . 
F 5 HOH A 123 4759 146 HOH HOH . 
F 5 HOH A 124 4760 149 HOH HOH . 
F 5 HOH A 125 4761 150 HOH HOH . 
F 5 HOH A 126 4762 152 HOH HOH . 
F 5 HOH A 127 4763 154 HOH HOH . 
F 5 HOH A 128 4764 155 HOH HOH . 
F 5 HOH A 129 4765 156 HOH HOH . 
F 5 HOH A 130 4766 157 HOH HOH . 
F 5 HOH A 131 4767 158 HOH HOH . 
F 5 HOH A 132 4768 159 HOH HOH . 
F 5 HOH A 133 4769 161 HOH HOH . 
F 5 HOH A 134 4770 163 HOH HOH . 
F 5 HOH A 135 4771 164 HOH HOH . 
F 5 HOH A 136 4772 165 HOH HOH . 
F 5 HOH A 137 4773 166 HOH HOH . 
F 5 HOH A 138 4774 168 HOH HOH . 
F 5 HOH A 139 4775 169 HOH HOH . 
F 5 HOH A 140 4776 171 HOH HOH . 
F 5 HOH A 141 4777 172 HOH HOH . 
F 5 HOH A 142 4778 174 HOH HOH . 
F 5 HOH A 143 4779 175 HOH HOH . 
F 5 HOH A 144 4780 176 HOH HOH . 
F 5 HOH A 145 4781 177 HOH HOH . 
F 5 HOH A 146 4782 179 HOH HOH . 
F 5 HOH A 147 4783 180 HOH HOH . 
F 5 HOH A 148 4784 181 HOH HOH . 
F 5 HOH A 149 4785 182 HOH HOH . 
F 5 HOH A 150 4786 183 HOH HOH . 
F 5 HOH A 151 4787 184 HOH HOH . 
F 5 HOH A 152 4788 185 HOH HOH . 
F 5 HOH A 153 4789 186 HOH HOH . 
F 5 HOH A 154 4790 187 HOH HOH . 
F 5 HOH A 155 4791 188 HOH HOH . 
F 5 HOH A 156 4792 189 HOH HOH . 
F 5 HOH A 157 4793 190 HOH HOH . 
F 5 HOH A 158 4794 191 HOH HOH . 
F 5 HOH A 159 4795 192 HOH HOH . 
F 5 HOH A 160 4796 193 HOH HOH . 
F 5 HOH A 161 4797 194 HOH HOH . 
F 5 HOH A 162 4798 195 HOH HOH . 
F 5 HOH A 163 4799 198 HOH HOH . 
F 5 HOH A 164 4800 199 HOH HOH . 
F 5 HOH A 165 4801 200 HOH HOH . 
F 5 HOH A 166 4802 204 HOH HOH . 
F 5 HOH A 167 4803 205 HOH HOH . 
F 5 HOH A 168 4804 208 HOH HOH . 
F 5 HOH A 169 4805 209 HOH HOH . 
F 5 HOH A 170 4806 210 HOH HOH . 
F 5 HOH A 171 4807 211 HOH HOH . 
F 5 HOH A 172 4808 213 HOH HOH . 
F 5 HOH A 173 4809 214 HOH HOH . 
F 5 HOH A 174 4810 215 HOH HOH . 
F 5 HOH A 175 4811 216 HOH HOH . 
F 5 HOH A 176 4812 217 HOH HOH . 
F 5 HOH A 177 4813 218 HOH HOH . 
F 5 HOH A 178 4814 219 HOH HOH . 
F 5 HOH A 179 4815 221 HOH HOH . 
F 5 HOH A 180 4816 222 HOH HOH . 
F 5 HOH A 181 4817 224 HOH HOH . 
F 5 HOH A 182 4818 226 HOH HOH . 
F 5 HOH A 183 4819 227 HOH HOH . 
F 5 HOH A 184 4820 228 HOH HOH . 
F 5 HOH A 185 4821 229 HOH HOH . 
F 5 HOH A 186 4822 230 HOH HOH . 
F 5 HOH A 187 4823 233 HOH HOH . 
F 5 HOH A 188 4824 236 HOH HOH . 
F 5 HOH A 189 4825 243 HOH HOH . 
F 5 HOH A 190 4826 244 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 . . . B 2 -14.905 3.365 12.485 1 24.13 ? N SAM 4633 A 1 
HETATM 2 C CA SAM . . . B 2 -15.245 4.808 12.232 1 23.99 ? CA SAM 4633 A 1 
HETATM 3 C C SAM . . . B 2 -14.153 5.529 11.439 1 23.83 ? C SAM 4633 A 1 
HETATM 4 O O SAM . . . B 2 -13.012 5.074 11.409 1 23.63 ? O SAM 4633 A 1 
HETATM 5 O OXT SAM . . . B 2 -14.374 6.568 10.804 1 20.8 ? OXT SAM 4633 A 1 
HETATM 6 C CB SAM . . . B 2 -15.524 5.544 13.539 1 24.11 ? CB SAM 4633 A 1 
HETATM 7 C CG SAM . . . B 2 -16.942 5.295 14.038 1 26.07 ? CG SAM 4633 A 1 
HETATM 8 S SD SAM . . . B 2 -17.408 6.204 15.527 1 28.41 ? SD SAM 4633 A 1 
HETATM 9 C CE SAM . . . B 2 -16.224 5.575 16.751 1 29.48 ? CE SAM 4633 A 1 
HETATM 10 C C5' SAM . . . B 2 -18.882 5.323 16.097 1 23.66 ? C5' SAM 4633 A 1 
HETATM 11 C C4' SAM . . . B 2 -20.142 5.743 15.353 1 15.86 ? C4' SAM 4633 A 1 
HETATM 12 O O4' SAM . . . B 2 -21.19 4.833 15.644 1 13.41 ? O4' SAM 4633 A 1 
HETATM 13 C C3' SAM . . . B 2 -20.618 7.136 15.76 1 15.13 ? C3' SAM 4633 A 1 
HETATM 14 O O3' SAM . . . B 2 -20.498 8.021 14.671 1 14.19 ? O3' SAM 4633 A 1 
HETATM 15 C C2' SAM . . . B 2 -22.062 6.93 16.186 1 12.8 ? C2' SAM 4633 A 1 
HETATM 16 O O2' SAM . . . B 2 -22.936 7.903 15.684 1 18.09 ? O2' SAM 4633 A 1 
HETATM 17 C C1' SAM . . . B 2 -22.395 5.564 15.602 1 12.93 ? C1' SAM 4633 A 1 
HETATM 18 N N9 SAM . . . B 2 -23.466 4.893 16.352 1 16.13 ? N9 SAM 4633 A 1 
HETATM 19 C C8 SAM . . . B 2 -23.682 4.866 17.712 1 11.48 ? C8 SAM 4633 A 1 
HETATM 20 N N7 SAM . . . B 2 -24.787 4.122 17.946 1 13.16 ? N7 SAM 4633 A 1 
HETATM 21 C C5 SAM . . . B 2 -25.276 3.67 16.761 1 13.76 ? C5 SAM 4633 A 1 
HETATM 22 C C6 SAM . . . B 2 -26.38 2.891 16.41 1 16.48 ? C6 SAM 4633 A 1 
HETATM 23 N N6 SAM . . . B 2 -27.234 2.39 17.322 1 14.73 ? N6 SAM 4633 A 1 
HETATM 24 N N1 SAM . . . B 2 -26.584 2.627 15.071 1 12.36 ? N1 SAM 4633 A 1 
HETATM 25 C C2 SAM . . . B 2 -25.739 3.109 14.097 1 9.62 ? C2 SAM 4633 A 1 
HETATM 26 N N3 SAM . . . B 2 -24.667 3.877 14.445 1 8.41 ? N3 SAM 4633 A 1 
HETATM 27 C C4 SAM . . . B 2 -24.444 4.149 15.752 1 14.61 ? C4 SAM 4633 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    16 
_model_server_stats.query_time_ms           306 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           27 
#