data_4FHD
#
_model_server_result.job_id            aSpWQaY3bIYRFeK-XO20XA 
_model_server_result.datetime_utc      '2024-11-20 11:28:11' 
_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          4fhd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":402}' 
#
_entry.id    4FHD 
#
_exptl.entry_id    4FHD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              446.34 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '[(3S)-3-amino-4-hydroxy-4-oxo-butyl]-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl]-methyl-selanium' 
_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            4FHD 
_cell.length_a            53.32 
_cell.length_b            58.92 
_cell.length_c            131.62 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4FHD 
_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,G,H,I,J,K 
_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                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 117 A CYS 90 1_555 B FE1 SF4 . A SF4 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? 
metalc ? metalc2 A SG CYS 121 A CYS 94 1_555 B FE4 SF4 . A SF4 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? 
metalc ? metalc3 A SG CYS 124 A CYS 97 1_555 B FE2 SF4 . A SF4 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.212 ? 
metalc ? metalc4 B FE3 SF4 . A SF4 401 1_555 C O EEM . A EEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? 
metalc ? metalc5 B FE3 SF4 . A SF4 401 1_555 C N EEM . A EEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? 
#
_chem_comp.formula           'C15 H23 N6 O5 Se 1' 
_chem_comp.formula_weight    446.34 
_chem_comp.id                EEM 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '[(3S)-3-amino-4-hydroxy-4-oxo-butyl]-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl]-methyl-selanium' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     Se-ADENOSYLSELENOMETHIONINE 
#
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
N1 C2 EEM doub 148 n y 
C2 N3 EEM sing 149 n y 
C2 H2 EEM sing 150 n n 
C4 N3 EEM doub 151 n y 
C5 C4 EEM sing 152 n y 
N9 C4 EEM sing 153 n y 
N9 C1' EEM sing 154 n n 
C1' O4' EEM sing 155 n n 
C1' C2' EEM sing 156 n n 
C1' H1' EEM sing 157 n n 
O2' C2' EEM sing 158 n n 
C2' C3' EEM sing 159 n n 
C2' H2' EEM sing 160 n n 
C4' C3' EEM sing 161 n n 
O3' C3' EEM sing 162 n n 
C3' H3' EEM sing 163 n n 
O4' C4' EEM sing 164 n n 
C4' C5' EEM sing 165 n n 
C4' H4' EEM sing 166 n n 
C5' H5' EEM sing 167 n n 
C5' "H5'A" EEM sing 168 n n 
C5' SE EEM sing 169 n n 
C O EEM doub 170 n n 
CA C EEM sing 171 n n 
C OXT EEM sing 172 n n 
OXT HOXT EEM sing 173 n n 
CB CA EEM sing 174 n n 
N CA EEM sing 175 n n 
CA HA EEM sing 176 n n 
N HN EEM sing 177 n n 
N HNA EEM sing 178 n n 
CB CG EEM sing 179 n n 
CB HB EEM sing 180 n n 
CB HBA EEM sing 181 n n 
SE CG EEM sing 182 n n 
CG HG EEM sing 183 n n 
CG HGA EEM sing 184 n n 
SE CE EEM sing 185 n n 
CE HE EEM sing 186 n n 
CE HEA EEM sing 187 n n 
CE HEB EEM sing 188 n n 
O3' HO3' EEM sing 189 n n 
O2' HO2' EEM sing 190 n n 
C8 N9 EEM sing 191 n y 
N7 C8 EEM doub 192 n y 
C8 H8 EEM sing 193 n n 
N7 C5 EEM sing 194 n y 
C6 C5 EEM doub 195 n y 
C6 N1 EEM sing 196 n y 
N6 C6 EEM sing 197 n n 
N6 HN6 EEM sing 198 n n 
N6 HN6A EEM sing 199 n n 
#
_atom_sites.entry_id                     4FHD 
_atom_sites.fract_transf_matrix[1][1]    0.018755 
_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]    0.016972 
_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]    0.007598 
_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 SF4 A 1 401 1 SF4 FS4 . 
C 3 EEM A 1 402 1 EEM SA2 . 
D 4 SO4 A 1 403 1 SO4 SO4 . 
E 4 SO4 A 1 404 2 SO4 SO4 . 
F 4 SO4 A 1 405 3 SO4 SO4 . 
G 4 SO4 A 1 406 4 SO4 SO4 . 
H 4 SO4 A 1 407 5 SO4 SO4 . 
I 5 0TT A 1 408 1 0TT SP . 
J 6 POP A 1 409 1 POP POP . 
K 7 HOH A 1 501 1 HOH HOH . 
K 7 HOH A 2 502 2 HOH HOH . 
K 7 HOH A 3 503 3 HOH HOH . 
K 7 HOH A 4 504 4 HOH HOH . 
K 7 HOH A 5 505 5 HOH HOH . 
K 7 HOH A 6 506 6 HOH HOH . 
K 7 HOH A 7 507 7 HOH HOH . 
K 7 HOH A 8 508 8 HOH HOH . 
K 7 HOH A 9 509 9 HOH HOH . 
K 7 HOH A 10 510 10 HOH HOH . 
K 7 HOH A 11 511 11 HOH HOH . 
K 7 HOH A 12 512 14 HOH HOH . 
K 7 HOH A 13 513 15 HOH HOH . 
K 7 HOH A 14 514 16 HOH HOH . 
K 7 HOH A 15 515 17 HOH HOH . 
K 7 HOH A 16 516 18 HOH HOH . 
K 7 HOH A 17 517 19 HOH HOH . 
K 7 HOH A 18 518 22 HOH HOH . 
K 7 HOH A 19 519 23 HOH HOH . 
K 7 HOH A 20 520 24 HOH HOH . 
K 7 HOH A 21 521 27 HOH HOH . 
K 7 HOH A 22 522 28 HOH HOH . 
K 7 HOH A 23 523 29 HOH HOH . 
K 7 HOH A 24 524 30 HOH HOH . 
K 7 HOH A 25 525 31 HOH HOH . 
K 7 HOH A 26 526 32 HOH HOH . 
K 7 HOH A 27 527 34 HOH HOH . 
K 7 HOH A 28 528 35 HOH HOH . 
K 7 HOH A 29 529 36 HOH HOH . 
K 7 HOH A 30 530 37 HOH HOH . 
K 7 HOH A 31 531 38 HOH HOH . 
K 7 HOH A 32 532 39 HOH HOH . 
K 7 HOH A 33 533 40 HOH HOH . 
K 7 HOH A 34 534 41 HOH HOH . 
K 7 HOH A 35 535 42 HOH HOH . 
K 7 HOH A 36 536 43 HOH HOH . 
K 7 HOH A 37 537 44 HOH HOH . 
K 7 HOH A 38 538 45 HOH HOH . 
K 7 HOH A 39 539 46 HOH HOH . 
K 7 HOH A 40 540 47 HOH HOH . 
K 7 HOH A 41 541 48 HOH HOH . 
K 7 HOH A 42 542 49 HOH HOH . 
K 7 HOH A 43 543 50 HOH HOH . 
K 7 HOH A 44 544 51 HOH HOH . 
K 7 HOH A 45 545 52 HOH HOH . 
K 7 HOH A 46 546 53 HOH HOH . 
K 7 HOH A 47 547 54 HOH HOH . 
K 7 HOH A 48 548 55 HOH HOH . 
K 7 HOH A 49 549 56 HOH HOH . 
K 7 HOH A 50 550 57 HOH HOH . 
K 7 HOH A 51 551 58 HOH HOH . 
K 7 HOH A 52 552 59 HOH HOH . 
K 7 HOH A 53 553 60 HOH HOH . 
K 7 HOH A 54 554 61 HOH HOH . 
K 7 HOH A 55 555 62 HOH HOH . 
K 7 HOH A 56 556 63 HOH HOH . 
K 7 HOH A 57 557 64 HOH HOH . 
K 7 HOH A 58 558 65 HOH HOH . 
K 7 HOH A 59 559 66 HOH HOH . 
K 7 HOH A 60 560 68 HOH HOH . 
K 7 HOH A 61 561 69 HOH HOH . 
K 7 HOH A 62 562 70 HOH HOH . 
K 7 HOH A 63 563 73 HOH HOH . 
K 7 HOH A 64 564 75 HOH HOH . 
K 7 HOH A 65 565 77 HOH HOH . 
K 7 HOH A 66 566 78 HOH HOH . 
K 7 HOH A 67 567 80 HOH HOH . 
K 7 HOH A 68 568 81 HOH HOH . 
K 7 HOH A 69 569 82 HOH HOH . 
K 7 HOH A 70 570 83 HOH HOH . 
K 7 HOH A 71 571 84 HOH HOH . 
K 7 HOH A 72 572 85 HOH HOH . 
K 7 HOH A 73 573 86 HOH HOH . 
K 7 HOH A 74 574 87 HOH HOH . 
K 7 HOH A 75 575 88 HOH HOH . 
K 7 HOH A 76 576 89 HOH HOH . 
K 7 HOH A 77 577 94 HOH HOH . 
K 7 HOH A 78 578 95 HOH HOH . 
K 7 HOH A 79 579 96 HOH HOH . 
K 7 HOH A 80 580 98 HOH HOH . 
K 7 HOH A 81 581 99 HOH HOH . 
K 7 HOH A 82 582 108 HOH HOH . 
K 7 HOH A 83 583 109 HOH HOH . 
K 7 HOH A 84 584 110 HOH HOH . 
K 7 HOH A 85 585 111 HOH HOH . 
K 7 HOH A 86 586 114 HOH HOH . 
K 7 HOH A 87 587 118 HOH HOH . 
K 7 HOH A 88 588 121 HOH HOH . 
K 7 HOH A 89 589 122 HOH HOH . 
K 7 HOH A 90 590 126 HOH HOH . 
K 7 HOH A 91 591 130 HOH HOH . 
K 7 HOH A 92 592 131 HOH HOH . 
K 7 HOH A 93 593 132 HOH HOH . 
K 7 HOH A 94 594 133 HOH HOH . 
K 7 HOH A 95 595 135 HOH HOH . 
K 7 HOH A 96 596 136 HOH HOH . 
K 7 HOH A 97 597 137 HOH HOH . 
K 7 HOH A 98 598 138 HOH HOH . 
K 7 HOH A 99 599 139 HOH HOH . 
K 7 HOH A 100 600 140 HOH HOH . 
K 7 HOH A 101 601 141 HOH HOH . 
K 7 HOH A 102 602 142 HOH HOH . 
K 7 HOH A 103 603 143 HOH HOH . 
K 7 HOH A 104 604 144 HOH HOH . 
K 7 HOH A 105 605 145 HOH HOH . 
K 7 HOH A 106 606 146 HOH HOH . 
K 7 HOH A 107 607 147 HOH HOH . 
K 7 HOH A 108 608 148 HOH HOH . 
K 7 HOH A 109 609 149 HOH HOH . 
K 7 HOH A 110 610 150 HOH HOH . 
K 7 HOH A 111 611 151 HOH HOH . 
K 7 HOH A 112 612 152 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 C C2 EEM . . . C 3 -26.895 -6.933 24.76 1 21.95 ? C2 EEM 402 A 1 
HETATM 2 N N3 EEM . . . C 3 -26.611 -6.591 23.46 1 22.48 ? N3 EEM 402 A 1 
HETATM 3 C C4 EEM . . . C 3 -27.345 -5.62 22.853 1 23.33 ? C4 EEM 402 A 1 
HETATM 4 C C1' EEM . . . C 3 -26.3 -5.545 20.606 1 23.19 ? C1' EEM 402 A 1 
HETATM 5 C C2' EEM . . . C 3 -26.83 -5.6 19.189 1 24.39 ? C2' EEM 402 A 1 
HETATM 6 C C3' EEM . . . C 3 -25.531 -5.447 18.431 1 25.35 ? C3' EEM 402 A 1 
HETATM 7 C C4' EEM . . . C 3 -24.638 -4.587 19.324 1 26.73 ? C4' EEM 402 A 1 
HETATM 8 C C5' EEM . . . C 3 -24.466 -3.107 18.934 1 27.84 ? C5' EEM 402 A 1 
HETATM 9 O O EEM . . . C 3 -27.479 -3.829 15.849 1 28.68 ? O EEM 402 A 1 
HETATM 10 C C EEM . . . C 3 -26.379 -3.586 15.331 1 28.34 ? C EEM 402 A 1 
HETATM 11 O OXT EEM . . . C 3 -25.596 -4.507 15.135 1 27.59 ? OXT EEM 402 A 1 
HETATM 12 C CA EEM . . . C 3 -26.007 -2.166 14.908 1 27.95 ? CA EEM 402 A 1 
HETATM 13 N N EEM . . . C 3 -27.237 -1.345 14.818 1 28.1 ? N EEM 402 A 1 
HETATM 14 C CB EEM . . . C 3 -24.965 -1.559 15.841 1 27.86 ? CB EEM 402 A 1 
HETATM 15 C CG EEM . . . C 3 -25.466 -0.933 17.127 1 28.9 ? CG EEM 402 A 1 
HETATM 16 SE SE EEM . . . C 3 -26.124 -2.193 18.467 1 29.75 ? SE EEM 402 A 1 
HETATM 17 C CE EEM . . . C 3 -26.612 -0.851 19.778 1 34.54 ? CE EEM 402 A 1 
HETATM 18 O O4' EEM . . . C 3 -25.225 -4.633 20.607 1 24.88 ? O4' EEM 402 A 1 
HETATM 19 O O3' EEM . . . C 3 -24.952 -6.721 18.247 1 26.33 ? O3' EEM 402 A 1 
HETATM 20 O O2' EEM . . . C 3 -27.535 -6.803 18.919 1 22.04 ? O2' EEM 402 A 1 
HETATM 21 N N9 EEM . . . C 3 -27.283 -5.109 21.597 1 22.53 ? N9 EEM 402 A 1 
HETATM 22 C C8 EEM . . . C 3 -28.246 -4.144 21.476 1 22.79 ? C8 EEM 402 A 1 
HETATM 23 N N7 EEM . . . C 3 -28.905 -4.083 22.641 1 23 ? N7 EEM 402 A 1 
HETATM 24 C C5 EEM . . . C 3 -28.379 -4.971 23.513 1 21.8 ? C5 EEM 402 A 1 
HETATM 25 N N1 EEM . . . C 3 -27.914 -6.31 25.435 1 21.4 ? N1 EEM 402 A 1 
HETATM 26 C C6 EEM . . . C 3 -28.668 -5.323 24.835 1 22.72 ? C6 EEM 402 A 1 
HETATM 27 N N6 EEM . . . C 3 -29.642 -4.739 25.535 1 21.41 ? N6 EEM 402 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           344 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           27 
#