data_5IS8
#
_model_server_result.job_id            9JMAZWwi8jibe2498GJn0g 
_model_server_result.datetime_utc      '2024-12-04 19:21:02' 
_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          5is8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":601}' 
#
_entry.id    5IS8 
#
_exptl.entry_id    5IS8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              429.859 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5'-{[(3S)-3-amino-3-carboxypropyl](2-chloroethyl)amino}-5'-deoxyadenosine" 
_entity.pdbx_number_of_molecules    3 
_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            5IS8 
_cell.length_a            74.544 
_cell.length_b            98.623 
_cell.length_c            207.467 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5IS8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,L,M,N,O 
_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
? 2 E N N 
? 2 H N N 
? 2 K N N 
#
_chem_comp.formula           'C16 H24 Cl N7 O5' 
_chem_comp.formula_weight    429.859 
_chem_comp.id                6D1 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "5'-{[(3S)-3-amino-3-carboxypropyl](2-chloroethyl)amino}-5'-deoxyadenosine" 
_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
N5 C13 6D1 sing 1 n n 
C13 C12 6D1 doub 2 n y 
C13 N6 6D1 sing 3 n y 
N4 C12 6D1 sing 4 n y 
N4 C11 6D1 doub 5 n y 
C12 C15 6D1 sing 6 n y 
N6 C14 6D1 doub 7 n y 
C11 N3 6D1 sing 8 n y 
C15 N3 6D1 sing 9 n y 
C15 N7 6D1 doub 10 n y 
C14 N7 6D1 sing 11 n y 
N3 C8 6D1 sing 12 n n 
C9 O2 6D1 sing 13 n n 
C9 C8 6D1 sing 14 n n 
C9 C10 6D1 sing 15 n n 
C8 O1 6D1 sing 16 n n 
CL1 C5 6D1 sing 17 n n 
C5 C4 6D1 sing 18 n n 
O1 C7 6D1 sing 19 n n 
C6 C7 6D1 sing 20 n n 
C6 N2 6D1 sing 21 n n 
C10 C7 6D1 sing 22 n n 
C10 O3 6D1 sing 23 n n 
C4 N2 6D1 sing 24 n n 
N2 C3 6D1 sing 25 n n 
C3 C2 6D1 sing 26 n n 
C2 C1 6D1 sing 27 n n 
N1 C1 6D1 sing 28 n n 
C1 C16 6D1 sing 29 n n 
C16 O5 6D1 doub 30 n n 
C16 O4 6D1 sing 31 n n 
N1 H1 6D1 sing 32 n n 
N1 H2 6D1 sing 33 n n 
C1 H4 6D1 sing 34 n n 
C2 H5 6D1 sing 35 n n 
C2 H6 6D1 sing 36 n n 
C3 H7 6D1 sing 37 n n 
C3 H8 6D1 sing 38 n n 
C4 H10 6D1 sing 39 n n 
C4 H11 6D1 sing 40 n n 
C5 H12 6D1 sing 41 n n 
C5 H13 6D1 sing 42 n n 
C6 H14 6D1 sing 43 n n 
C6 H15 6D1 sing 44 n n 
C7 H16 6D1 sing 45 n n 
C8 H17 6D1 sing 46 n n 
C9 H18 6D1 sing 47 n n 
O2 H19 6D1 sing 48 n n 
C10 H20 6D1 sing 49 n n 
O3 H21 6D1 sing 50 n n 
C11 H22 6D1 sing 51 n n 
N5 H23 6D1 sing 52 n n 
N5 H24 6D1 sing 53 n n 
C14 H25 6D1 sing 54 n n 
O4 H26 6D1 sing 55 n n 
#
_atom_sites.entry_id                     5IS8 
_atom_sites.fract_transf_matrix[1][1]    0.013415 
_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]    0.01014 
_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]    0.00482 
_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 6D1 A 1 601 1 6D1 271 . 
F 3 EDO A 1 602 1 EDO EDO . 
G 3 EDO A 1 603 2 EDO EDO . 
H 2 6D1 B 1 601 2 6D1 271 . 
I 4 SAH D 1 601 4 SAH SAH . 
J 3 EDO D 1 602 3 EDO EDO . 
K 2 6D1 C 1 601 3 6D1 271 . 
L 5 HOH A 1 701 54 HOH HOH . 
L 5 HOH A 2 702 1 HOH HOH . 
L 5 HOH A 3 703 25 HOH HOH . 
L 5 HOH A 4 704 7 HOH HOH . 
L 5 HOH A 5 705 96 HOH HOH . 
L 5 HOH A 6 706 110 HOH HOH . 
L 5 HOH A 7 707 81 HOH HOH . 
L 5 HOH A 8 708 44 HOH HOH . 
L 5 HOH A 9 709 63 HOH HOH . 
L 5 HOH A 10 710 68 HOH HOH . 
L 5 HOH A 11 711 111 HOH HOH . 
L 5 HOH A 12 712 45 HOH HOH . 
L 5 HOH A 13 713 48 HOH HOH . 
L 5 HOH A 14 714 87 HOH HOH . 
L 5 HOH A 15 715 112 HOH HOH . 
L 5 HOH A 16 716 98 HOH HOH . 
L 5 HOH A 17 717 16 HOH HOH . 
L 5 HOH A 18 718 6 HOH HOH . 
L 5 HOH A 19 719 78 HOH HOH . 
L 5 HOH A 20 720 115 HOH HOH . 
L 5 HOH A 21 721 14 HOH HOH . 
L 5 HOH A 22 722 28 HOH HOH . 
L 5 HOH A 23 723 18 HOH HOH . 
L 5 HOH A 24 724 99 HOH HOH . 
L 5 HOH A 25 725 2 HOH HOH . 
L 5 HOH A 26 726 102 HOH HOH . 
L 5 HOH A 27 727 77 HOH HOH . 
L 5 HOH A 28 728 20 HOH HOH . 
L 5 HOH A 29 729 13 HOH HOH . 
L 5 HOH A 30 730 105 HOH HOH . 
L 5 HOH A 31 731 39 HOH HOH . 
L 5 HOH A 32 732 5 HOH HOH . 
L 5 HOH A 33 733 107 HOH HOH . 
L 5 HOH A 34 734 19 HOH HOH . 
L 5 HOH A 35 735 31 HOH HOH . 
L 5 HOH A 36 736 95 HOH HOH . 
L 5 HOH A 37 737 35 HOH HOH . 
L 5 HOH A 38 738 104 HOH HOH . 
M 5 HOH B 1 701 38 HOH HOH . 
M 5 HOH B 2 702 113 HOH HOH . 
M 5 HOH B 3 703 50 HOH HOH . 
M 5 HOH B 4 704 109 HOH HOH . 
M 5 HOH B 5 705 66 HOH HOH . 
M 5 HOH B 6 706 57 HOH HOH . 
M 5 HOH B 7 707 116 HOH HOH . 
M 5 HOH B 8 708 106 HOH HOH . 
M 5 HOH B 9 709 70 HOH HOH . 
M 5 HOH B 10 710 10 HOH HOH . 
M 5 HOH B 11 711 46 HOH HOH . 
M 5 HOH B 12 712 29 HOH HOH . 
M 5 HOH B 13 713 117 HOH HOH . 
M 5 HOH B 14 714 27 HOH HOH . 
M 5 HOH B 15 715 114 HOH HOH . 
N 5 HOH D 1 701 11 HOH HOH . 
N 5 HOH D 2 702 47 HOH HOH . 
N 5 HOH D 3 703 36 HOH HOH . 
N 5 HOH D 4 704 61 HOH HOH . 
N 5 HOH D 5 705 100 HOH HOH . 
N 5 HOH D 6 706 12 HOH HOH . 
N 5 HOH D 7 707 51 HOH HOH . 
N 5 HOH D 8 708 108 HOH HOH . 
O 5 HOH C 1 701 17 HOH HOH . 
O 5 HOH C 2 702 40 HOH HOH . 
O 5 HOH C 3 703 56 HOH HOH . 
O 5 HOH C 4 704 37 HOH HOH . 
O 5 HOH C 5 705 67 HOH HOH . 
O 5 HOH C 6 706 15 HOH HOH . 
O 5 HOH C 7 707 94 HOH HOH . 
O 5 HOH C 8 708 79 HOH HOH . 
O 5 HOH C 9 709 23 HOH HOH . 
O 5 HOH C 10 710 30 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 N1 6D1 . . . H 2 21.751 17.118 117.453 1 45.12 ? N1 6D1 601 B 1 
HETATM 2 C C1 6D1 . . . H 2 23.122 16.679 117.634 1 45.26 ? C1 6D1 601 B 1 
HETATM 3 C C2 6D1 . . . H 2 24.005 17.577 118.515 1 43.44 ? C2 6D1 601 B 1 
HETATM 4 C C3 6D1 . . . H 2 23.285 18.674 119.27 1 43.65 ? C3 6D1 601 B 1 
HETATM 5 N N2 6D1 . . . H 2 24.238 19.526 119.926 1 45.04 ? N2 6D1 601 B 1 
HETATM 6 C C4 6D1 . . . H 2 24.327 19.308 121.393 1 51.4 ? C4 6D1 601 B 1 
HETATM 7 C C5 6D1 . . . H 2 23.887 20.511 122.303 1 58.69 ? C5 6D1 601 B 1 
HETATM 8 CL CL1 6D1 . . . H 2 24.376 20.135 123.948 1 66.31 ? CL1 6D1 601 B 1 
HETATM 9 C C6 6D1 . . . H 2 24.19 20.931 119.443 1 42.81 ? C6 6D1 601 B 1 
HETATM 10 C C7 6D1 . . . H 2 24.521 21.004 117.924 1 42.28 ? C7 6D1 601 B 1 
HETATM 11 O O1 6D1 . . . H 2 23.546 21.824 117.22 1 42.15 ? O1 6D1 601 B 1 
HETATM 12 C C8 6D1 . . . H 2 24.2 23.043 116.77 1 41.63 ? C8 6D1 601 B 1 
HETATM 13 C C9 6D1 . . . H 2 25.601 23.055 117.368 1 41.02 ? C9 6D1 601 B 1 
HETATM 14 O O2 6D1 . . . H 2 26.513 23.532 116.42 1 39.35 ? O2 6D1 601 B 1 
HETATM 15 C C10 6D1 . . . H 2 25.862 21.629 117.682 1 42.7 ? C10 6D1 601 B 1 
HETATM 16 O O3 6D1 . . . H 2 26.435 20.936 116.568 1 43.63 ? O3 6D1 601 B 1 
HETATM 17 N N3 6D1 . . . H 2 23.761 24.393 117.098 1 42.21 ? N3 6D1 601 B 1 
HETATM 18 C C11 6D1 . . . H 2 23.785 25.158 118.219 1 42.4 ? C11 6D1 601 B 1 
HETATM 19 N N4 6D1 . . . H 2 23.178 26.324 117.946 1 42.1 ? N4 6D1 601 B 1 
HETATM 20 C C12 6D1 . . . H 2 22.744 26.297 116.649 1 41.25 ? C12 6D1 601 B 1 
HETATM 21 C C13 6D1 . . . H 2 22.062 27.22 115.823 1 38.54 ? C13 6D1 601 B 1 
HETATM 22 N N5 6D1 . . . H 2 21.673 28.499 116.373 1 37.1 ? N5 6D1 601 B 1 
HETATM 23 N N6 6D1 . . . H 2 21.766 26.905 114.561 1 40.02 ? N6 6D1 601 B 1 
HETATM 24 C C14 6D1 . . . H 2 22.13 25.685 114.068 1 40.79 ? C14 6D1 601 B 1 
HETATM 25 N N7 6D1 . . . H 2 22.783 24.785 114.826 1 40.98 ? N7 6D1 601 B 1 
HETATM 26 C C15 6D1 . . . H 2 23.097 25.069 116.121 1 41.11 ? C15 6D1 601 B 1 
HETATM 27 C C16 6D1 . . . H 2 23.067 15.312 118.235 1 47.97 ? C16 6D1 601 B 1 
HETATM 28 O O4 6D1 . . . H 2 23.777 14.387 117.776 1 48.32 ? O4 6D1 601 B 1 
HETATM 29 O O5 6D1 . . . H 2 22.298 15.116 119.208 1 48.47 ? O5 6D1 601 B 1 
HETATM 30 H H1 6D1 . . . H 2 21.499 16.995 116.563 1 54.15 ? H1 6D1 601 B 1 
HETATM 31 H H2 6D1 . . . H 2 21.682 18.017 117.673 1 54.15 ? H2 6D1 601 B 1 
HETATM 32 H H4 6D1 . . . H 2 23.551 16.606 116.749 1 54.31 ? H4 6D1 601 B 1 
HETATM 33 H H5 6D1 . . . H 2 24.489 17.012 119.154 1 52.13 ? H5 6D1 601 B 1 
HETATM 34 H H6 6D1 . . . H 2 24.668 18.014 117.927 1 52.13 ? H6 6D1 601 B 1 
HETATM 35 H H7 6D1 . . . H 2 22.764 19.208 118.632 1 52.38 ? H7 6D1 601 B 1 
HETATM 36 H H8 6D1 . . . H 2 22.682 18.282 119.934 1 52.38 ? H8 6D1 601 B 1 
HETATM 37 H H10 6D1 . . . H 2 23.72 18.576 121.604 1 61.68 ? H10 6D1 601 B 1 
HETATM 38 H H11 6D1 . . . H 2 25.26 19.019 121.632 1 61.68 ? H11 6D1 601 B 1 
HETATM 39 H H12 6D1 . . . H 2 24.334 21.33 122.008 1 70.42 ? H12 6D1 601 B 1 
HETATM 40 H H13 6D1 . . . H 2 22.915 20.627 122.26 1 70.42 ? H13 6D1 601 B 1 
HETATM 41 H H14 6D1 . . . H 2 24.834 21.446 119.93 1 51.37 ? H14 6D1 601 B 1 
HETATM 42 H H15 6D1 . . . H 2 23.32 21.293 119.594 1 51.37 ? H15 6D1 601 B 1 
HETATM 43 H H16 6D1 . . . H 2 24.518 20.115 117.542 1 50.74 ? H16 6D1 601 B 1 
HETATM 44 H H17 6D1 . . . H 2 24.292 22.988 115.792 1 49.96 ? H17 6D1 601 B 1 
HETATM 45 H H18 6D1 . . . H 2 25.636 23.613 118.193 1 49.23 ? H18 6D1 601 B 1 
HETATM 46 H H19 6D1 . . . H 2 26.472 23.033 115.699 1 47.22 ? H19 6D1 601 B 1 
HETATM 47 H H20 6D1 . . . H 2 26.473 21.527 118.478 1 51.24 ? H20 6D1 601 B 1 
HETATM 48 H H21 6D1 . . . H 2 25.882 20.969 115.888 1 52.36 ? H21 6D1 601 B 1 
HETATM 49 H H22 6D1 . . . H 2 24.193 24.905 119.084 1 50.87 ? H22 6D1 601 B 1 
HETATM 50 H H23 6D1 . . . H 2 20.939 28.928 116.052 1 44.52 ? H23 6D1 601 B 1 
HETATM 51 H H24 6D1 . . . H 2 22.172 28.881 117.052 1 44.52 ? H24 6D1 601 B 1 
HETATM 52 H H25 6D1 . . . H 2 21.909 25.458 113.137 1 48.94 ? H25 6D1 601 B 1 
#
_model_server_stats.io_time_ms              24 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           245 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           52 
#