data_5ISI
#
_model_server_result.job_id            Hjw5Ts7H7KFr4llWLbPccQ 
_model_server_result.datetime_utc      '2025-02-16 16:17:40' 
_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          5isi 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":501}' 
#
_entry.id    5ISI 
#
_exptl.entry_id    5ISI 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              266.257 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5'-amino-5'-deoxyadenosine" 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            5ISI 
_cell.length_a            74.736 
_cell.length_b            98.522 
_cell.length_c            207.054 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5ISI 
_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               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,P,Q,R,S,T 
_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 
? 2 N N N 
#
_chem_comp.formula           'C10 H14 N6 O3' 
_chem_comp.formula_weight    266.257 
_chem_comp.id                5N5 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "5'-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
N6 C6 5N5 sing 1 n n 
N7 C5 5N5 sing 2 n y 
N7 C8 5N5 doub 3 n y 
C6 C5 5N5 doub 4 n y 
C6 N1 5N5 sing 5 n y 
C5 C4 5N5 sing 6 n y 
C8 N9 5N5 sing 7 n y 
C2' O2' 5N5 sing 8 n n 
C2' C3' 5N5 sing 9 n n 
C2' C1' 5N5 sing 10 n n 
N1 C2 5N5 doub 11 n y 
O3' C3' 5N5 sing 12 n n 
C3' C4' 5N5 sing 13 n n 
C4 N9 5N5 sing 14 n y 
C4 N3 5N5 doub 15 n y 
N9 C1' 5N5 sing 16 n n 
C2 N3 5N5 sing 17 n y 
C1' O4' 5N5 sing 18 n n 
C4' O4' 5N5 sing 19 n n 
C4' C5' 5N5 sing 20 n n 
C5' N5' 5N5 sing 21 n n 
O2' H1 5N5 sing 22 n n 
C2' H2 5N5 sing 23 n n 
C3' H3 5N5 sing 24 n n 
O3' H4 5N5 sing 25 n n 
C4' H5 5N5 sing 26 n n 
C5' H6 5N5 sing 27 n n 
C5' H7 5N5 sing 28 n n 
N5' H8 5N5 sing 29 n n 
N5' H9 5N5 sing 30 n n 
C1' H11 5N5 sing 31 n n 
C8 H12 5N5 sing 32 n n 
C2 H13 5N5 sing 33 n n 
N6 H14 5N5 sing 34 n n 
N6 H15 5N5 sing 35 n n 
#
_atom_sites.entry_id                     5ISI 
_atom_sites.fract_transf_matrix[1][1]    0.01338 
_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]    0.01015 
_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]    0.00483 
_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 5N5 A 1 501 1 5N5 SA1 . 
F 3 EDO A 1 502 2 EDO EDO . 
G 4 DXE A 1 503 8 DXE DXE . 
H 2 5N5 B 1 501 2 5N5 SA1 . 
I 3 EDO B 1 502 1 EDO EDO . 
J 3 EDO B 1 503 5 EDO EDO . 
K 2 5N5 C 1 501 3 5N5 SA1 . 
L 3 EDO C 1 502 3 EDO EDO . 
M 4 DXE C 1 503 7 DXE DXE . 
N 2 5N5 D 1 501 4 5N5 SA1 . 
O 3 EDO D 1 502 4 EDO EDO . 
P 3 EDO D 1 503 6 EDO EDO . 
Q 5 HOH A 1 601 5 HOH HOH . 
Q 5 HOH A 2 602 15 HOH HOH . 
Q 5 HOH A 3 603 4 HOH HOH . 
Q 5 HOH A 4 604 9 HOH HOH . 
Q 5 HOH A 5 605 11 HOH HOH . 
Q 5 HOH A 6 606 13 HOH HOH . 
R 5 HOH B 1 601 6 HOH HOH . 
R 5 HOH B 2 602 1 HOH HOH . 
S 5 HOH C 1 601 7 HOH HOH . 
S 5 HOH C 2 602 3 HOH HOH . 
S 5 HOH C 3 603 8 HOH HOH . 
S 5 HOH C 4 604 14 HOH HOH . 
S 5 HOH C 5 605 12 HOH HOH . 
S 5 HOH C 6 606 10 HOH HOH . 
T 5 HOH D 1 601 2 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 O O2' 5N5 . . . E 2 47.733 38.32 130.131 1 58.69 ? O2' 5N5 501 A 1 
HETATM 2 C C2' 5N5 . . . E 2 48.854 37.451 130.044 1 59.3 ? C2' 5N5 501 A 1 
HETATM 3 C C3' 5N5 . . . E 2 49.031 36.694 131.313 1 61.17 ? C3' 5N5 501 A 1 
HETATM 4 O O3' 5N5 . . . E 2 48.528 37.388 132.369 1 58.22 ? O3' 5N5 501 A 1 
HETATM 5 C C4' 5N5 . . . E 2 50.498 36.524 131.516 1 62.75 ? C4' 5N5 501 A 1 
HETATM 6 C C5' 5N5 . . . E 2 50.908 35.063 131.41 1 69.99 ? C5' 5N5 501 A 1 
HETATM 7 N N5' 5N5 . . . E 2 52.009 34.784 132.214 1 74.55 ? N5' 5N5 501 A 1 
HETATM 8 O O4' 5N5 . . . E 2 51.14 37.284 130.464 1 56.3 ? O4' 5N5 501 A 1 
HETATM 9 C C1' 5N5 . . . E 2 50.142 38.203 129.945 1 56.86 ? C1' 5N5 501 A 1 
HETATM 10 N N9 5N5 . . . E 2 50.286 38.649 128.561 1 58.47 ? N9 5N5 501 A 1 
HETATM 11 C C8 5N5 . . . E 2 50.373 37.874 127.437 1 59.25 ? C8 5N5 501 A 1 
HETATM 12 N N7 5N5 . . . E 2 50.526 38.681 126.354 1 58.51 ? N7 5N5 501 A 1 
HETATM 13 C C5 5N5 . . . E 2 50.548 40.023 126.798 1 60.58 ? C5 5N5 501 A 1 
HETATM 14 C C4 5N5 . . . E 2 50.403 39.992 128.168 1 61.18 ? C4 5N5 501 A 1 
HETATM 15 N N3 5N5 . . . E 2 50.39 41.166 128.879 1 60.86 ? N3 5N5 501 A 1 
HETATM 16 C C2 5N5 . . . E 2 50.518 42.355 128.234 1 60.78 ? C2 5N5 501 A 1 
HETATM 17 N N1 5N5 . . . E 2 50.66 42.416 126.897 1 62.81 ? N1 5N5 501 A 1 
HETATM 18 C C6 5N5 . . . E 2 50.68 41.285 126.157 1 61.71 ? C6 5N5 501 A 1 
HETATM 19 N N6 5N5 . . . E 2 50.83 41.355 124.753 1 61.76 ? N6 5N5 501 A 1 
HETATM 20 H H1 5N5 . . . E 2 47.802 38.821 130.862 1 70.43 ? H1 5N5 501 A 1 
HETATM 21 H H2 5N5 . . . E 2 48.757 36.837 129.264 1 71.16 ? H2 5N5 501 A 1 
HETATM 22 H H3 5N5 . . . E 2 48.595 35.833 131.268 1 73.41 ? H3 5N5 501 A 1 
HETATM 23 H H4 5N5 . . . E 2 49.053 38.051 132.558 1 69.87 ? H4 5N5 501 A 1 
HETATM 24 H H5 5N5 . . . E 2 50.745 36.874 132.354 1 75.3 ? H5 5N5 501 A 1 
HETATM 25 H H6 5N5 . . . E 2 51.123 34.854 130.467 1 83.99 ? H6 5N5 501 A 1 
HETATM 26 H H7 5N5 . . . E 2 50.166 34.503 131.699 1 83.99 ? H7 5N5 501 A 1 
HETATM 27 H H8 5N5 . . . E 2 51.852 34.039 132.689 1 89.47 ? H8 5N5 501 A 1 
HETATM 28 H H9 5N5 . . . E 2 52.157 35.489 132.788 1 89.47 ? H9 5N5 501 A 1 
HETATM 29 H H11 5N5 . . . E 2 50.098 39.006 130.524 1 68.23 ? H11 5N5 501 A 1 
HETATM 30 H H12 5N5 . . . E 2 50.324 36.871 127.415 1 71.1 ? H12 5N5 501 A 1 
HETATM 31 H H13 5N5 . . . E 2 50.507 43.172 128.743 1 72.94 ? H13 5N5 501 A 1 
HETATM 32 H H14 5N5 . . . E 2 50.884 40.575 124.252 1 74.11 ? H14 5N5 501 A 1 
HETATM 33 H H15 5N5 . . . E 2 50.872 42.164 124.34 1 74.11 ? H15 5N5 501 A 1 
#
_model_server_stats.io_time_ms              124 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    26 
_model_server_stats.query_time_ms           333 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           33 
#