data_5AX3
#
_model_server_result.job_id            lJBeZEmqRdlP-unhsoDYWA 
_model_server_result.datetime_utc      '2024-11-15 08:22:50' 
_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          5ax3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":401}' 
#
_entry.id    5AX3 
#
_exptl.entry_id    5AX3 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              392.15 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (2R,3R,4S,5R)-2-(4-AMINO-5-IODO-7H-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-(HYDROXYMETHYL)TETRAHYDROFURAN-3,4-DIOL 
_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            5AX3 
_cell.length_a            43.835 
_cell.length_b            66.465 
_cell.length_c            116.871 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5AX3 
_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    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C 
_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 
#
_chem_comp.formula           'C11 H13 I N4 O4' 
_chem_comp.formula_weight    392.15 
_chem_comp.id                5ID 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (2R,3R,4S,5R)-2-(4-AMINO-5-IODO-7H-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-(HYDROXYMETHYL)TETRAHYDROFURAN-3,4-DIOL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     5-IODOTUBERCIDIN 
#
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
O5' C5' 5ID sing 1 n n 
O5' H5' 5ID sing 2 n n 
C5' C4' 5ID sing 3 n n 
C5' "H5'1" 5ID sing 4 n n 
C5' "H5'2" 5ID sing 5 n n 
C4' O4' 5ID sing 6 n n 
C4' C3' 5ID sing 7 n n 
C4' H4' 5ID sing 8 n n 
O4' C1' 5ID sing 9 n n 
C1' N9 5ID sing 10 n n 
C1' C2' 5ID sing 11 n n 
C1' H1' 5ID sing 12 n n 
N9 C8 5ID sing 13 n y 
N9 C4 5ID sing 14 n y 
C8 C7 5ID doub 15 n y 
C8 H8 5ID sing 16 n n 
C7 C5 5ID sing 17 n y 
C7 IAE 5ID sing 18 n n 
C5 C6 5ID doub 19 n y 
C5 C4 5ID sing 20 n y 
C6 N1 5ID sing 21 n y 
C6 N6 5ID sing 22 n n 
N1 C2 5ID doub 23 n y 
C2 N3 5ID sing 24 n y 
C2 H2 5ID sing 25 n n 
N3 C4 5ID doub 26 n y 
N6 H6N1 5ID sing 27 n n 
N6 H6N2 5ID sing 28 n n 
C2' O2' 5ID sing 29 n n 
C2' C3' 5ID sing 30 n n 
C2' H2' 5ID sing 31 n n 
O2' HA 5ID sing 32 n n 
C3' O3' 5ID sing 33 n n 
C3' H3' 5ID sing 34 n n 
O3' HB 5ID sing 35 n n 
#
_atom_sites.entry_id                     5AX3 
_atom_sites.fract_transf_matrix[1][1]    0.022813 
_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]    0.015046 
_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]    0.008556 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
_pdbx_nonpoly_scheme.asym_id          C 
_pdbx_nonpoly_scheme.entity_id        3 
_pdbx_nonpoly_scheme.mon_id           5ID 
_pdbx_nonpoly_scheme.pdb_strand_id    A 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      401 
_pdbx_nonpoly_scheme.auth_seq_num     382 
_pdbx_nonpoly_scheme.pdb_mon_id       5ID 
_pdbx_nonpoly_scheme.auth_mon_id      5ID 
_pdbx_nonpoly_scheme.pdb_ins_code     . 
#
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 O5' 5ID . . . C 3 14.535 -5.473 -21.011 1 91.22 ? O5' 5ID 401 A 1 
HETATM 2 C C5' 5ID . . . C 3 14.614 -5.102 -19.642 1 95.09 ? C5' 5ID 401 A 1 
HETATM 3 C C4' 5ID . . . C 3 16.022 -4.727 -19.252 1 94.16 ? C4' 5ID 401 A 1 
HETATM 4 O O4' 5ID . . . C 3 16.042 -4.253 -17.878 1 80.49 ? O4' 5ID 401 A 1 
HETATM 5 C C1' 5ID . . . C 3 17.218 -4.695 -17.232 1 88.58 ? C1' 5ID 401 A 1 
HETATM 6 N N9 5ID . . . C 3 16.832 -5.623 -16.151 1 75.83 ? N9 5ID 401 A 1 
HETATM 7 C C8 5ID . . . C 3 15.563 -5.772 -15.705 1 85.3 ? C8 5ID 401 A 1 
HETATM 8 C C7 5ID . . . C 3 15.645 -6.712 -14.705 1 95.6 ? C7 5ID 401 A 1 
HETATM 9 C C5 5ID . . . C 3 17.027 -7.162 -14.522 1 83.85 ? C5 5ID 401 A 1 
HETATM 10 C C6 5ID . . . C 3 17.694 -8.056 -13.702 1 83.29 ? C6 5ID 401 A 1 
HETATM 11 N N1 5ID . . . C 3 19.028 -8.188 -13.85 1 84.82 ? N1 5ID 401 A 1 
HETATM 12 C C2 5ID . . . C 3 19.678 -7.465 -14.773 1 76.31 ? C2 5ID 401 A 1 
HETATM 13 N N3 5ID . . . C 3 19.044 -6.598 -15.571 1 72.03 ? N3 5ID 401 A 1 
HETATM 14 C C4 5ID . . . C 3 17.704 -6.416 -15.472 1 74.87 ? C4 5ID 401 A 1 
HETATM 15 N N6 5ID . . . C 3 17.023 -8.778 -12.772 1 71.45 ? N6 5ID 401 A 1 
HETATM 16 C C2' 5ID . . . C 3 18.089 -5.375 -18.285 1 107.78 ? C2' 5ID 401 A 1 
HETATM 17 O O2' 5ID . . . C 3 18.922 -4.393 -18.884 1 120.85 ? O2' 5ID 401 A 1 
HETATM 18 C C3' 5ID . . . C 3 17.037 -5.86 -19.269 1 92.78 ? C3' 5ID 401 A 1 
HETATM 19 O O3' 5ID . . . C 3 17.551 -6.125 -20.561 1 98.95 ? O3' 5ID 401 A 1 
HETATM 20 I IAE 5ID . . . C 3 13.988 -7.438 -13.554 1 108.12 ? IAE 5ID 401 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           22 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           278 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           20 
#