data_5EM6
#
_model_server_result.job_id            2yl3WYYa4J2Ku8fGraJdXg 
_model_server_result.datetime_utc      '2024-11-25 14:14:54' 
_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          5em6 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1102}' 
#
_entry.id    5EM6 
#
_exptl.entry_id    5EM6 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              420.468 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            4-[(2-azanylpyrimidin-4-yl)amino]-~{N}-[4-(4-methylpiperazin-1-yl)phenyl]-2-oxidanylidene-1~{H}-pyridine-3-carboxamide 
_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            5EM6 
_cell.length_a            146.249 
_cell.length_b            146.249 
_cell.length_c            146.249 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5EM6 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        197 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 2 3' 
#
_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 
_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           'C21 H24 N8 O2' 
_chem_comp.formula_weight    420.468 
_chem_comp.id                5Q3 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              4-[(2-azanylpyrimidin-4-yl)amino]-~{N}-[4-(4-methylpiperazin-1-yl)phenyl]-2-oxidanylidene-1~{H}-pyridine-3-carboxamide 
_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
N32 C30 5Q3 sing 1 n n 
N29 C30 5Q3 doub 2 n y 
N29 C28 5Q3 sing 3 n y 
C30 N31 5Q3 sing 4 n y 
C28 C27 5Q3 doub 5 n y 
N31 C26 5Q3 doub 6 n y 
C27 C26 5Q3 sing 7 n y 
C26 N25 5Q3 sing 8 n n 
C19 C20 5Q3 doub 9 n n 
C19 C18 5Q3 sing 10 n n 
C20 N21 5Q3 sing 11 n n 
N25 C18 5Q3 sing 12 n n 
C18 C17 5Q3 doub 13 n n 
N21 C23 5Q3 sing 14 n n 
C17 C23 5Q3 sing 15 n n 
C17 C15 5Q3 sing 16 n n 
C23 O24 5Q3 doub 17 n n 
O16 C15 5Q3 doub 18 n n 
C15 N14 5Q3 sing 19 n n 
N14 C11 5Q3 sing 20 n n 
C11 C12 5Q3 doub 21 n y 
C11 C10 5Q3 sing 22 n y 
C12 C13 5Q3 sing 23 n y 
C10 C9 5Q3 doub 24 n y 
C13 C8 5Q3 doub 25 n y 
C9 C8 5Q3 sing 26 n y 
C8 N5 5Q3 sing 27 n n 
N5 C6 5Q3 sing 28 n n 
N5 C4 5Q3 sing 29 n n 
C6 C7 5Q3 sing 30 n n 
C4 C3 5Q3 sing 31 n n 
C7 N2 5Q3 sing 32 n n 
N2 C3 5Q3 sing 33 n n 
N2 C1 5Q3 sing 34 n n 
C4 H1 5Q3 sing 35 n n 
C4 H2 5Q3 sing 36 n n 
C6 H3 5Q3 sing 37 n n 
C6 H4 5Q3 sing 38 n n 
C7 H5 5Q3 sing 39 n n 
C7 H6 5Q3 sing 40 n n 
C9 H7 5Q3 sing 41 n n 
C10 H8 5Q3 sing 42 n n 
C12 H9 5Q3 sing 43 n n 
C13 H10 5Q3 sing 44 n n 
C3 H12 5Q3 sing 45 n n 
C3 H13 5Q3 sing 46 n n 
C1 H14 5Q3 sing 47 n n 
C1 H15 5Q3 sing 48 n n 
C1 H16 5Q3 sing 49 n n 
N14 H17 5Q3 sing 50 n n 
C19 H18 5Q3 sing 51 n n 
C20 H19 5Q3 sing 52 n n 
N21 H20 5Q3 sing 53 n n 
N25 H21 5Q3 sing 54 n n 
C27 H22 5Q3 sing 55 n n 
C28 H23 5Q3 sing 56 n n 
N32 H24 5Q3 sing 57 n n 
N32 H25 5Q3 sing 58 n n 
#
_atom_sites.entry_id                     5EM6 
_atom_sites.fract_transf_matrix[1][1]    0.006842 
_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]    0.006842 
_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]    0.006842 
_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 SO4 A 1 1101 1 SO4 SO4 . 
C 3 5Q3 A 1 1102 1 5Q3 DRG . 
D 4 HOH A 1 1201 4 HOH HOH . 
D 4 HOH A 2 1202 3 HOH HOH . 
D 4 HOH A 3 1203 7 HOH HOH . 
D 4 HOH A 4 1204 2 HOH HOH . 
D 4 HOH A 5 1205 6 HOH HOH . 
D 4 HOH A 6 1206 5 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 C4 5Q3 . . . C 3 -51.324 -0.665 -14.689 1 52.54 ? C4 5Q3 1102 A 1 
HETATM 2 C C6 5Q3 . . . C 3 -49.02 0.067 -15.411 1 54 ? C6 5Q3 1102 A 1 
HETATM 3 C C11 5Q3 . . . C 3 -52.182 0.745 -19.336 1 42.11 ? C11 5Q3 1102 A 1 
HETATM 4 C C7 5Q3 . . . C 3 -48.547 -0.123 -13.955 1 57.77 ? C7 5Q3 1102 A 1 
HETATM 5 C C8 5Q3 . . . C 3 -51.025 0.428 -16.79 1 46.33 ? C8 5Q3 1102 A 1 
HETATM 6 C C9 5Q3 . . . C 3 -52.167 1.223 -16.96 1 43.13 ? C9 5Q3 1102 A 1 
HETATM 7 C C10 5Q3 . . . C 3 -52.736 1.372 -18.215 1 41.39 ? C10 5Q3 1102 A 1 
HETATM 8 C C12 5Q3 . . . C 3 -51.042 -0.054 -19.179 1 42.29 ? C12 5Q3 1102 A 1 
HETATM 9 C C13 5Q3 . . . C 3 -50.485 -0.227 -17.913 1 44.39 ? C13 5Q3 1102 A 1 
HETATM 10 N N2 5Q3 . . . C 3 -49.399 -1.117 -13.258 1 58.86 ? N2 5Q3 1102 A 1 
HETATM 11 C C3 5Q3 . . . C 3 -50.831 -0.749 -13.236 1 55.91 ? C3 5Q3 1102 A 1 
HETATM 12 C C1 5Q3 . . . C 3 -48.922 -1.404 -11.897 1 61.88 ? C1 5Q3 1102 A 1 
HETATM 13 N N5 5Q3 . . . C 3 -50.495 0.278 -15.488 1 51.26 ? N5 5Q3 1102 A 1 
HETATM 14 N N14 5Q3 . . . C 3 -52.852 0.963 -20.561 1 43.59 ? N14 5Q3 1102 A 1 
HETATM 15 C C15 5Q3 . . . C 3 -52.849 0.243 -21.718 1 45.83 ? C15 5Q3 1102 A 1 
HETATM 16 O O16 5Q3 . . . C 3 -52.175 -0.774 -21.802 1 47.52 ? O16 5Q3 1102 A 1 
HETATM 17 C C17 5Q3 . . . C 3 -53.743 0.648 -22.841 1 45.76 ? C17 5Q3 1102 A 1 
HETATM 18 C C18 5Q3 . . . C 3 -53.661 0.056 -24.155 1 47.22 ? C18 5Q3 1102 A 1 
HETATM 19 C C19 5Q3 . . . C 3 -54.588 0.481 -25.144 1 44.86 ? C19 5Q3 1102 A 1 
HETATM 20 C C20 5Q3 . . . C 3 -55.542 1.402 -24.882 1 42.66 ? C20 5Q3 1102 A 1 
HETATM 21 N N21 5Q3 . . . C 3 -55.621 1.957 -23.648 1 42.84 ? N21 5Q3 1102 A 1 
HETATM 22 C C23 5Q3 . . . C 3 -54.785 1.63 -22.634 1 44.08 ? C23 5Q3 1102 A 1 
HETATM 23 O O24 5Q3 . . . C 3 -54.962 2.216 -21.569 1 42.88 ? O24 5Q3 1102 A 1 
HETATM 24 N N25 5Q3 . . . C 3 -52.698 -0.907 -24.466 1 50.67 ? N25 5Q3 1102 A 1 
HETATM 25 C C26 5Q3 . . . C 3 -52.478 -1.61 -25.666 1 53.49 ? C26 5Q3 1102 A 1 
HETATM 26 C C27 5Q3 . . . C 3 -51.514 -2.64 -25.669 1 55.83 ? C27 5Q3 1102 A 1 
HETATM 27 C C28 5Q3 . . . C 3 -51.273 -3.347 -26.849 1 55.24 ? C28 5Q3 1102 A 1 
HETATM 28 N N29 5Q3 . . . C 3 -51.945 -3.029 -27.954 1 52.43 ? N29 5Q3 1102 A 1 
HETATM 29 C C30 5Q3 . . . C 3 -52.838 -2.043 -27.937 1 50.73 ? C30 5Q3 1102 A 1 
HETATM 30 N N31 5Q3 . . . C 3 -53.103 -1.343 -26.828 1 52.21 ? N31 5Q3 1102 A 1 
HETATM 31 N N32 5Q3 . . . C 3 -53.516 -1.753 -29.1 1 49.34 ? N32 5Q3 1102 A 1 
#
_model_server_stats.io_time_ms              33 
_model_server_stats.parse_time_ms           26 
_model_server_stats.create_model_time_ms    42 
_model_server_stats.query_time_ms           292 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           31 
#