data_4Z16
#
_model_server_result.job_id            Yb0cHyUJGzUIiFmVr9476g 
_model_server_result.datetime_utc      '2025-09-15 00:11:02' 
_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          4z16 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":2000}' 
#
_entry.id    4Z16 
#
_exptl.entry_id    4Z16 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              508.015 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N-(3-{[(5-chloro-2-{[2-methoxy-4-(4-methylpiperazin-1-yl)phenyl]amino}pyrimidin-4-yl)amino]methyl}phenyl)prop-2-enamide 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         92.64 
_cell.angle_beta          93.06 
_cell.angle_gamma         86.2 
_cell.entry_id            4Z16 
_cell.length_a            57.625 
_cell.length_b            68.207 
_cell.length_c            93.13 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4Z16 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,I 1 1 
B,F,J 2 1 
C,G,K 3 1 
D,H,L 4 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 F N N 
? 2 G N N 
? 2 H N 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
covale ? covale1 A SG CYS 101 A CYS 909 1_555 E CAP 4LH . A 4LH 2000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.832 ? 
covale ? covale2 A C ASP 171 A ASP 979 1_555 A N PTR 172 A PTR 980 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? 
covale ? covale3 A C PTR 172 A PTR 980 1_555 A N PTR 173 A PTR 981 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale4 A C PTR 173 A PTR 981 1_555 A N VAL 174 A VAL 982 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale5 B SG CYS 101 B CYS 909 1_555 F CAP 4LH . B 4LH 2000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.832 ? 
covale ? covale6 B C ASP 171 B ASP 979 1_555 B N PTR 172 B PTR 980 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
covale ? covale7 B C PTR 172 B PTR 980 1_555 B N PTR 173 B PTR 981 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale8 B C PTR 173 B PTR 981 1_555 B N VAL 174 B VAL 982 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale9 C SG CYS 101 C CYS 909 1_555 G CAP 4LH . C 4LH 2000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.825 ? 
covale ? covale10 C C ASP 171 C ASP 979 1_555 C N PTR 172 C PTR 980 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
covale ? covale11 C C PTR 172 C PTR 980 1_555 C N PTR 173 C PTR 981 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? 
covale ? covale12 C C PTR 173 C PTR 981 1_555 C N VAL 174 C VAL 982 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? 
covale ? covale13 D SG CYS 101 D CYS 909 1_555 H CAP 4LH . D 4LH 2000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.835 ? 
covale ? covale14 D C ASP 171 D ASP 979 1_555 D N PTR 172 D PTR 980 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? 
covale ? covale15 D C PTR 172 D PTR 980 1_555 D N PTR 173 D PTR 981 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.346 ? 
covale ? covale16 D C PTR 173 D PTR 981 1_555 D N VAL 174 D VAL 982 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
#
_chem_comp.formula           'C26 H30 Cl N7 O2' 
_chem_comp.formula_weight    508.015 
_chem_comp.id                4LH 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N-(3-{[(5-chloro-2-{[2-methoxy-4-(4-methylpiperazin-1-yl)phenyl]amino}pyrimidin-4-yl)amino]methyl}phenyl)prop-2-enamide 
_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
CAP CAQ 4LH doub 1 n n 
CAQ CBE 4LH sing 2 n n 
NBA CBE 4LH sing 3 n n 
NBA CBH 4LH sing 4 n n 
CAJ CBH 4LH doub 5 n y 
CAJ CAH 4LH sing 6 n y 
CBE OAE 4LH doub 7 n n 
CBH CAN 4LH sing 8 n y 
CAH CAI 4LH doub 9 n y 
CAN CBF 4LH doub 10 n y 
CAI CBF 4LH sing 11 n y 
CBF CAV 4LH sing 12 n n 
CAS CAU 4LH sing 13 n n 
CAS NBO 4LH sing 14 n n 
CAU NBP 4LH sing 15 n n 
CAT NBP 4LH sing 16 n n 
CAT CAR 4LH sing 17 n n 
NBO CAR 4LH sing 18 n n 
NBO CAB 4LH sing 19 n n 
CAV NAZ 4LH sing 20 n n 
NBP CBI 4LH sing 21 n n 
CAK CBI 4LH doub 22 n y 
CAK CAL 4LH sing 23 n y 
CBI CAO 4LH sing 24 n y 
CAL CBK 4LH doub 25 n y 
NAZ C4 4LH sing 26 n n 
C4 N3 4LH doub 27 n y 
C4 C5 4LH sing 28 n y 
N3 C2 4LH sing 29 n y 
CL5 C5 4LH sing 30 n n 
CAO CBL 4LH doub 31 n y 
CBK CBL 4LH sing 32 n y 
CBK NBB 4LH sing 33 n n 
C5 C6 4LH doub 34 n y 
C2 NBB 4LH sing 35 n n 
C2 N1 4LH doub 36 n y 
CBL OBC 4LH sing 37 n n 
C6 N1 4LH sing 38 n y 
OBC CAA 4LH sing 39 n n 
C6 H1 4LH sing 40 n n 
CAP H2 4LH sing 41 n n 
CAP H3 4LH sing 42 n n 
CAQ H5 4LH sing 43 n n 
NBA H7 4LH sing 44 n n 
CAN H8 4LH sing 45 n n 
CAJ H9 4LH sing 46 n n 
CAH H10 4LH sing 47 n n 
CAI H11 4LH sing 48 n n 
CAV H12 4LH sing 49 n n 
CAV H13 4LH sing 50 n n 
NAZ H14 4LH sing 51 n n 
NBB H15 4LH sing 52 n n 
CAO H16 4LH sing 53 n n 
CAA H17 4LH sing 54 n n 
CAA H18 4LH sing 55 n n 
CAA H19 4LH sing 56 n n 
CAL H20 4LH sing 57 n n 
CAK H21 4LH sing 58 n n 
CAT H22 4LH sing 59 n n 
CAT H23 4LH sing 60 n n 
CAR H24 4LH sing 61 n n 
CAR H25 4LH sing 62 n n 
CAB H27 4LH sing 63 n n 
CAB H28 4LH sing 64 n n 
CAB H29 4LH sing 65 n n 
CAS H30 4LH sing 66 n n 
CAS H31 4LH sing 67 n n 
CAU H32 4LH sing 68 n n 
CAU H33 4LH sing 69 n n 
#
_atom_sites.entry_id                     4Z16 
_atom_sites.fract_transf_matrix[1][1]    0.017354 
_atom_sites.fract_transf_matrix[1][2]    -0.001153 
_atom_sites.fract_transf_matrix[1][3]    0.000879 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014694 
_atom_sites.fract_transf_matrix[2][3]    0.000628 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.010763 
_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 4LH A 1 2000 2000 4LH LEO . 
F 2 4LH B 1 2000 2000 4LH LEO . 
G 2 4LH C 1 2000 2000 4LH LEO . 
H 2 4LH D 1 2000 2000 4LH LEO . 
I 3 HOH A 1 2101 24 HOH HOH . 
I 3 HOH A 2 2102 4 HOH HOH . 
I 3 HOH A 3 2103 2 HOH HOH . 
I 3 HOH A 4 2104 11 HOH HOH . 
I 3 HOH A 5 2105 9 HOH HOH . 
I 3 HOH A 6 2106 30 HOH HOH . 
I 3 HOH A 7 2107 10 HOH HOH . 
I 3 HOH A 8 2108 25 HOH HOH . 
J 3 HOH B 1 2101 29 HOH HOH . 
J 3 HOH B 2 2102 36 HOH HOH . 
J 3 HOH B 3 2103 5 HOH HOH . 
J 3 HOH B 4 2104 19 HOH HOH . 
J 3 HOH B 5 2105 14 HOH HOH . 
J 3 HOH B 6 2106 28 HOH HOH . 
J 3 HOH B 7 2107 35 HOH HOH . 
J 3 HOH B 8 2108 13 HOH HOH . 
J 3 HOH B 9 2109 16 HOH HOH . 
J 3 HOH B 10 2110 18 HOH HOH . 
J 3 HOH B 11 2111 20 HOH HOH . 
J 3 HOH B 12 2112 34 HOH HOH . 
J 3 HOH B 13 2113 32 HOH HOH . 
J 3 HOH B 14 2114 17 HOH HOH . 
J 3 HOH B 15 2115 15 HOH HOH . 
J 3 HOH B 16 2116 33 HOH HOH . 
K 3 HOH C 1 2101 7 HOH HOH . 
K 3 HOH C 2 2102 3 HOH HOH . 
K 3 HOH C 3 2103 22 HOH HOH . 
K 3 HOH C 4 2104 27 HOH HOH . 
K 3 HOH C 5 2105 40 HOH HOH . 
K 3 HOH C 6 2106 12 HOH HOH . 
K 3 HOH C 7 2107 21 HOH HOH . 
K 3 HOH C 8 2108 26 HOH HOH . 
K 3 HOH C 9 2109 41 HOH HOH . 
K 3 HOH C 10 2110 6 HOH HOH . 
K 3 HOH C 11 2111 31 HOH HOH . 
K 3 HOH C 12 2112 38 HOH HOH . 
K 3 HOH C 13 2113 39 HOH HOH . 
L 3 HOH D 1 2101 8 HOH HOH . 
L 3 HOH D 2 2102 44 HOH HOH . 
L 3 HOH D 3 2103 46 HOH HOH . 
L 3 HOH D 4 2104 43 HOH HOH . 
L 3 HOH D 5 2105 42 HOH HOH . 
L 3 HOH D 6 2106 37 HOH HOH . 
L 3 HOH D 7 2107 1 HOH HOH . 
L 3 HOH D 8 2108 23 HOH HOH . 
L 3 HOH D 9 2109 45 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 4LH . . . F 2 20.088 5.847 -34.572 1 42.82 ? C2 4LH 2000 B 1 
HETATM 2 C C4 4LH . . . F 2 18.304 6.96 -33.485 1 39.94 ? C4 4LH 2000 B 1 
HETATM 3 C C5 4LH . . . F 2 18.663 8.181 -34.065 1 41.54 ? C5 4LH 2000 B 1 
HETATM 4 C C6 4LH . . . F 2 19.762 8.203 -34.927 1 40.98 ? C6 4LH 2000 B 1 
HETATM 5 C CAP 4LH . . . F 2 20.588 1.283 -26.879 1 48.61 ? CAP 4LH 2000 B 1 
HETATM 6 C CAQ 4LH . . . F 2 19.365 0.893 -27.718 1 47.91 ? CAQ 4LH 2000 B 1 
HETATM 7 C CBE 4LH . . . F 2 18.834 2.036 -28.611 1 44.99 ? CBE 4LH 2000 B 1 
HETATM 8 O OAE 4LH . . . F 2 18.217 1.736 -29.637 1 47.1 ? OAE 4LH 2000 B 1 
HETATM 9 N NBA 4LH . . . F 2 19.032 3.305 -28.145 1 39.23 ? NBA 4LH 2000 B 1 
HETATM 10 C CBH 4LH . . . F 2 18.635 4.439 -28.788 1 34.26 ? CBH 4LH 2000 B 1 
HETATM 11 C CAN 4LH . . . F 2 17.966 4.491 -30.036 1 31.93 ? CAN 4LH 2000 B 1 
HETATM 12 C CAJ 4LH . . . F 2 18.935 5.652 -28.147 1 29.19 ? CAJ 4LH 2000 B 1 
HETATM 13 C CAH 4LH . . . F 2 18.593 6.886 -28.707 1 25.81 ? CAH 4LH 2000 B 1 
HETATM 14 C CAI 4LH . . . F 2 17.921 6.915 -29.929 1 27.33 ? CAI 4LH 2000 B 1 
HETATM 15 C CBF 4LH . . . F 2 17.616 5.723 -30.61 1 30.02 ? CBF 4LH 2000 B 1 
HETATM 16 C CAV 4LH . . . F 2 16.927 5.74 -31.832 1 32.04 ? CAV 4LH 2000 B 1 
HETATM 17 N NAZ 4LH . . . F 2 17.253 6.926 -32.662 1 34.1 ? NAZ 4LH 2000 B 1 
HETATM 18 N N3 4LH . . . F 2 19.009 5.847 -33.761 1 43.47 ? N3 4LH 2000 B 1 
HETATM 19 CL CL5 4LH . . . F 2 17.772 9.618 -33.757 1 43.1 ? CL5 4LH 2000 B 1 
HETATM 20 N N1 4LH . . . F 2 20.463 7.001 -35.164 1 41.91 ? N1 4LH 2000 B 1 
HETATM 21 N NBB 4LH . . . F 2 20.782 4.715 -34.82 1 43.53 ? NBB 4LH 2000 B 1 
HETATM 22 C CBK 4LH . . . F 2 20.544 3.549 -34.171 1 45.88 ? CBK 4LH 2000 B 1 
HETATM 23 C CBL 4LH . . . F 2 20.776 2.373 -34.896 1 50.99 ? CBL 4LH 2000 B 1 
HETATM 24 C CAO 4LH . . . F 2 20.53 1.124 -34.304 1 53.49 ? CAO 4LH 2000 B 1 
HETATM 25 O OBC 4LH . . . F 2 21.11 2.512 -36.223 1 53.65 ? OBC 4LH 2000 B 1 
HETATM 26 C CAA 4LH . . . F 2 22.28 1.787 -36.625 1 54.05 ? CAA 4LH 2000 B 1 
HETATM 27 C CAL 4LH . . . F 2 20.178 3.449 -32.818 1 45.66 ? CAL 4LH 2000 B 1 
HETATM 28 C CAK 4LH . . . F 2 19.971 2.204 -32.224 1 48.67 ? CAK 4LH 2000 B 1 
HETATM 29 C CBI 4LH . . . F 2 20.15 1.029 -32.96 1 53.54 ? CBI 4LH 2000 B 1 
HETATM 30 N NBP 4LH . . . F 2 19.993 -0.177 -32.378 1 60.11 ? NBP 4LH 2000 B 1 
HETATM 31 C CAT 4LH . . . F 2 21.175 -1.081 -32.239 1 63.75 ? CAT 4LH 2000 B 1 
HETATM 32 C CAR 4LH . . . F 2 20.842 -2.522 -32.685 1 66.79 ? CAR 4LH 2000 B 1 
HETATM 33 N NBO 4LH . . . F 2 19.454 -2.956 -32.385 1 67.1 ? NBO 4LH 2000 B 1 
HETATM 34 C CAB 4LH . . . F 2 18.737 -3.385 -33.6 1 70.29 ? CAB 4LH 2000 B 1 
HETATM 35 C CAS 4LH . . . F 2 18.622 -2.106 -31.494 1 65.58 ? CAS 4LH 2000 B 1 
HETATM 36 C CAU 4LH . . . F 2 18.666 -0.601 -31.837 1 62.95 ? CAU 4LH 2000 B 1 
#
_model_server_stats.io_time_ms              20 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           241 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           36 
#