data_5XKP
#
_model_server_result.job_id            x008Rri8JeItze7USD2h-w 
_model_server_result.datetime_utc      '2024-10-10 07:25:08' 
_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          5xkp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":201}' 
#
_entry.id    5XKP 
#
_exptl.entry_id    5XKP 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              112.09 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            6-amino-1,3,5-triazin-2(1H)-one 
_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          89.95 
_cell.angle_gamma         90 
_cell.entry_id            5XKP 
_cell.length_a            52.621 
_cell.length_b            108.831 
_cell.length_c            62.076 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5XKP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 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
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,G,H,I,J,R,S 1 1 
C,D,K,L,M,N,O,P,Q,T,U 2 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 
#
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
metalc ? metalc1 A ND1 HIS 55 A HIS 56 1_555 F ZN ZN . A ZN 202 1_555 ? ? ? ? L ? ? ? ? ? ? ? 2.163 ? 
metalc ? metalc2 A SG CYS 85 A CYS 86 1_555 F ZN ZN . A ZN 202 1_555 ? ? ? ? L ? ? ? ? ? ? ? 2.175 ? 
metalc ? metalc3 A SG CYS 88 A CYS 89 1_555 F ZN ZN . A ZN 202 1_555 ? ? ? ? L ? ? ? ? ? ? ? 2.325 ? 
metalc ? metalc4 F ZN ZN . A ZN 202 1_555 R O HOH . A HOH 302 1_555 ? L ? ? ? ? ? ? ? ? ? ? 1.808 ? 
metalc ? metalc5 B ND1 HIS 55 B HIS 56 1_555 I ZN ZN . B ZN 202 1_555 ? ? ? ? L ? ? ? ? ? ? ? 2.026 ? 
metalc ? metalc6 B SG CYS 85 B CYS 86 1_555 I ZN ZN . B ZN 202 1_555 ? ? ? ? L ? ? ? ? ? ? ? 2.257 ? 
metalc ? metalc7 B SG CYS 88 B CYS 89 1_555 I ZN ZN . B ZN 202 1_555 ? ? ? ? L ? ? ? ? ? ? ? 2.34 ? 
metalc ? metalc8 C ND1 HIS 55 C HIS 56 1_555 L ZN ZN . C ZN 202 1_555 ? ? ? ? L ? ? ? ? ? ? ? 2.065 ? 
metalc ? metalc9 C SG CYS 85 C CYS 86 1_555 L ZN ZN . C ZN 202 1_555 ? ? ? ? L ? ? ? ? ? ? ? 2.225 ? 
metalc ? metalc10 C SG CYS 88 C CYS 89 1_555 L ZN ZN . C ZN 202 1_555 ? ? ? ? L ? ? ? ? ? ? ? 2.259 ? 
metalc ? metalc11 L ZN ZN . C ZN 202 1_555 T O HOH . C HOH 302 1_555 ? L ? ? ? ? ? ? ? ? ? ? 1.911 ? 
metalc ? metalc12 D ND1 HIS 55 D HIS 56 1_555 O ZN ZN . D ZN 202 1_555 ? ? ? ? L ? ? ? ? ? ? ? 2.079 ? 
metalc ? metalc13 D SG CYS 85 D CYS 86 1_555 O ZN ZN . D ZN 202 1_555 ? ? ? ? L ? ? ? ? ? ? ? 2.348 ? 
metalc ? metalc14 D SG CYS 88 D CYS 89 1_555 O ZN ZN . D ZN 202 1_555 ? ? ? ? L ? ? ? ? ? ? ? 2.199 ? 
#
_chem_comp.formula           'C3 H4 N4 O' 
_chem_comp.formula_weight    112.09 
_chem_comp.id                5AZ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              6-amino-1,3,5-triazin-2(1H)-one 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     5-Azacytosine 
#
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
C1 N2 5AZ sing 1 n n 
C1 N6 5AZ sing 2 n n 
C1 O8 5AZ doub 3 n n 
N2 C3 5AZ sing 4 n n 
C3 N4 5AZ doub 5 n n 
C3 N7 5AZ sing 6 n n 
N4 C5 5AZ sing 7 n n 
C5 N6 5AZ doub 8 n n 
N2 HN2 5AZ sing 9 n n 
C5 H5 5AZ sing 10 n n 
N7 H1N7 5AZ sing 11 n n 
N7 H2N7 5AZ sing 12 n n 
#
_atom_sites.entry_id                     5XKP 
_atom_sites.fract_transf_matrix[1][1]    0.019004 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    -0.000015 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009189 
_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]    0.016109 
_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 5AZ A 1 201 160 5AZ 5AZ . 
F 3 ZN A 1 202 161 ZN ZN . 
G 4 GOL A 1 203 162 GOL GOL . 
H 2 5AZ B 1 201 160 5AZ 5AZ . 
I 3 ZN B 1 202 161 ZN ZN . 
J 4 GOL B 1 203 162 GOL GOL . 
K 2 5AZ C 1 201 160 5AZ 5AZ . 
L 3 ZN C 1 202 161 ZN ZN . 
M 4 GOL C 1 203 162 GOL GOL . 
N 2 5AZ D 1 201 160 5AZ 5AZ . 
O 3 ZN D 1 202 161 ZN ZN . 
P 4 GOL D 1 203 162 GOL GOL . 
Q 5 ACT D 1 204 163 ACT ACT . 
R 6 HOH A 1 301 165 HOH HOH . 
R 6 HOH A 2 302 164 HOH HOH . 
R 6 HOH A 3 303 170 HOH HOH . 
R 6 HOH A 4 304 166 HOH HOH . 
R 6 HOH A 5 305 169 HOH HOH . 
R 6 HOH A 6 306 168 HOH HOH . 
R 6 HOH A 7 307 173 HOH HOH . 
R 6 HOH A 8 308 167 HOH HOH . 
S 6 HOH B 1 301 163 HOH HOH . 
S 6 HOH B 2 302 168 HOH HOH . 
S 6 HOH B 3 303 170 HOH HOH . 
S 6 HOH B 4 304 167 HOH HOH . 
S 6 HOH B 5 305 172 HOH HOH . 
S 6 HOH B 6 306 166 HOH HOH . 
S 6 HOH B 7 307 163 HOH HOH . 
S 6 HOH B 8 308 168 HOH HOH . 
S 6 HOH B 9 309 171 HOH HOH . 
S 6 HOH B 10 310 165 HOH HOH . 
S 6 HOH B 11 311 164 HOH HOH . 
T 6 HOH C 1 301 166 HOH HOH . 
T 6 HOH C 2 302 165 HOH HOH . 
T 6 HOH C 3 303 167 HOH HOH . 
T 6 HOH C 4 304 164 HOH HOH . 
T 6 HOH C 5 305 169 HOH HOH . 
T 6 HOH C 6 306 163 HOH HOH . 
U 6 HOH D 1 301 166 HOH HOH . 
U 6 HOH D 2 302 169 HOH HOH . 
U 6 HOH D 3 303 168 HOH HOH . 
U 6 HOH D 4 304 167 HOH HOH . 
U 6 HOH D 5 305 164 HOH HOH . 
U 6 HOH D 6 306 165 HOH HOH . 
U 6 HOH D 7 307 169 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 C1 5AZ . . . K 2 -21.382 22.953 -2.154 1 111.81 ? C1 5AZ 201 C 1 
HETATM 2 N N2 5AZ . . . K 2 -20.521 22.589 -1.168 1 110.83 ? N2 5AZ 201 C 1 
HETATM 3 C C3 5AZ . . . K 2 -20.922 22.55 0.132 1 106.23 ? C3 5AZ 201 C 1 
HETATM 4 N N4 5AZ . . . K 2 -22.211 22.858 0.443 1 105.49 ? N4 5AZ 201 C 1 
HETATM 5 C C5 5AZ . . . K 2 -23.068 23.235 -0.537 1 106.37 ? C5 5AZ 201 C 1 
HETATM 6 N N6 5AZ . . . K 2 -22.667 23.29 -1.83 1 109.2 ? N6 5AZ 201 C 1 
HETATM 7 N N7 5AZ . . . K 2 -20.044 22.171 1.114 1 101.69 ? N7 5AZ 201 C 1 
HETATM 8 O O8 5AZ . . . K 2 -20.987 22.996 -3.349 1 104.26 ? O8 5AZ 201 C 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           270 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           8 
#