data_5X9O
#
_model_server_result.job_id            sirt5OQ7MtPu7806EGjzfA 
_model_server_result.datetime_utc      '2024-11-14 04:48:57' 
_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          5x9o 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":801}' 
#
_entry.id    5X9O 
#
_exptl.entry_id    5X9O 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              304.689 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            5-[(2-chloranyl-4-nitro-phenyl)amino]-1,3-dihydrobenzimidazol-2-one 
_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         120 
_cell.entry_id            5X9O 
_cell.length_a            66.618 
_cell.length_b            66.618 
_cell.length_c            151.996 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5X9O 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        178 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 61 2 2' 
#
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 
PISA dimeric 2 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,C,D,E 1 1 
A,B,C,D,E 2 1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 10_554 -y,-x,-z-1/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 0 0 -25.332667 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 O PRO 88 A PRO 76 1_555 D K K . A K 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.814 ? 
metalc ? metalc2 A O PRO 88 A PRO 76 1_555 D K K . A K 803 12_565 ? ? ? ? ? ? ? ? ? ? ? ? 2.953 ? 
metalc ? metalc3 A O GLU 89 A GLU 77 1_555 D K K . A K 803 12_565 ? ? ? ? ? ? ? ? ? ? ? ? 3.185 ? 
metalc ? metalc4 A O ILE 90 A ILE 78 1_555 D K K . A K 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.259 ? 
metalc ? metalc5 A O ILE 90 A ILE 78 1_555 D K K . A K 803 12_565 ? ? ? ? ? ? ? ? ? ? ? ? 3.007 ? 
metalc ? metalc6 A OD1 ASN 91 A ASN 79 1_555 D K K . A K 803 1_555 ? B ? ? ? ? ? ? ? ? ? ? 3.285 ? 
metalc ? metalc7 A OD1 ASN 91 A ASN 79 1_555 D K K . A K 803 12_565 ? B ? ? ? ? ? ? ? ? ? ? 2.835 ? 
#
_chem_comp.formula           'C13 H9 Cl N4 O3' 
_chem_comp.formula_weight    304.689 
_chem_comp.id                80R 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              5-[(2-chloranyl-4-nitro-phenyl)amino]-1,3-dihydrobenzimidazol-2-one 
_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
O19 C13 80R doub 1 n n 
C13 N14 80R sing 2 n n 
C13 N15 80R sing 3 n n 
N14 C7 80R sing 4 n n 
N15 C8 80R sing 5 n n 
C7 C8 80R doub 6 n y 
C7 C1 80R sing 7 n y 
C8 C5 80R sing 8 n y 
C1 C2 80R doub 9 n y 
C5 C9 80R doub 10 n y 
C2 C9 80R sing 11 n y 
C9 N16 80R sing 12 n n 
N16 C10 80R sing 13 n n 
C10 C3 80R doub 14 n y 
C10 C12 80R sing 15 n y 
CL1 C12 80R sing 16 n n 
C3 C4 80R sing 17 n y 
C12 C6 80R doub 18 n y 
C4 C11 80R doub 19 n y 
C6 C11 80R sing 20 n y 
C11 N17 80R sing 21 n n 
N17 O20 80R sing 22 n n 
N17 O18 80R doub 23 n n 
C4 H1 80R sing 24 n n 
C5 H2 80R sing 25 n n 
C6 H3 80R sing 26 n n 
C1 H4 80R sing 27 n n 
C2 H5 80R sing 28 n n 
C3 H6 80R sing 29 n n 
N14 H7 80R sing 30 n n 
N15 H8 80R sing 31 n n 
N16 H9 80R sing 32 n n 
#
_atom_sites.entry_id                     5X9O 
_atom_sites.fract_transf_matrix[1][1]    0.015011 
_atom_sites.fract_transf_matrix[1][2]    0.008667 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017333 
_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]    0.006579 
_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 80R A 1 801 801 80R LIG . 
C 3 EDO A 1 802 802 EDO EDO . 
D 4 K A 1 803 803 K K . 
E 5 HOH A 1 901 85 HOH HOH . 
E 5 HOH A 2 902 24 HOH HOH . 
E 5 HOH A 3 903 22 HOH HOH . 
E 5 HOH A 4 904 89 HOH HOH . 
E 5 HOH A 5 905 7 HOH HOH . 
E 5 HOH A 6 906 20 HOH HOH . 
E 5 HOH A 7 907 25 HOH HOH . 
E 5 HOH A 8 908 80 HOH HOH . 
E 5 HOH A 9 909 62 HOH HOH . 
E 5 HOH A 10 910 81 HOH HOH . 
E 5 HOH A 11 911 68 HOH HOH . 
E 5 HOH A 12 912 32 HOH HOH . 
E 5 HOH A 13 913 1 HOH HOH . 
E 5 HOH A 14 914 59 HOH HOH . 
E 5 HOH A 15 915 83 HOH HOH . 
E 5 HOH A 16 916 19 HOH HOH . 
E 5 HOH A 17 917 50 HOH HOH . 
E 5 HOH A 18 918 90 HOH HOH . 
E 5 HOH A 19 919 8 HOH HOH . 
E 5 HOH A 20 920 71 HOH HOH . 
E 5 HOH A 21 921 52 HOH HOH . 
E 5 HOH A 22 922 16 HOH HOH . 
E 5 HOH A 23 923 30 HOH HOH . 
E 5 HOH A 24 924 47 HOH HOH . 
E 5 HOH A 25 925 44 HOH HOH . 
E 5 HOH A 26 926 95 HOH HOH . 
E 5 HOH A 27 927 74 HOH HOH . 
E 5 HOH A 28 928 48 HOH HOH . 
E 5 HOH A 29 929 3 HOH HOH . 
E 5 HOH A 30 930 46 HOH HOH . 
E 5 HOH A 31 931 23 HOH HOH . 
E 5 HOH A 32 932 28 HOH HOH . 
E 5 HOH A 33 933 39 HOH HOH . 
E 5 HOH A 34 934 31 HOH HOH . 
E 5 HOH A 35 935 38 HOH HOH . 
E 5 HOH A 36 936 41 HOH HOH . 
E 5 HOH A 37 937 37 HOH HOH . 
E 5 HOH A 38 938 75 HOH HOH . 
E 5 HOH A 39 939 2 HOH HOH . 
E 5 HOH A 40 940 36 HOH HOH . 
E 5 HOH A 41 941 72 HOH HOH . 
E 5 HOH A 42 942 18 HOH HOH . 
E 5 HOH A 43 943 10 HOH HOH . 
E 5 HOH A 44 944 34 HOH HOH . 
E 5 HOH A 45 945 11 HOH HOH . 
E 5 HOH A 46 946 29 HOH HOH . 
E 5 HOH A 47 947 42 HOH HOH . 
E 5 HOH A 48 948 82 HOH HOH . 
E 5 HOH A 49 949 5 HOH HOH . 
E 5 HOH A 50 950 14 HOH HOH . 
E 5 HOH A 51 951 9 HOH HOH . 
E 5 HOH A 52 952 15 HOH HOH . 
E 5 HOH A 53 953 17 HOH HOH . 
E 5 HOH A 54 954 26 HOH HOH . 
E 5 HOH A 55 955 27 HOH HOH . 
E 5 HOH A 56 956 61 HOH HOH . 
E 5 HOH A 57 957 55 HOH HOH . 
E 5 HOH A 58 958 35 HOH HOH . 
E 5 HOH A 59 959 4 HOH HOH . 
E 5 HOH A 60 960 84 HOH HOH . 
E 5 HOH A 61 961 64 HOH HOH . 
E 5 HOH A 62 962 58 HOH HOH . 
E 5 HOH A 63 963 65 HOH HOH . 
E 5 HOH A 64 964 69 HOH HOH . 
E 5 HOH A 65 965 67 HOH HOH . 
E 5 HOH A 66 966 12 HOH HOH . 
E 5 HOH A 67 967 66 HOH HOH . 
E 5 HOH A 68 968 63 HOH HOH . 
E 5 HOH A 69 969 33 HOH HOH . 
E 5 HOH A 70 970 40 HOH HOH . 
E 5 HOH A 71 971 91 HOH HOH . 
E 5 HOH A 72 972 43 HOH HOH . 
E 5 HOH A 73 973 56 HOH HOH . 
E 5 HOH A 74 974 6 HOH HOH . 
E 5 HOH A 75 975 93 HOH HOH . 
E 5 HOH A 76 976 70 HOH HOH . 
E 5 HOH A 77 977 87 HOH HOH . 
E 5 HOH A 78 978 13 HOH HOH . 
E 5 HOH A 79 979 57 HOH HOH . 
E 5 HOH A 80 980 88 HOH HOH . 
E 5 HOH A 81 981 94 HOH HOH . 
E 5 HOH A 82 982 73 HOH HOH . 
E 5 HOH A 83 983 45 HOH HOH . 
E 5 HOH A 84 984 49 HOH HOH . 
E 5 HOH A 85 985 60 HOH HOH . 
E 5 HOH A 86 986 79 HOH HOH . 
E 5 HOH A 87 987 54 HOH HOH . 
E 5 HOH A 88 988 76 HOH HOH . 
E 5 HOH A 89 989 86 HOH HOH . 
E 5 HOH A 90 990 53 HOH HOH . 
E 5 HOH A 91 991 21 HOH HOH . 
E 5 HOH A 92 992 92 HOH HOH . 
E 5 HOH A 93 993 78 HOH HOH . 
E 5 HOH A 94 994 77 HOH HOH . 
E 5 HOH A 95 995 51 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 80R . . . B 2 -38.696 6.715 -9.512 1 63.88 ? C4 80R 801 A 1 
HETATM 2 C C5 80R . . . B 2 -39.947 8.633 -14.544 1 65.84 ? C5 80R 801 A 1 
HETATM 3 C C6 80R . . . B 2 -36.85 8.258 -9.428 1 63.51 ? C6 80R 801 A 1 
HETATM 4 C C7 80R . . . B 2 -40.978 6.712 -15.518 1 67.64 ? C7 80R 801 A 1 
HETATM 5 C C8 80R . . . B 2 -40.851 8.065 -15.415 1 67.15 ? C8 80R 801 A 1 
HETATM 6 C C10 80R . . . B 2 -38.069 7.95 -11.49 1 64.88 ? C10 80R 801 A 1 
HETATM 7 C C13 80R . . . B 2 -42.465 7.619 -16.974 1 68.97 ? C13 80R 801 A 1 
HETATM 8 C C1 80R . . . B 2 -40.22 5.844 -14.773 1 67.1 ? C1 80R 801 A 1 
HETATM 9 C C2 80R . . . B 2 -39.31 6.402 -13.903 1 65.88 ? C2 80R 801 A 1 
HETATM 10 C C3 80R . . . B 2 -38.885 7.031 -10.839 1 64.39 ? C3 80R 801 A 1 
HETATM 11 C C9 80R . . . B 2 -39.172 7.778 -13.777 1 65.28 ? C9 80R 801 A 1 
HETATM 12 C C11 80R . . . B 2 -37.678 7.336 -8.826 1 63.55 ? C11 80R 801 A 1 
HETATM 13 C C12 80R . . . B 2 -37.058 8.552 -10.756 1 64.37 ? C12 80R 801 A 1 
HETATM 14 N N14 80R . . . B 2 -41.957 6.438 -16.466 1 69.1 ? N14 80R 801 A 1 
HETATM 15 N N15 80R . . . B 2 -41.767 8.632 -16.311 1 67.91 ? N15 80R 801 A 1 
HETATM 16 N N16 80R . . . B 2 -38.232 8.286 -12.861 1 64.83 ? N16 80R 801 A 1 
HETATM 17 N N17 80R . . . B 2 -37.453 7.017 -7.445 1 63.2 ? N17 80R 801 A 1 
HETATM 18 O O18 80R . . . B 2 -38.428 6.807 -6.706 1 64.66 ? O18 80R 801 A 1 
HETATM 19 O O19 80R . . . B 2 -43.343 7.71 -17.825 1 66.39 ? O19 80R 801 A 1 
HETATM 20 O O20 80R . . . B 2 -36.262 6.96 -7.132 1 59.67 ? O20 80R 801 A 1 
HETATM 21 CL CL1 80R . . . B 2 -35.979 9.698 -11.449 1 67.08 ? CL1 80R 801 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           234 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           21 
#