data_5NSP
#
_model_server_result.job_id            vt8WfdiZugY50lAw6Op7Nw 
_model_server_result.datetime_utc      '2024-10-19 10:16:16' 
_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          5nsp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":1204}' 
#
_entry.id    5NSP 
#
_exptl.entry_id    5NSP 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              490.903 
_entity.id                          7 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1-[4-[4-(2-chlorophenyl)-5-pyrimidin-4-yl-1,2,4-triazol-3-yl]phenyl]-2-oxidanylidene-3~{H}-benzimidazole-5-carbonitrile 
_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            5NSP 
_cell.length_a            90.06 
_cell.length_b            98.14 
_cell.length_c            119.51 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5NSP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
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,O,P 1 1 
C,D,J,K,L,M,N,Q,R 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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      7 
_struct_asym.id                             M 
_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 SG CYS 159 A CYS 1081 1_555 E ZN ZN . A ZN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.341 ? 
metalc ? metalc2 A ND1 HIS 162 A HIS 1084 1_555 E ZN ZN . A ZN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? 
metalc ? metalc3 A SG CYS 167 A CYS 1089 1_555 E ZN ZN . A ZN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? 
metalc ? metalc4 A SG CYS 170 A CYS 1092 1_555 E ZN ZN . A ZN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? 
metalc ? metalc5 C SG CYS 159 B CYS 1081 1_555 J ZN ZN . B ZN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? 
metalc ? metalc6 C ND1 HIS 162 B HIS 1084 1_555 J ZN ZN . B ZN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? 
metalc ? metalc7 C SG CYS 167 B CYS 1089 1_555 J ZN ZN . B ZN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? 
metalc ? metalc8 C SG CYS 170 B CYS 1092 1_555 J ZN ZN . B ZN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? 
#
_chem_comp.formula           'C26 H15 Cl N8 O' 
_chem_comp.formula_weight    490.903 
_chem_comp.id                97E 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1-[4-[4-(2-chlorophenyl)-5-pyrimidin-4-yl-1,2,4-triazol-3-yl]phenyl]-2-oxidanylidene-3~{H}-benzimidazole-5-carbonitrile 
_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
C5 C6 97E doub 1 n y 
C5 C4 97E sing 2 n y 
C6 N1 97E sing 3 n y 
NAK NAJ 97E sing 4 n y 
NAK CAL 97E doub 5 n y 
NAJ CAI 97E doub 6 n y 
C4 CAL 97E sing 7 n n 
C4 N3 97E doub 8 n y 
CAL NAH 97E sing 9 n y 
N1 C2 97E doub 10 n y 
CAI NAH 97E sing 11 n y 
CAI CAS 97E sing 12 n n 
CLA CAB 97E sing 13 n n 
NAH CAC 97E sing 14 n n 
N3 C2 97E sing 15 n y 
CAX CAS 97E doub 16 n y 
CAX CAW 97E sing 17 n y 
CAS CAT 97E sing 18 n y 
OBA CAZ 97E doub 19 n n 
CAW CAV 97E doub 20 n y 
CAT CAU 97E doub 21 n y 
CAB CAC 97E doub 22 n y 
CAB CAG 97E sing 23 n y 
CAC CAD 97E sing 24 n y 
CAV CAU 97E sing 25 n y 
CAV NAY 97E sing 26 n n 
CAZ NAY 97E sing 27 n n 
CAZ NBB 97E sing 28 n n 
NAY CBD 97E sing 29 n n 
CAG CAF 97E doub 30 n y 
CAD CAE 97E doub 31 n y 
NBB CBC 97E sing 32 n n 
CBD CBC 97E doub 33 n y 
CBD CBE 97E sing 34 n y 
CAF CAE 97E sing 35 n y 
CBC CBH 97E sing 36 n y 
CBE CBF 97E doub 37 n y 
CBH CBG 97E doub 38 n y 
CBF CBG 97E sing 39 n y 
CBG CBI 97E sing 40 n n 
CBI NBJ 97E trip 41 n n 
C5 H1 97E sing 42 n n 
C6 H2 97E sing 43 n n 
NBB H3 97E sing 44 n n 
CBH H4 97E sing 45 n n 
CBF H5 97E sing 46 n n 
CBE H6 97E sing 47 n n 
CAW H7 97E sing 48 n n 
CAX H8 97E sing 49 n n 
CAU H9 97E sing 50 n n 
CAT H10 97E sing 51 n n 
C2 H11 97E sing 52 n n 
CAG H12 97E sing 53 n n 
CAF H13 97E sing 54 n n 
CAE H14 97E sing 55 n n 
CAD H15 97E sing 56 n n 
#
_atom_sites.entry_id                     5NSP 
_atom_sites.fract_transf_matrix[1][1]    0.011104 
_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]    0.01019 
_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]    0.008368 
_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 3 ZN A 1 1201 6 ZN ZN . 
F 4 SO4 A 1 1202 1 SO4 SO4 . 
G 5 BCT A 1 1203 1 BCT BCT . 
H 4 SO4 C 1 1201 1 SO4 SO4 . 
I 6 GOL C 1 1202 1 GOL GOL . 
J 3 ZN B 1 1201 1 ZN ZN . 
K 4 SO4 B 1 1202 1 SO4 SO4 . 
L 4 SO4 B 1 1203 1 SO4 SO4 . 
M 7 97E B 1 1204 1 97E DRG . 
N 5 BCT B 1 1205 2 BCT BCT . 
O 8 HOH A 1 1301 90 HOH HOH . 
O 8 HOH A 2 1302 37 HOH HOH . 
O 8 HOH A 3 1303 33 HOH HOH . 
O 8 HOH A 4 1304 94 HOH HOH . 
O 8 HOH A 5 1305 17 HOH HOH . 
O 8 HOH A 6 1306 25 HOH HOH . 
O 8 HOH A 7 1307 86 HOH HOH . 
O 8 HOH A 8 1308 45 HOH HOH . 
O 8 HOH A 9 1309 41 HOH HOH . 
O 8 HOH A 10 1310 36 HOH HOH . 
O 8 HOH A 11 1311 88 HOH HOH . 
O 8 HOH A 12 1312 38 HOH HOH . 
O 8 HOH A 13 1313 39 HOH HOH . 
O 8 HOH A 14 1314 89 HOH HOH . 
O 8 HOH A 15 1315 84 HOH HOH . 
O 8 HOH A 16 1316 42 HOH HOH . 
O 8 HOH A 17 1317 16 HOH HOH . 
O 8 HOH A 18 1318 44 HOH HOH . 
O 8 HOH A 19 1319 1 HOH HOH . 
O 8 HOH A 20 1320 75 HOH HOH . 
O 8 HOH A 21 1321 60 HOH HOH . 
O 8 HOH A 22 1322 52 HOH HOH . 
O 8 HOH A 23 1323 22 HOH HOH . 
O 8 HOH A 24 1324 48 HOH HOH . 
O 8 HOH A 25 1325 8 HOH HOH . 
O 8 HOH A 26 1326 7 HOH HOH . 
O 8 HOH A 27 1327 30 HOH HOH . 
O 8 HOH A 28 1328 19 HOH HOH . 
O 8 HOH A 29 1329 72 HOH HOH . 
O 8 HOH A 30 1330 51 HOH HOH . 
O 8 HOH A 31 1331 82 HOH HOH . 
O 8 HOH A 32 1332 40 HOH HOH . 
O 8 HOH A 33 1333 10 HOH HOH . 
O 8 HOH A 34 1334 92 HOH HOH . 
O 8 HOH A 35 1335 3 HOH HOH . 
O 8 HOH A 36 1336 47 HOH HOH . 
O 8 HOH A 37 1337 49 HOH HOH . 
O 8 HOH A 38 1338 57 HOH HOH . 
O 8 HOH A 39 1339 81 HOH HOH . 
P 8 HOH C 1 1301 11 HOH HOH . 
P 8 HOH C 2 1302 53 HOH HOH . 
P 8 HOH C 3 1303 50 HOH HOH . 
P 8 HOH C 4 1304 80 HOH HOH . 
P 8 HOH C 5 1305 23 HOH HOH . 
P 8 HOH C 6 1306 32 HOH HOH . 
P 8 HOH C 7 1307 29 HOH HOH . 
Q 8 HOH B 1 1301 91 HOH HOH . 
Q 8 HOH B 2 1302 21 HOH HOH . 
Q 8 HOH B 3 1303 28 HOH HOH . 
Q 8 HOH B 4 1304 35 HOH HOH . 
Q 8 HOH B 5 1305 87 HOH HOH . 
Q 8 HOH B 6 1306 62 HOH HOH . 
Q 8 HOH B 7 1307 12 HOH HOH . 
Q 8 HOH B 8 1308 74 HOH HOH . 
Q 8 HOH B 9 1309 2 HOH HOH . 
Q 8 HOH B 10 1310 31 HOH HOH . 
Q 8 HOH B 11 1311 26 HOH HOH . 
Q 8 HOH B 12 1312 59 HOH HOH . 
Q 8 HOH B 13 1313 46 HOH HOH . 
Q 8 HOH B 14 1314 73 HOH HOH . 
Q 8 HOH B 15 1315 15 HOH HOH . 
Q 8 HOH B 16 1316 55 HOH HOH . 
Q 8 HOH B 17 1317 43 HOH HOH . 
Q 8 HOH B 18 1318 66 HOH HOH . 
Q 8 HOH B 19 1319 9 HOH HOH . 
Q 8 HOH B 20 1320 58 HOH HOH . 
Q 8 HOH B 21 1321 24 HOH HOH . 
Q 8 HOH B 22 1322 14 HOH HOH . 
Q 8 HOH B 23 1323 18 HOH HOH . 
Q 8 HOH B 24 1324 20 HOH HOH . 
Q 8 HOH B 25 1325 4 HOH HOH . 
Q 8 HOH B 26 1326 61 HOH HOH . 
Q 8 HOH B 27 1327 67 HOH HOH . 
Q 8 HOH B 28 1328 64 HOH HOH . 
Q 8 HOH B 29 1329 69 HOH HOH . 
Q 8 HOH B 30 1330 68 HOH HOH . 
Q 8 HOH B 31 1331 78 HOH HOH . 
Q 8 HOH B 32 1332 56 HOH HOH . 
Q 8 HOH B 33 1333 93 HOH HOH . 
Q 8 HOH B 34 1334 6 HOH HOH . 
Q 8 HOH B 35 1335 71 HOH HOH . 
Q 8 HOH B 36 1336 54 HOH HOH . 
Q 8 HOH B 37 1337 63 HOH HOH . 
R 8 HOH D 1 1201 13 HOH HOH . 
R 8 HOH D 2 1202 77 HOH HOH . 
R 8 HOH D 3 1203 65 HOH HOH . 
R 8 HOH D 4 1204 79 HOH HOH . 
R 8 HOH D 5 1205 34 HOH HOH . 
R 8 HOH D 6 1206 5 HOH HOH . 
R 8 HOH D 7 1207 83 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 97E . . . M 7 8.938 -3.692 19.349 1 54.26 ? C4 97E 1204 B 1 
HETATM 2 C C5 97E . . . M 7 9.831 -3.993 18.29 1 55.27 ? C5 97E 1204 B 1 
HETATM 3 C C6 97E . . . M 7 11.187 -3.56 18.336 1 57.23 ? C6 97E 1204 B 1 
HETATM 4 N N1 97E . . . M 7 11.709 -2.797 19.42 1 48.85 ? N1 97E 1204 B 1 
HETATM 5 N N3 97E . . . M 7 9.439 -2.913 20.377 1 51.4 ? N3 97E 1204 B 1 
HETATM 6 O OBA 97E . . . M 7 -0.671 -5.542 21.042 1 58.18 ? OBA 97E 1204 B 1 
HETATM 7 C CAZ 97E . . . M 7 -0.301 -5.986 22.116 1 54.16 ? CAZ 97E 1204 B 1 
HETATM 8 N NBB 97E . . . M 7 -1.136 -6.418 23.028 1 52.99 ? NBB 97E 1204 B 1 
HETATM 9 C CBC 97E . . . M 7 -0.421 -6.801 24.063 1 59.24 ? CBC 97E 1204 B 1 
HETATM 10 C CBH 97E . . . M 7 -0.797 -7.315 25.251 1 61.74 ? CBH 97E 1204 B 1 
HETATM 11 C CBG 97E . . . M 7 0.191 -7.634 26.186 1 70.52 ? CBG 97E 1204 B 1 
HETATM 12 C CBI 97E . . . M 7 -0.129 -8.161 27.392 1 78.43 ? CBI 97E 1204 B 1 
HETATM 13 N NBJ 97E . . . M 7 -0.356 -8.577 28.35 1 82.95 ? NBJ 97E 1204 B 1 
HETATM 14 C CBF 97E . . . M 7 1.539 -7.405 25.894 1 65.41 ? CBF 97E 1204 B 1 
HETATM 15 C CBE 97E . . . M 7 1.854 -6.866 24.645 1 68.69 ? CBE 97E 1204 B 1 
HETATM 16 C CBD 97E . . . M 7 0.883 -6.582 23.753 1 64.3 ? CBD 97E 1204 B 1 
HETATM 17 N NAY 97E . . . M 7 0.955 -6.071 22.521 1 58.22 ? NAY 97E 1204 B 1 
HETATM 18 C CAV 97E . . . M 7 2.071 -5.722 21.867 1 58.56 ? CAV 97E 1204 B 1 
HETATM 19 C CAW 97E . . . M 7 2.744 -6.666 21.096 1 60.8 ? CAW 97E 1204 B 1 
HETATM 20 C CAX 97E . . . M 7 3.92 -6.357 20.397 1 59.94 ? CAX 97E 1204 B 1 
HETATM 21 C CAU 97E . . . M 7 2.604 -4.448 21.954 1 59.9 ? CAU 97E 1204 B 1 
HETATM 22 C CAT 97E . . . M 7 3.776 -4.143 21.261 1 59.02 ? CAT 97E 1204 B 1 
HETATM 23 C CAS 97E . . . M 7 4.465 -5.076 20.478 1 56.43 ? CAS 97E 1204 B 1 
HETATM 24 C CAI 97E . . . M 7 5.595 -4.634 19.861 1 53.19 ? CAI 97E 1204 B 1 
HETATM 25 N NAJ 97E . . . M 7 5.589 -4.053 18.662 1 45.38 ? NAJ 97E 1204 B 1 
HETATM 26 N NAK 97E . . . M 7 6.723 -3.717 18.384 1 47.01 ? NAK 97E 1204 B 1 
HETATM 27 C CAL 97E . . . M 7 7.596 -4.028 19.362 1 50.5 ? CAL 97E 1204 B 1 
HETATM 28 C C2 97E . . . M 7 10.806 -2.487 20.453 1 51.82 ? C2 97E 1204 B 1 
HETATM 29 N NAH 97E . . . M 7 6.864 -4.589 20.354 1 51.11 ? NAH 97E 1204 B 1 
HETATM 30 C CAC 97E . . . M 7 7.33 -5.091 21.511 1 49.86 ? CAC 97E 1204 B 1 
HETATM 31 C CAB 97E . . . M 7 7.895 -6.387 21.485 1 50.4 ? CAB 97E 1204 B 1 
HETATM 32 CL CLA 97E . . . M 7 7.988 -7.317 19.97 1 49.63 ? CLA 97E 1204 B 1 
HETATM 33 C CAG 97E . . . M 7 8.401 -6.975 22.65 1 51.72 ? CAG 97E 1204 B 1 
HETATM 34 C CAF 97E . . . M 7 8.341 -6.277 23.85 1 54.44 ? CAF 97E 1204 B 1 
HETATM 35 C CAE 97E . . . M 7 7.787 -4.991 23.885 1 52.64 ? CAE 97E 1204 B 1 
HETATM 36 C CAD 97E . . . M 7 7.277 -4.395 22.723 1 51.13 ? CAD 97E 1204 B 1 
#
_model_server_stats.io_time_ms              53 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           324 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           36 
#