data_8BUA
#
_model_server_result.job_id            5V67Vs9m36xsYr7lhvWyHA 
_model_server_result.datetime_utc      '2024-11-08 11:30:12' 
_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          8bua 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":1101}' 
#
_entry.id    8BUA 
#
_exptl.entry_id    8BUA 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              320.345 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (2~{R})-~{N}-(1~{H}-benzimidazol-2-yl)-2-(3-oxidanylidene-1~{H}-isoindol-2-yl)propanamide 
_entity.pdbx_number_of_molecules    3 
_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            8BUA 
_cell.length_a            250.329 
_cell.length_b            250.329 
_cell.length_c            217.561 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8BUA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    'P 31 2"' 
_symmetry.space_group_name_H-M     'P 31 2 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
? trimeric 3 author_defined_assembly 1 
? trimeric 3 author_defined_assembly 2 
? trimeric 3 author_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,J,K,L 1 1 
D,E,F,M,N,O,P 2 1 
G,H,I,Q,R,S,T,U 3 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
? 5 K N N 
? 5 N N N 
? 5 R 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
disulf ? disulf1 A SG CYS 22 A CYS 18 1_555 A SG CYS 317 A CYS 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? 
covale ? covale1 B C TYR 184 B TYR 892 1_555 B N TPO 185 B TPO 893 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
covale ? covale2 B C TPO 185 B TPO 893 1_555 B N ASN 186 B ASN 894 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? 
covale ? covale3 E C TYR 184 E TYR 892 1_555 E N TPO 185 E TPO 893 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale4 E C TPO 185 E TPO 893 1_555 E N ASN 186 E ASN 894 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? 
covale ? covale5 H C TYR 184 H TYR 892 1_555 H N TPO 185 H TPO 893 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale6 H C TPO 185 H TPO 893 1_555 H N ASN 186 H ASN 894 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? 
#
_chem_comp.formula           'C18 H16 N4 O2' 
_chem_comp.formula_weight    320.345 
_chem_comp.id                RVH 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (2~{R})-~{N}-(1~{H}-benzimidazol-2-yl)-2-(3-oxidanylidene-1~{H}-isoindol-2-yl)propanamide 
_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
C6 C1 RVH doub 295 n y 
C6 C5 RVH sing 296 n y 
C1 C2 RVH sing 297 n y 
C5 C4 RVH doub 298 n y 
C2 C3 RVH doub 299 n y 
C4 C3 RVH sing 300 n y 
C4 N1 RVH sing 301 n y 
C3 N2 RVH sing 302 n y 
N1 C7 RVH doub 303 n y 
N2 C7 RVH sing 304 n y 
C7 N3 RVH sing 305 n n 
N3 C8 RVH sing 306 n n 
C8 O2 RVH doub 307 n n 
C8 C9 RVH sing 308 n n 
C9 C18 RVH sing 309 n n 
C9 N4 RVH sing 310 n n 
N4 C13 RVH sing 311 n n 
N4 C10 RVH sing 312 n n 
O1 C13 RVH doub 313 n n 
C13 C12 RVH sing 314 n n 
C10 C11 RVH sing 315 n n 
C12 C11 RVH doub 316 n y 
C12 C17 RVH sing 317 n y 
C11 C14 RVH sing 318 n y 
C17 C16 RVH doub 319 n y 
C14 C15 RVH doub 320 n y 
C16 C15 RVH sing 321 n y 
C1 H1 RVH sing 322 n n 
C2 H2 RVH sing 323 n n 
C5 H3 RVH sing 324 n n 
C6 H4 RVH sing 325 n n 
C9 H7 RVH sing 326 n n 
C14 H10 RVH sing 327 n n 
C10 H8 RVH sing 328 n n 
C10 H9 RVH sing 329 n n 
C15 H11 RVH sing 330 n n 
C16 H12 RVH sing 331 n n 
C17 H13 RVH sing 332 n n 
C18 H16 RVH sing 333 n n 
C18 H15 RVH sing 334 n n 
C18 H14 RVH sing 335 n n 
N2 H5 RVH sing 336 n n 
N3 H6 RVH sing 337 n n 
#
_atom_sites.entry_id                     8BUA 
_atom_sites.fract_transf_matrix[1][1]    0.003995 
_atom_sites.fract_transf_matrix[1][2]    0.002306 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.004613 
_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]    0.004596 
_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
J 4 CIT A 1 1201 1201 CIT CIT . 
K 5 RVH B 1 1101 1101 RVH 919 . 
L 4 CIT C 1 301 301 CIT CIT . 
M 4 CIT D 1 1201 1201 CIT CIT . 
N 5 RVH E 1 1101 1101 RVH 919 . 
O 4 CIT F 1 301 301 CIT CIT . 
P 4 CIT F 1 302 302 CIT CIT . 
Q 4 CIT G 1 1201 1201 CIT CIT . 
R 5 RVH H 1 1101 1101 RVH 919 . 
S 4 CIT H 1 1102 1102 CIT CIT . 
T 4 CIT I 1 301 301 CIT CIT . 
U 4 CIT I 1 302 302 CIT CIT . 
#
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 RVH . . . K 5 -61.493 25.225 -9.914 1 95.37 ? C1 RVH 1101 B 1 
HETATM 2 C C2 RVH . . . K 5 -61.417 25.309 -8.542 1 94.14 ? C2 RVH 1101 B 1 
HETATM 3 C C3 RVH . . . K 5 -62.407 24.669 -7.818 1 93.98 ? C3 RVH 1101 B 1 
HETATM 4 C C4 RVH . . . K 5 -63.445 23.966 -8.435 1 95.21 ? C4 RVH 1101 B 1 
HETATM 5 C C5 RVH . . . K 5 -63.507 23.897 -9.821 1 95.94 ? C5 RVH 1101 B 1 
HETATM 6 C C6 RVH . . . K 5 -62.523 24.528 -10.543 1 95.61 ? C6 RVH 1101 B 1 
HETATM 7 C C9 RVH . . . K 5 -64.723 23.27 -2.751 1 101.52 ? C9 RVH 1101 B 1 
HETATM 8 C C13 RVH . . . K 5 -65.387 24.762 -0.921 1 104.53 ? C13 RVH 1101 B 1 
HETATM 9 C C14 RVH . . . K 5 -62.721 25.012 1.539 1 109.4 ? C14 RVH 1101 B 1 
HETATM 10 C C10 RVH . . . K 5 -63.273 23.743 -0.67 1 108.18 ? C10 RVH 1101 B 1 
HETATM 11 C C11 RVH . . . K 5 -63.522 24.694 0.458 1 108.05 ? C11 RVH 1101 B 1 
HETATM 12 C C12 RVH . . . K 5 -64.755 25.29 0.301 1 106.6 ? C12 RVH 1101 B 1 
HETATM 13 C C15 RVH . . . K 5 -63.204 25.938 2.44 1 109.1 ? C15 RVH 1101 B 1 
HETATM 14 C C16 RVH . . . K 5 -64.442 26.532 2.276 1 107.37 ? C16 RVH 1101 B 1 
HETATM 15 C C17 RVH . . . K 5 -65.241 26.219 1.201 1 105.65 ? C17 RVH 1101 B 1 
HETATM 16 C C18 RVH . . . K 5 -64.338 21.792 -2.677 1 104.14 ? C18 RVH 1101 B 1 
HETATM 17 C C7 RVH . . . K 5 -63.787 23.825 -6.334 1 95.72 ? C7 RVH 1101 B 1 
HETATM 18 C C8 RVH . . . K 5 -64 23.938 -3.915 1 99.65 ? C8 RVH 1101 B 1 
HETATM 19 N N1 RVH . . . K 5 -64.3 23.431 -7.477 1 95.86 ? N1 RVH 1101 B 1 
HETATM 20 N N2 RVH . . . K 5 -62.642 24.542 -6.463 1 94.59 ? N2 RVH 1101 B 1 
HETATM 21 N N3 RVH . . . K 5 -64.342 23.445 -5.139 1 97.4 ? N3 RVH 1101 B 1 
HETATM 22 N N4 RVH . . . K 5 -64.476 23.936 -1.483 1 104.59 ? N4 RVH 1101 B 1 
HETATM 23 O O1 RVH . . . K 5 -66.512 24.993 -1.378 1 102.12 ? O1 RVH 1101 B 1 
HETATM 24 O O2 RVH . . . K 5 -63.154 24.811 -3.714 1 101.41 ? O2 RVH 1101 B 1 
HETATM 25 H H1 RVH . . . K 5 -60.835 25.648 -10.437 0 114.44 ? H1 RVH 1101 B 1 
HETATM 26 H H2 RVH . . . K 5 -60.726 25.778 -8.119 0 112.97 ? H2 RVH 1101 B 1 
HETATM 27 H H3 RVH . . . K 5 -64.203 23.432 -10.249 0 115.12 ? H3 RVH 1101 B 1 
HETATM 28 H H4 RVH . . . K 5 -62.545 24.489 -11.481 0 114.73 ? H4 RVH 1101 B 1 
HETATM 29 H H7 RVH . . . K 5 -65.689 23.341 -2.924 0 121.83 ? H7 RVH 1101 B 1 
HETATM 30 H H10 RVH . . . K 5 -61.881 24.612 1.656 0 131.28 ? H10 RVH 1101 B 1 
HETATM 31 H H8 RVH . . . K 5 -63.195 22.817 -0.352 0 129.81 ? H8 RVH 1101 B 1 
HETATM 32 H H9 RVH . . . K 5 -62.458 23.977 -1.166 0 129.81 ? H9 RVH 1101 B 1 
HETATM 33 H H11 RVH . . . K 5 -62.677 26.172 3.188 0 130.93 ? H11 RVH 1101 B 1 
HETATM 34 H H12 RVH . . . K 5 -64.742 27.163 2.911 0 128.84 ? H12 RVH 1101 B 1 
HETATM 35 H H13 RVH . . . K 5 -66.082 26.621 1.086 0 126.79 ? H13 RVH 1101 B 1 
HETATM 36 H H16 RVH . . . K 5 -64.778 21.379 -1.912 0 124.97 ? H16 RVH 1101 B 1 
HETATM 37 H H15 RVH . . . K 5 -64.617 21.342 -3.494 0 124.97 ? H15 RVH 1101 B 1 
HETATM 38 H H14 RVH . . . K 5 -63.372 21.713 -2.577 0 124.97 ? H14 RVH 1101 B 1 
HETATM 39 H H5 RVH . . . K 5 -62.166 24.853 -5.795 0 113.5 ? H5 RVH 1101 B 1 
HETATM 40 H H6 RVH . . . K 5 -64.971 22.832 -5.171 0 116.88 ? H6 RVH 1101 B 1 
#
_model_server_stats.io_time_ms              332 
_model_server_stats.parse_time_ms           29 
_model_server_stats.create_model_time_ms    284 
_model_server_stats.query_time_ms           343 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           40 
#