data_8BUA
#
_model_server_result.job_id            RrgKemIq9wIkouAVb2o4ug 
_model_server_result.datetime_utc      '2024-11-08 11:45:45' 
_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":"N","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 . . . N 5 -118.099 54.231 -47.075 1 93.72 ? C1 RVH 1101 E 1 
HETATM 2 C C2 RVH . . . N 5 -117.199 55.272 -47.093 1 92.18 ? C2 RVH 1101 E 1 
HETATM 3 C C3 RVH . . . N 5 -115.879 54.958 -46.833 1 92.71 ? C3 RVH 1101 E 1 
HETATM 4 C C4 RVH . . . N 5 -115.461 53.652 -46.574 1 93.65 ? C4 RVH 1101 E 1 
HETATM 5 C C5 RVH . . . N 5 -116.383 52.614 -46.569 1 94.1 ? C5 RVH 1101 E 1 
HETATM 6 C C6 RVH . . . N 5 -117.697 52.921 -46.819 1 93.8 ? C6 RVH 1101 E 1 
HETATM 7 C C9 RVH . . . N 5 -110.447 56.699 -46.167 1 100.27 ? C9 RVH 1101 E 1 
HETATM 8 C C13 RVH . . . N 5 -109.534 58.315 -44.562 1 102.12 ? C13 RVH 1101 E 1 
HETATM 9 C C14 RVH . . . N 5 -109.503 61.647 -46.033 1 102.5 ? C14 RVH 1101 E 1 
HETATM 10 C C10 RVH . . . N 5 -110.051 59.189 -46.695 1 103.09 ? C10 RVH 1101 E 1 
HETATM 11 C C11 RVH . . . N 5 -109.618 60.293 -45.783 1 102.36 ? C11 RVH 1101 E 1 
HETATM 12 C C12 RVH . . . N 5 -109.319 59.778 -44.538 1 102.81 ? C12 RVH 1101 E 1 
HETATM 13 C C15 RVH . . . N 5 -109.078 62.452 -44.997 1 102.11 ? C15 RVH 1101 E 1 
HETATM 14 C C16 RVH . . . N 5 -108.778 61.931 -43.75 1 107.62 ? C16 RVH 1101 E 1 
HETATM 15 C C17 RVH . . . N 5 -108.894 60.583 -43.498 1 101.96 ? C17 RVH 1101 E 1 
HETATM 16 C C18 RVH . . . N 5 -109.911 56.347 -47.557 1 101.33 ? C18 RVH 1101 E 1 
HETATM 17 C C7 RVH . . . N 5 -113.722 54.88 -46.428 1 95.11 ? C7 RVH 1101 E 1 
HETATM 18 C C8 RVH . . . N 5 -111.963 56.533 -46.143 1 98.49 ? C8 RVH 1101 E 1 
HETATM 19 N N1 RVH . . . N 5 -114.088 53.62 -46.358 1 95.29 ? N1 RVH 1101 E 1 
HETATM 20 N N2 RVH . . . N 5 -114.731 55.724 -46.765 1 93.47 ? N2 RVH 1101 E 1 
HETATM 21 N N3 RVH . . . N 5 -112.405 55.252 -46.316 1 97.05 ? N3 RVH 1101 E 1 
HETATM 22 N N4 RVH . . . N 5 -110.035 58.038 -45.788 1 101.75 ? N4 RVH 1101 E 1 
HETATM 23 O O1 RVH . . . N 5 -109.323 57.482 -43.67 1 101.11 ? O1 RVH 1101 E 1 
HETATM 24 O O2 RVH . . . N 5 -112.7 57.514 -46.03 1 99.65 ? O2 RVH 1101 E 1 
HETATM 25 H H1 RVH . . . N 5 -119.008 54.408 -47.241 0 112.47 ? H1 RVH 1101 E 1 
HETATM 26 H H2 RVH . . . N 5 -117.47 56.15 -47.272 0 110.62 ? H2 RVH 1101 E 1 
HETATM 27 H H3 RVH . . . N 5 -116.112 51.73 -46.399 0 112.92 ? H3 RVH 1101 E 1 
HETATM 28 H H4 RVH . . . N 5 -118.338 52.234 -46.817 0 112.56 ? H4 RVH 1101 E 1 
HETATM 29 H H7 RVH . . . N 5 -110.068 56.077 -45.505 0 120.32 ? H7 RVH 1101 E 1 
HETATM 30 H H10 RVH . . . N 5 -109.706 62.006 -46.875 0 123 ? H10 RVH 1101 E 1 
HETATM 31 H H8 RVH . . . N 5 -110.948 59.352 -47.059 0 123.7 ? H8 RVH 1101 E 1 
HETATM 32 H H9 RVH . . . N 5 -109.423 59.071 -47.442 0 123.7 ? H9 RVH 1101 E 1 
HETATM 33 H H11 RVH . . . N 5 -108.989 63.381 -45.141 0 122.53 ? H11 RVH 1101 E 1 
HETATM 34 H H12 RVH . . . N 5 -108.489 62.51 -43.062 0 129.14 ? H12 RVH 1101 E 1 
HETATM 35 H H13 RVH . . . N 5 -108.691 60.226 -42.652 0 122.35 ? H13 RVH 1101 E 1 
HETATM 36 H H16 RVH . . . N 5 -108.948 56.493 -47.581 0 121.6 ? H16 RVH 1101 E 1 
HETATM 37 H H15 RVH . . . N 5 -110.342 56.911 -48.224 0 121.6 ? H15 RVH 1101 E 1 
HETATM 38 H H14 RVH . . . N 5 -110.102 55.412 -47.751 0 121.6 ? H14 RVH 1101 E 1 
HETATM 39 H H5 RVH . . . N 5 -114.641 56.585 -46.905 0 112.17 ? H5 RVH 1101 E 1 
HETATM 40 H H6 RVH . . . N 5 -111.804 54.613 -46.359 0 116.46 ? H6 RVH 1101 E 1 
#
_model_server_stats.io_time_ms              137 
_model_server_stats.parse_time_ms           44 
_model_server_stats.create_model_time_ms    391 
_model_server_stats.query_time_ms           339 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           40 
#