data_2DBE
#
_model_server_result.job_id            0K5XwnMBsBvMnVtQ6d0QZw 
_model_server_result.datetime_utc      '2024-11-29 12:51:30' 
_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          2dbe 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":25}' 
#
_entry.id    2DBE 
#
_exptl.entry_id    2DBE 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              281.316 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            BERENIL 
_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            2DBE 
_cell.length_a            24.51 
_cell.length_b            39.98 
_cell.length_c            66.23 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2DBE 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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                      2 
_struct_asym.id                             C 
_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
hydrog WATSON-CRICK hydrog1 A N3 DC 1 A DC 1 1_555 B N1 DG 12 B DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog2 A N4 DC 1 A DC 1 1_555 B O6 DG 12 B DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog3 A O2 DC 1 A DC 1 1_555 B N2 DG 12 B DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog4 A N1 DG 2 A DG 2 1_555 B N3 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog5 A N2 DG 2 A DG 2 1_555 B O2 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog6 A O6 DG 2 A DG 2 1_555 B N4 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog7 A N3 DC 3 A DC 3 1_555 B N1 DG 10 B DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog8 A N4 DC 3 A DC 3 1_555 B O6 DG 10 B DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog9 A O2 DC 3 A DC 3 1_555 B N2 DG 10 B DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog10 A N1 DG 4 A DG 4 1_555 B N3 DC 9 B DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog11 A N2 DG 4 A DG 4 1_555 B O2 DC 9 B DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog12 A O6 DG 4 A DG 4 1_555 B N4 DC 9 B DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog13 A N1 DA 5 A DA 5 1_555 B N3 DT 8 B DT 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog14 A N6 DA 5 A DA 5 1_555 B O4 DT 8 B DT 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog15 A N1 DA 6 A DA 6 1_555 B N3 DT 7 B DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog16 A N6 DA 6 A DA 6 1_555 B O4 DT 7 B DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog17 A N3 DT 7 A DT 7 1_555 B N1 DA 6 B DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog18 A O4 DT 7 A DT 7 1_555 B N6 DA 6 B DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog19 A N3 DT 8 A DT 8 1_555 B N1 DA 5 B DA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog20 A O4 DT 8 A DT 8 1_555 B N6 DA 5 B DA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog21 A N3 DC 9 A DC 9 1_555 B N1 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog22 A N4 DC 9 A DC 9 1_555 B O6 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog23 A O2 DC 9 A DC 9 1_555 B N2 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog24 A N1 DG 10 A DG 10 1_555 B N3 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog25 A N2 DG 10 A DG 10 1_555 B O2 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog26 A O6 DG 10 A DG 10 1_555 B N4 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog27 A N3 DC 11 A DC 11 1_555 B N1 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog28 A N4 DC 11 A DC 11 1_555 B O6 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog29 A O2 DC 11 A DC 11 1_555 B N2 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog30 A N1 DG 12 A DG 12 1_555 B N3 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog31 A N2 DG 12 A DG 12 1_555 B O2 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog32 A O6 DG 12 A DG 12 1_555 B N4 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
#
_chem_comp.formula           'C14 H15 N7' 
_chem_comp.formula_weight    281.316 
_chem_comp.id                BRN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              BERENIL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "DIMINAZINE ACETURATE;1,3-TRIS-(4'AMIDINOPHENYL)TRIAZINE" 
#
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 C2 BRN doub 1 n y 
C1 C6 BRN sing 2 n y 
C1 N1 BRN sing 3 n n 
C2 C3 BRN sing 4 n y 
C2 H2 BRN sing 5 n n 
C3 C4 BRN doub 6 n y 
C3 H3 BRN sing 7 n n 
C4 C5 BRN sing 8 n y 
C4 C7 BRN sing 9 n n 
C5 C6 BRN doub 10 n y 
C5 H5 BRN sing 11 n n 
C6 H6 BRN sing 12 n n 
C7 NA BRN doub 13 n n 
C7 NB BRN sing 14 n n 
NA HA BRN sing 15 n n 
NB HB1 BRN sing 16 n n 
NB HB2 BRN sing 17 n n 
N1 N BRN sing 18 n n 
N1 HN1 BRN sing 19 n n 
N N1' BRN doub 20 e n 
N1' C1' BRN sing 21 n n 
C1' C2' BRN doub 22 n y 
C1' C6' BRN sing 23 n y 
C2' C3' BRN sing 24 n y 
C2' H2' BRN sing 25 n n 
C3' C4' BRN doub 26 n y 
C3' H3' BRN sing 27 n n 
C4' C5' BRN sing 28 n y 
C4' C7' BRN sing 29 n n 
C5' C6' BRN doub 30 n y 
C5' H5' BRN sing 31 n n 
C6' H6' BRN sing 32 n n 
C7' NA' BRN doub 33 n n 
C7' NB' BRN sing 34 n n 
NA' HA' BRN sing 35 n n 
NB' "HB'1" BRN sing 36 n n 
NB' "HB'2" BRN sing 37 n n 
#
_atom_sites.entry_id                     2DBE 
_atom_sites.fract_transf_matrix[1][1]    0.0408 
_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]    0.025013 
_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]    0.015099 
_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
C 2 BRN A 1 25 25 BRN BRN . 
D 3 HOH A 1 26 26 HOH HOH . 
D 3 HOH A 2 28 28 HOH HOH . 
D 3 HOH A 3 29 29 HOH HOH . 
D 3 HOH A 4 36 36 HOH HOH . 
D 3 HOH A 5 43 43 HOH HOH . 
D 3 HOH A 6 44 44 HOH HOH . 
D 3 HOH A 7 47 47 HOH HOH . 
D 3 HOH A 8 49 49 HOH HOH . 
D 3 HOH A 9 50 50 HOH HOH . 
D 3 HOH A 10 51 51 HOH HOH . 
D 3 HOH A 11 52 52 HOH HOH . 
D 3 HOH A 12 53 53 HOH HOH . 
D 3 HOH A 13 56 56 HOH HOH . 
D 3 HOH A 14 57 57 HOH HOH . 
D 3 HOH A 15 58 58 HOH HOH . 
D 3 HOH A 16 59 59 HOH HOH . 
D 3 HOH A 17 60 60 HOH HOH . 
D 3 HOH A 18 61 61 HOH HOH . 
D 3 HOH A 19 63 63 HOH HOH . 
D 3 HOH A 20 65 65 HOH HOH . 
D 3 HOH A 21 66 66 HOH HOH . 
D 3 HOH A 22 67 67 HOH HOH . 
D 3 HOH A 23 68 68 HOH HOH . 
D 3 HOH A 24 69 69 HOH HOH . 
D 3 HOH A 25 70 70 HOH HOH . 
D 3 HOH A 26 71 71 HOH HOH . 
D 3 HOH A 27 72 72 HOH HOH . 
D 3 HOH A 28 73 73 HOH HOH . 
E 3 HOH B 1 27 27 HOH HOH . 
E 3 HOH B 2 30 30 HOH HOH . 
E 3 HOH B 3 31 31 HOH HOH . 
E 3 HOH B 4 32 32 HOH HOH . 
E 3 HOH B 5 33 33 HOH HOH . 
E 3 HOH B 6 34 34 HOH HOH . 
E 3 HOH B 7 35 35 HOH HOH . 
E 3 HOH B 8 37 37 HOH HOH . 
E 3 HOH B 9 38 38 HOH HOH . 
E 3 HOH B 10 39 39 HOH HOH . 
E 3 HOH B 11 40 40 HOH HOH . 
E 3 HOH B 12 41 41 HOH HOH . 
E 3 HOH B 13 42 42 HOH HOH . 
E 3 HOH B 14 45 45 HOH HOH . 
E 3 HOH B 15 46 46 HOH HOH . 
E 3 HOH B 16 48 48 HOH HOH . 
E 3 HOH B 17 54 54 HOH HOH . 
E 3 HOH B 18 55 55 HOH HOH . 
E 3 HOH B 19 62 62 HOH HOH . 
E 3 HOH B 20 64 64 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 BRN . . . C 2 7.99 23.656 7.378 1 34.59 ? C1 BRN 25 A 1 
HETATM 2 C C2 BRN . . . C 2 7.547 24.644 6.504 1 34.28 ? C2 BRN 25 A 1 
HETATM 3 C C3 BRN . . . C 2 8.343 25.039 5.464 1 35.9 ? C3 BRN 25 A 1 
HETATM 4 C C4 BRN . . . C 2 9.591 24.476 5.245 1 36.49 ? C4 BRN 25 A 1 
HETATM 5 C C5 BRN . . . C 2 9.993 23.48 6.14 1 32.87 ? C5 BRN 25 A 1 
HETATM 6 C C6 BRN . . . C 2 9.228 23.068 7.193 1 33.74 ? C6 BRN 25 A 1 
HETATM 7 C C7 BRN . . . C 2 10.4 24.868 4.206 1 36.14 ? C7 BRN 25 A 1 
HETATM 8 N NA BRN . . . C 2 11.664 24.312 4.093 1 36.42 ? NA BRN 25 A 1 
HETATM 9 N NB BRN . . . C 2 10.159 26.095 3.61 1 38.17 ? NB BRN 25 A 1 
HETATM 10 N N1 BRN . . . C 2 7.145 23.268 8.431 1 37.19 ? N1 BRN 25 A 1 
HETATM 11 N N BRN . . . C 2 7.495 22.237 9.226 1 34.84 ? N BRN 25 A 1 
HETATM 12 N N1' BRN . . . C 2 6.711 22.101 10.206 1 34.97 ? N1' BRN 25 A 1 
HETATM 13 C C1' BRN . . . C 2 7.282 21.213 11.193 1 34.7 ? C1' BRN 25 A 1 
HETATM 14 C C2' BRN . . . C 2 8.603 20.818 11.233 1 35.85 ? C2' BRN 25 A 1 
HETATM 15 C C3' BRN . . . C 2 9.034 19.974 12.219 1 36.42 ? C3' BRN 25 A 1 
HETATM 16 C C4' BRN . . . C 2 8.14 19.502 13.186 1 36.55 ? C4' BRN 25 A 1 
HETATM 17 C C5' BRN . . . C 2 6.821 19.894 13.14 1 36.08 ? C5' BRN 25 A 1 
HETATM 18 C C6' BRN . . . C 2 6.39 20.758 12.133 1 35.06 ? C6' BRN 25 A 1 
HETATM 19 C C7' BRN . . . C 2 8.576 18.651 14.167 1 36.36 ? C7' BRN 25 A 1 
HETATM 20 N NA' BRN . . . C 2 9.922 18.599 14.471 1 35.84 ? NA' BRN 25 A 1 
HETATM 21 N NB' BRN . . . C 2 7.654 17.879 14.849 1 38.51 ? NB' BRN 25 A 1 
#
_model_server_stats.io_time_ms              132 
_model_server_stats.parse_time_ms           71 
_model_server_stats.create_model_time_ms    19 
_model_server_stats.query_time_ms           293 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           21 
#