data_4BDA
#
_model_server_result.job_id            8QQHJh5xyKWVs5ZgmHFFlQ 
_model_server_result.datetime_utc      '2024-11-27 00:20:12' 
_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          4bda 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1515}' 
#
_entry.id    4BDA 
#
_exptl.entry_id    4BDA 
_exptl.method      'X-RAY DIFFRACTION' 
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_entity.details                     ? 
_entity.formula_weight              159.168 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            3,4-dihydro[1,2,4]triazolo[1,5-a][3,1]benzimidazol-9-ium 
_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            4BDA 
_cell.length_a            91.13 
_cell.length_b            91.13 
_cell.length_c            93.11 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4BDA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L 
_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                      4 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C8 H7 N4 1' 
_chem_comp.formula_weight    159.168 
_chem_comp.id                VFB 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              3,4-dihydro[1,2,4]triazolo[1,5-a][3,1]benzimidazol-9-ium 
_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
N1 CAD VFB sing 388 n y 
N1 CAG VFB sing 389 n y 
CAB CAD VFB doub 390 n y 
CAB CAJ VFB sing 391 n y 
CAC CAE VFB sing 392 n y 
CAC CAJ VFB doub 393 n y 
CAD CAK VFB sing 394 n y 
CAE CAK VFB doub 395 n y 
CAF NAH VFB sing 396 n y 
CAF NAI VFB doub 397 n y 
CAG NAH VFB sing 398 n y 
CAG NAL VFB doub 399 n y 
NAI NAL VFB sing 400 n y 
CAK NAL VFB sing 401 n y 
N1 HN1 VFB sing 402 n n 
CAB HAB VFB sing 403 n n 
CAC HAC VFB sing 404 n n 
CAE HAE VFB sing 405 n n 
CAF HAF VFB sing 406 n n 
NAH HNAH VFB sing 407 n n 
CAJ HAJ VFB sing 408 n n 
#
_atom_sites.entry_id                     4BDA 
_atom_sites.fract_transf_matrix[1][1]    0.010973 
_atom_sites.fract_transf_matrix[1][2]    0.006335 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012671 
_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]    0.01074 
_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 NO3 A 1 1513 1513 NO3 NO3 . 
C 3 EDO A 1 1514 1514 EDO EDO . 
D 4 VFB A 1 1515 1515 VFB VFB . 
E 5 CL A 1 1516 1516 CL CL . 
F 3 EDO A 1 1517 1517 EDO EDO . 
G 3 EDO A 1 1518 1518 EDO EDO . 
H 3 EDO A 1 1519 1519 EDO EDO . 
I 3 EDO A 1 1520 1520 EDO EDO . 
J 3 EDO A 1 1521 1521 EDO EDO . 
K 3 EDO A 1 1522 1522 EDO EDO . 
L 6 HOH A 1 2001 2001 HOH HOH . 
L 6 HOH A 2 2002 2002 HOH HOH . 
L 6 HOH A 3 2003 2003 HOH HOH . 
L 6 HOH A 4 2004 2004 HOH HOH . 
L 6 HOH A 5 2005 2005 HOH HOH . 
L 6 HOH A 6 2006 2006 HOH HOH . 
L 6 HOH A 7 2007 2007 HOH HOH . 
L 6 HOH A 8 2008 2008 HOH HOH . 
L 6 HOH A 9 2009 2009 HOH HOH . 
L 6 HOH A 10 2010 2010 HOH HOH . 
L 6 HOH A 11 2011 2011 HOH HOH . 
L 6 HOH A 12 2012 2012 HOH HOH . 
L 6 HOH A 13 2013 2013 HOH HOH . 
L 6 HOH A 14 2014 2014 HOH HOH . 
L 6 HOH A 15 2015 2015 HOH HOH . 
L 6 HOH A 16 2016 2016 HOH HOH . 
L 6 HOH A 17 2017 2017 HOH HOH . 
L 6 HOH A 18 2018 2018 HOH HOH . 
L 6 HOH A 19 2019 2019 HOH HOH . 
L 6 HOH A 20 2020 2020 HOH HOH . 
L 6 HOH A 21 2021 2021 HOH HOH . 
L 6 HOH A 22 2022 2022 HOH HOH . 
L 6 HOH A 23 2023 2023 HOH HOH . 
L 6 HOH A 24 2024 2024 HOH HOH . 
L 6 HOH A 25 2025 2025 HOH HOH . 
L 6 HOH A 26 2026 2026 HOH HOH . 
L 6 HOH A 27 2027 2027 HOH HOH . 
L 6 HOH A 28 2028 2028 HOH HOH . 
L 6 HOH A 29 2029 2029 HOH HOH . 
L 6 HOH A 30 2030 2030 HOH HOH . 
L 6 HOH A 31 2031 2031 HOH HOH . 
L 6 HOH A 32 2032 2032 HOH HOH . 
L 6 HOH A 33 2033 2033 HOH HOH . 
L 6 HOH A 34 2034 2034 HOH HOH . 
L 6 HOH A 35 2035 2035 HOH HOH . 
L 6 HOH A 36 2036 2036 HOH HOH . 
L 6 HOH A 37 2037 2037 HOH HOH . 
L 6 HOH A 38 2038 2038 HOH HOH . 
L 6 HOH A 39 2039 2039 HOH HOH . 
L 6 HOH A 40 2040 2040 HOH HOH . 
L 6 HOH A 41 2041 2041 HOH HOH . 
L 6 HOH A 42 2042 2042 HOH HOH . 
L 6 HOH A 43 2043 2043 HOH HOH . 
L 6 HOH A 44 2044 2044 HOH HOH . 
L 6 HOH A 45 2045 2045 HOH HOH . 
L 6 HOH A 46 2046 2046 HOH HOH . 
L 6 HOH A 47 2047 2047 HOH HOH . 
L 6 HOH A 48 2048 2048 HOH HOH . 
L 6 HOH A 49 2049 2049 HOH HOH . 
L 6 HOH A 50 2050 2050 HOH HOH . 
L 6 HOH A 51 2051 2051 HOH HOH . 
L 6 HOH A 52 2052 2052 HOH HOH . 
L 6 HOH A 53 2053 2053 HOH HOH . 
L 6 HOH A 54 2054 2054 HOH HOH . 
L 6 HOH A 55 2055 2055 HOH HOH . 
L 6 HOH A 56 2056 2056 HOH HOH . 
L 6 HOH A 57 2057 2057 HOH HOH . 
L 6 HOH A 58 2058 2058 HOH HOH . 
L 6 HOH A 59 2059 2059 HOH HOH . 
L 6 HOH A 60 2060 2060 HOH HOH . 
L 6 HOH A 61 2061 2061 HOH HOH . 
L 6 HOH A 62 2062 2062 HOH HOH . 
L 6 HOH A 63 2063 2063 HOH HOH . 
L 6 HOH A 64 2064 2064 HOH HOH . 
L 6 HOH A 65 2065 2065 HOH HOH . 
L 6 HOH A 66 2066 2066 HOH HOH . 
L 6 HOH A 67 2067 2067 HOH HOH . 
L 6 HOH A 68 2068 2068 HOH HOH . 
L 6 HOH A 69 2069 2069 HOH HOH . 
L 6 HOH A 70 2070 2070 HOH HOH . 
L 6 HOH A 71 2071 2071 HOH HOH . 
L 6 HOH A 72 2072 2072 HOH HOH . 
L 6 HOH A 73 2073 2073 HOH HOH . 
L 6 HOH A 74 2074 2074 HOH HOH . 
L 6 HOH A 75 2075 2075 HOH HOH . 
L 6 HOH A 76 2076 2076 HOH HOH . 
L 6 HOH A 77 2077 2077 HOH HOH . 
L 6 HOH A 78 2078 2078 HOH HOH . 
L 6 HOH A 79 2079 2079 HOH HOH . 
L 6 HOH A 80 2080 2080 HOH HOH . 
L 6 HOH A 81 2081 2081 HOH HOH . 
L 6 HOH A 82 2082 2082 HOH HOH . 
L 6 HOH A 83 2083 2083 HOH HOH . 
L 6 HOH A 84 2084 2084 HOH HOH . 
L 6 HOH A 85 2085 2085 HOH HOH . 
L 6 HOH A 86 2086 2086 HOH HOH . 
L 6 HOH A 87 2087 2087 HOH HOH . 
L 6 HOH A 88 2088 2088 HOH HOH . 
L 6 HOH A 89 2089 2089 HOH HOH . 
L 6 HOH A 90 2090 2090 HOH HOH . 
L 6 HOH A 91 2091 2091 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 N N1 VFB . . . D 4 -38.05 33.892 5.334 1 52.97 ? N1 VFB 1515 A 1 
HETATM 2 C CAB VFB . . . D 4 -39.303 31.698 5.499 1 54.21 ? CAB VFB 1515 A 1 
HETATM 3 C CAC VFB . . . D 4 -39.153 30.697 7.698 1 54.97 ? CAC VFB 1515 A 1 
HETATM 4 C CAD VFB . . . D 4 -38.554 32.773 5.975 1 52.46 ? CAD VFB 1515 A 1 
HETATM 5 C CAE VFB . . . D 4 -38.416 31.778 8.178 1 53.95 ? CAE VFB 1515 A 1 
HETATM 6 C CAF VFB . . . D 4 -36.164 35.664 7.614 1 51 ? CAF VFB 1515 A 1 
HETATM 7 C CAG VFB . . . D 4 -37.296 34.609 6.199 1 49.9 ? CAG VFB 1515 A 1 
HETATM 8 N NAH VFB . . . D 4 -36.545 35.693 6.309 1 49.06 ? NAH VFB 1515 A 1 
HETATM 9 N NAI VFB . . . D 4 -36.598 34.655 8.334 1 52.23 ? NAI VFB 1515 A 1 
HETATM 10 C CAJ VFB . . . D 4 -39.586 30.656 6.373 1 53.9 ? CAJ VFB 1515 A 1 
HETATM 11 C CAK VFB . . . D 4 -38.111 32.807 7.297 1 50.57 ? CAK VFB 1515 A 1 
HETATM 12 N NAL VFB . . . D 4 -37.343 33.944 7.419 1 50.58 ? NAL VFB 1515 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           524 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           12 
#