data_1RTF
#
_model_server_result.job_id            bmJTMum_45e5kVOVenaghg 
_model_server_result.datetime_utc      '2024-12-01 21:13:25' 
_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          1rtf 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":245}' 
#
_entry.id    1RTF 
#
_exptl.entry_id    1RTF 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              120.152 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            BENZAMIDINE 
_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            1RTF 
_cell.length_a            59.2 
_cell.length_b            59.2 
_cell.length_c            136.33 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1RTF 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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 
#
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 6 A CYS 1 1_555 B SG CYS 120 B CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf2 B SG CYS 32 B CYS 42 1_555 B SG CYS 48 B CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? 
disulf ? disulf3 B SG CYS 40 B CYS 50 1_555 B SG CYS 109 B CYS 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
disulf ? disulf4 B SG CYS 134 B CYS 136 1_555 B SG CYS 209 B CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? 
disulf ? disulf5 B SG CYS 166 B CYS 168 1_555 B SG CYS 182 B CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf6 B SG CYS 199 B CYS 191 1_555 B SG CYS 227 B CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
#
_chem_comp.formula           'C7 H8 N2' 
_chem_comp.formula_weight    120.152 
_chem_comp.id                BEN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              BENZAMIDINE 
_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
C1 C2 BEN doub 70 n y 
C1 C6 BEN sing 71 n y 
C1 C BEN sing 72 n n 
C2 C3 BEN sing 73 n y 
C2 H2 BEN sing 74 n n 
C3 C4 BEN doub 75 n y 
C3 H3 BEN sing 76 n n 
C4 C5 BEN sing 77 n y 
C4 H4 BEN sing 78 n n 
C5 C6 BEN doub 79 n y 
C5 H5 BEN sing 80 n n 
C6 H6 BEN sing 81 n n 
C N1 BEN doub 82 e n 
C N2 BEN sing 83 n n 
N1 HN1 BEN sing 84 n n 
N2 HN21 BEN sing 85 n n 
N2 HN22 BEN sing 86 n n 
#
_atom_sites.entry_id                     1RTF 
_atom_sites.fract_transf_matrix[1][1]    0.016892 
_atom_sites.fract_transf_matrix[1][2]    0.009753 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.019505 
_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]    0.007335 
_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 3 PO4 B 1 1 1 PO4 PO4 . 
D 4 BEN B 1 245 1 BEN BEN . 
E 5 HOH A 1 13 2 HOH HOH . 
E 5 HOH A 2 14 33 HOH HOH . 
E 5 HOH A 3 15 34 HOH HOH . 
E 5 HOH A 4 16 46 HOH HOH . 
F 5 HOH B 1 246 1 HOH HOH . 
F 5 HOH B 2 247 3 HOH HOH . 
F 5 HOH B 3 248 4 HOH HOH . 
F 5 HOH B 4 249 5 HOH HOH . 
F 5 HOH B 5 250 6 HOH HOH . 
F 5 HOH B 6 251 7 HOH HOH . 
F 5 HOH B 7 252 8 HOH HOH . 
F 5 HOH B 8 253 9 HOH HOH . 
F 5 HOH B 9 254 10 HOH HOH . 
F 5 HOH B 10 255 11 HOH HOH . 
F 5 HOH B 11 256 12 HOH HOH . 
F 5 HOH B 12 257 13 HOH HOH . 
F 5 HOH B 13 258 14 HOH HOH . 
F 5 HOH B 14 259 15 HOH HOH . 
F 5 HOH B 15 260 16 HOH HOH . 
F 5 HOH B 16 261 17 HOH HOH . 
F 5 HOH B 17 262 18 HOH HOH . 
F 5 HOH B 18 263 19 HOH HOH . 
F 5 HOH B 19 264 20 HOH HOH . 
F 5 HOH B 20 265 21 HOH HOH . 
F 5 HOH B 21 266 22 HOH HOH . 
F 5 HOH B 22 267 23 HOH HOH . 
F 5 HOH B 23 268 24 HOH HOH . 
F 5 HOH B 24 269 25 HOH HOH . 
F 5 HOH B 25 270 26 HOH HOH . 
F 5 HOH B 26 271 27 HOH HOH . 
F 5 HOH B 27 272 28 HOH HOH . 
F 5 HOH B 28 273 29 HOH HOH . 
F 5 HOH B 29 274 30 HOH HOH . 
F 5 HOH B 30 275 31 HOH HOH . 
F 5 HOH B 31 276 32 HOH HOH . 
F 5 HOH B 32 277 35 HOH HOH . 
F 5 HOH B 33 278 36 HOH HOH . 
F 5 HOH B 34 279 37 HOH HOH . 
F 5 HOH B 35 280 38 HOH HOH . 
F 5 HOH B 36 281 39 HOH HOH . 
F 5 HOH B 37 282 40 HOH HOH . 
F 5 HOH B 38 283 41 HOH HOH . 
F 5 HOH B 39 284 42 HOH HOH . 
F 5 HOH B 40 285 43 HOH HOH . 
F 5 HOH B 41 286 44 HOH HOH . 
F 5 HOH B 42 287 45 HOH HOH . 
F 5 HOH B 43 288 47 HOH HOH . 
F 5 HOH B 44 289 48 HOH HOH . 
F 5 HOH B 45 290 49 HOH HOH . 
F 5 HOH B 46 291 50 HOH HOH . 
F 5 HOH B 47 292 51 HOH HOH . 
F 5 HOH B 48 293 52 HOH HOH . 
F 5 HOH B 49 294 53 HOH HOH . 
F 5 HOH B 50 295 54 HOH HOH . 
F 5 HOH B 51 296 55 HOH HOH . 
F 5 HOH B 52 297 56 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 BEN . . . D 4 -6.921 31.206 33.893 1 23.35 ? C1 BEN 245 B 1 
HETATM 2 C C2 BEN . . . D 4 -8.189 30.836 34.344 1 23.15 ? C2 BEN 245 B 1 
HETATM 3 C C3 BEN . . . D 4 -8.335 29.863 35.342 1 20.74 ? C3 BEN 245 B 1 
HETATM 4 C C4 BEN . . . D 4 -7.206 29.254 35.893 1 19.45 ? C4 BEN 245 B 1 
HETATM 5 C C5 BEN . . . D 4 -5.932 29.618 35.445 1 20.83 ? C5 BEN 245 B 1 
HETATM 6 C C6 BEN . . . D 4 -5.794 30.589 34.45 1 20.99 ? C6 BEN 245 B 1 
HETATM 7 C C BEN . . . D 4 -6.767 32.249 32.859 1 24.3 ? C BEN 245 B 1 
HETATM 8 N N1 BEN . . . D 4 -5.57 32.641 32.497 1 24.56 ? N1 BEN 245 B 1 
HETATM 9 N N2 BEN . . . D 4 -7.824 32.785 32.299 1 24.58 ? N2 BEN 245 B 1 
HETATM 10 H HN1 BEN . . . D 4 -4.758 32.237 32.919 1 0 ? HN1 BEN 245 B 1 
HETATM 11 H HN21 BEN . . . D 4 -8.735 32.481 32.572 1 0 ? HN21 BEN 245 B 1 
HETATM 12 H HN22 BEN . . . D 4 -7.718 33.49 31.599 1 0 ? HN22 BEN 245 B 1 
HETATM 13 H HN12 BEN . . . D 4 -5.47 33.348 31.797 1 0 ? HN12 BEN 245 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           19 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           292 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           13 
#