data_6RSR
#
_model_server_result.job_id            Zo1bDm_XhIlIEnrJRfFT5g 
_model_server_result.datetime_utc      '2025-04-24 16:07:25' 
_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          6rsr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":900}' 
#
_entry.id    6RSR 
#
_exptl.entry_id    6RSR 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              513.515 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            ~{N}-(cyclopropen-1-ylmethyl)-2-[[4-[[4-[3,3,3-tris(fluoranyl)propanoyl]piperazin-1-yl]methyl]pyridin-2-yl]amino]-1~{H}-benzimidazole-5-carboxamide 
_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            6RSR 
_cell.length_a            136.196 
_cell.length_b            136.196 
_cell.length_c            86.618 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6RSR 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B 1 1 
A,B 1 2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C25 H26 F3 N7 O2' 
_chem_comp.formula_weight    513.515 
_chem_comp.id                KHT 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              ~{N}-(cyclopropen-1-ylmethyl)-2-[[4-[[4-[3,3,3-tris(fluoranyl)propanoyl]piperazin-1-yl]methyl]pyridin-2-yl]amino]-1~{H}-benzimidazole-5-carboxamide 
_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 C3 KHT sing 171 n n 
C1 C2 KHT sing 172 n n 
C3 C2 KHT doub 173 n n 
C2 C4 KHT sing 174 n n 
C4 N1 KHT sing 175 n n 
N1 C5 KHT sing 176 n n 
C11 C10 KHT doub 177 n y 
C11 C6 KHT sing 178 n y 
C10 C9 KHT sing 179 n y 
C5 C6 KHT sing 180 n n 
C5 O1 KHT doub 181 n n 
C6 C7 KHT doub 182 n y 
C9 N2 KHT sing 183 n y 
C9 C8 KHT doub 184 n y 
N2 C12 KHT sing 185 n y 
C7 C8 KHT sing 186 n y 
C8 N3 KHT sing 187 n y 
C12 N3 KHT doub 188 n y 
C12 N4 KHT sing 189 n n 
N4 C13 KHT sing 190 n n 
C13 N5 KHT doub 191 n y 
C13 C17 KHT sing 192 n y 
N5 C14 KHT sing 193 n y 
C17 C16 KHT doub 194 n y 
C14 C15 KHT doub 195 n y 
O2 C23 KHT doub 196 n n 
C19 C20 KHT sing 197 n n 
C19 N6 KHT sing 198 n n 
C16 C15 KHT sing 199 n y 
C16 C18 KHT sing 200 n n 
C20 N7 KHT sing 201 n n 
F2 C25 KHT sing 202 n n 
C18 N6 KHT sing 203 n n 
C23 N7 KHT sing 204 n n 
C23 C24 KHT sing 205 n n 
N6 C22 KHT sing 206 n n 
N7 C21 KHT sing 207 n n 
C25 F3 KHT sing 208 n n 
C25 C24 KHT sing 209 n n 
C25 F1 KHT sing 210 n n 
C22 C21 KHT sing 211 n n 
C1 H1 KHT sing 212 n n 
C1 H11 KHT sing 213 n n 
C10 H101 KHT sing 214 n n 
C11 H111 KHT sing 215 n n 
C14 H141 KHT sing 216 n n 
C15 H151 KHT sing 217 n n 
C17 H171 KHT sing 218 n n 
C18 H181 KHT sing 219 n n 
C18 H182 KHT sing 220 n n 
C19 H192 KHT sing 221 n n 
C19 H191 KHT sing 222 n n 
C20 H201 KHT sing 223 n n 
C20 H202 KHT sing 224 n n 
C21 H212 KHT sing 225 n n 
C21 H211 KHT sing 226 n n 
C22 H222 KHT sing 227 n n 
C22 H221 KHT sing 228 n n 
C24 H241 KHT sing 229 n n 
C24 H242 KHT sing 230 n n 
C3 H31 KHT sing 231 n n 
C4 H42 KHT sing 232 n n 
C4 H41 KHT sing 233 n n 
C7 H71 KHT sing 234 n n 
N1 H12 KHT sing 235 n n 
N2 H2 KHT sing 236 n n 
N4 H43 KHT sing 237 n n 
#
_atom_sites.entry_id                     6RSR 
_atom_sites.fract_transf_matrix[1][1]    0.007342 
_atom_sites.fract_transf_matrix[1][2]    0.004239 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008478 
_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]    0.011545 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
_pdbx_nonpoly_scheme.asym_id          B 
_pdbx_nonpoly_scheme.entity_id        2 
_pdbx_nonpoly_scheme.mon_id           KHT 
_pdbx_nonpoly_scheme.pdb_strand_id    A 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      900 
_pdbx_nonpoly_scheme.auth_seq_num     900 
_pdbx_nonpoly_scheme.pdb_mon_id       KHT 
_pdbx_nonpoly_scheme.auth_mon_id      B5 
_pdbx_nonpoly_scheme.pdb_ins_code     . 
#
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 KHT . . . B 2 2.977 -33.084 -21.005 1 122.67 ? C1 KHT 900 A 1 
HETATM 2 C C10 KHT . . . B 2 -2.001 -30.965 -17.333 1 87.26 ? C10 KHT 900 A 1 
HETATM 3 C C11 KHT . . . B 2 -0.635 -31.208 -17.588 1 88.66 ? C11 KHT 900 A 1 
HETATM 4 C C12 KHT . . . B 2 -3.501 -30.101 -14.169 1 85.09 ? C12 KHT 900 A 1 
HETATM 5 C C13 KHT . . . B 2 -4.315 -29.682 -11.841 1 94.55 ? C13 KHT 900 A 1 
HETATM 6 C C14 KHT . . . B 2 -2.861 -29.853 -10.043 1 95.92 ? C14 KHT 900 A 1 
HETATM 7 C C15 KHT . . . B 2 -3.862 -29.527 -9.148 1 98.91 ? C15 KHT 900 A 1 
HETATM 8 C C16 KHT . . . B 2 -5.183 -29.26 -9.62 1 98.17 ? C16 KHT 900 A 1 
HETATM 9 C C17 KHT . . . B 2 -5.381 -29.356 -11.023 1 93.5 ? C17 KHT 900 A 1 
HETATM 10 C C18 KHT . . . B 2 -6.326 -28.897 -8.649 1 101.2 ? C18 KHT 900 A 1 
HETATM 11 C C19 KHT . . . B 2 -7.066 -27.091 -9.692 1 120.27 ? C19 KHT 900 A 1 
HETATM 12 C C2 KHT . . . B 2 3.624 -32.578 -19.878 1 127.29 ? C2 KHT 900 A 1 
HETATM 13 C C20 KHT . . . B 2 -7.669 -25.715 -9.445 1 112.55 ? C20 KHT 900 A 1 
HETATM 14 C C21 KHT . . . B 2 -7.246 -25.724 -7.233 1 112.95 ? C21 KHT 900 A 1 
HETATM 15 C C22 KHT . . . B 2 -7.058 -27.241 -7.35 1 117.08 ? C22 KHT 900 A 1 
HETATM 16 C C23 KHT . . . B 2 -6.221 -23.887 -8.6 1 121.96 ? C23 KHT 900 A 1 
HETATM 17 C C24 KHT . . . B 2 -5.502 -23.168 -7.439 1 127.47 ? C24 KHT 900 A 1 
HETATM 18 C C25 KHT . . . B 2 -4.862 -21.815 -7.963 1 113.59 ? C25 KHT 900 A 1 
HETATM 19 C C3 KHT . . . B 2 4.367 -32.998 -20.978 1 133.57 ? C3 KHT 900 A 1 
HETATM 20 C C4 KHT . . . B 2 3.555 -31.984 -18.475 1 129.21 ? C4 KHT 900 A 1 
HETATM 21 C C5 KHT . . . B 2 1.772 -31.391 -16.829 1 112.01 ? C5 KHT 900 A 1 
HETATM 22 C C6 KHT . . . B 2 0.305 -31.123 -16.55 1 90.06 ? C6 KHT 900 A 1 
HETATM 23 C C7 KHT . . . B 2 -0.123 -30.797 -15.247 1 89.75 ? C7 KHT 900 A 1 
HETATM 24 C C8 KHT . . . B 2 -1.501 -30.551 -14.989 1 86.86 ? C8 KHT 900 A 1 
HETATM 25 C C9 KHT . . . B 2 -2.431 -30.632 -16.014 1 87.62 ? C9 KHT 900 A 1 
HETATM 26 F F1 KHT . . . B 2 -3.807 -21.479 -7.179 1 122.93 ? F1 KHT 900 A 1 
HETATM 27 F F2 KHT . . . B 2 -4.454 -21.975 -9.239 1 112.03 ? F2 KHT 900 A 1 
HETATM 28 F F3 KHT . . . B 2 -5.799 -20.826 -7.918 1 119.05 ? F3 KHT 900 A 1 
HETATM 29 N N1 KHT . . . B 2 2.172 -31.711 -18.154 1 121 ? N1 KHT 900 A 1 
HETATM 30 N N2 KHT . . . B 2 -3.662 -30.343 -15.459 1 84.56 ? N2 KHT 900 A 1 
HETATM 31 N N3 KHT . . . B 2 -2.203 -30.218 -13.865 1 87.05 ? N3 KHT 900 A 1 
HETATM 32 N N4 KHT . . . B 2 -4.539 -29.772 -13.275 1 86.38 ? N4 KHT 900 A 1 
HETATM 33 N N5 KHT . . . B 2 -3.1 -29.925 -11.351 1 90.93 ? N5 KHT 900 A 1 
HETATM 34 N N6 KHT . . . B 2 -6.47 -27.644 -8.56 1 123.61 ? N6 KHT 900 A 1 
HETATM 35 N N7 KHT . . . B 2 -7.038 -25.1 -8.41 1 113.72 ? N7 KHT 900 A 1 
HETATM 36 O O1 KHT . . . B 2 2.599 -31.34 -15.937 1 115.74 ? O1 KHT 900 A 1 
HETATM 37 O O2 KHT . . . B 2 -6.105 -23.426 -9.713 1 126.31 ? O2 KHT 900 A 1 
HETATM 38 H H11 KHT . . . B 2 2.143 -33.327 -21.478 1 148.96 ? H11 KHT 900 A 1 
HETATM 39 H H101 KHT . . . B 2 -2.655 -31.024 -18.063 1 106.47 ? H101 KHT 900 A 1 
HETATM 40 H H111 KHT . . . B 2 -0.336 -31.441 -18.51 1 108.14 ? H111 KHT 900 A 1 
HETATM 41 H H141 KHT . . . B 2 -1.957 -30.034 -9.709 1 116.87 ? H141 KHT 900 A 1 
HETATM 42 H H151 KHT . . . B 2 -3.665 -29.479 -8.185 1 120.45 ? H151 KHT 900 A 1 
HETATM 43 H H171 KHT . . . B 2 -6.262 -29.192 -11.406 1 113.95 ? H171 KHT 900 A 1 
HETATM 44 H H181 KHT . . . B 2 -6.118 -29.261 -7.758 1 123.2 ? H181 KHT 900 A 1 
HETATM 45 H H182 KHT . . . B 2 -7.164 -29.294 -8.978 1 123.2 ? H182 KHT 900 A 1 
HETATM 46 H H192 KHT . . . B 2 -6.384 -27.014 -10.401 1 146.08 ? H192 KHT 900 A 1 
HETATM 47 H H191 KHT . . . B 2 -7.781 -27.699 -9.999 1 146.08 ? H191 KHT 900 A 1 
HETATM 48 H H201 KHT . . . B 2 -8.621 -25.812 -9.234 1 136.82 ? H201 KHT 900 A 1 
HETATM 49 H H202 KHT . . . B 2 -7.575 -25.17 -10.254 1 136.82 ? H202 KHT 900 A 1 
HETATM 50 H H212 KHT . . . B 2 -8.132 -25.544 -6.942 1 137.3 ? H212 KHT 900 A 1 
HETATM 51 H H211 KHT . . . B 2 -6.634 -25.385 -6.591 1 137.3 ? H211 KHT 900 A 1 
HETATM 52 H H222 KHT . . . B 2 -6.494 -27.538 -6.618 1 142.26 ? H222 KHT 900 A 1 
HETATM 53 H H221 KHT . . . B 2 -7.928 -27.666 -7.272 1 142.26 ? H221 KHT 900 A 1 
HETATM 54 H H241 KHT . . . B 2 -4.773 -23.767 -7.069 1 154.71 ? H241 KHT 900 A 1 
HETATM 55 H H242 KHT . . . B 2 -6.167 -22.965 -6.701 1 154.71 ? H242 KHT 900 A 1 
HETATM 56 H H31 KHT . . . B 2 5.229 -33.132 -21.412 1 162.04 ? H31 KHT 900 A 1 
HETATM 57 H H42 KHT . . . B 2 4.074 -31.149 -18.442 1 156.81 ? H42 KHT 900 A 1 
HETATM 58 H H41 KHT . . . B 2 3.927 -32.623 -17.825 1 156.81 ? H41 KHT 900 A 1 
HETATM 59 H H71 KHT . . . B 2 0.532 -30.738 -14.512 1 109.46 ? H71 KHT 900 A 1 
HETATM 60 H H12 KHT . . . B 2 1.538 -31.745 -18.821 1 146.96 ? H12 KHT 900 A 1 
HETATM 61 H H43 KHT . . . B 2 -5.38 -29.61 -13.607 1 105.41 ? H43 KHT 900 A 1 
#
_model_server_stats.io_time_ms              23 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           240 
_model_server_stats.encode_time_ms          17 
_model_server_stats.element_count           61 
#