data_6KK6 # _model_server_result.job_id LPeWd4tz8HIYZsWCRxzrzA _model_server_result.datetime_utc '2025-01-07 05:32:32' _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 6kk6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":202}' # _entry.id 6KK6 # _exptl.entry_id 6KK6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 644.809 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-[(5~{R},8~{R},15~{S},18~{S})-15,18-bis(4-azanylbutyl)-5-methyl-4,7,14,17,20-pentakis(oxidanylidene)-3,6,13,16,19-pentazabicyclo[20.3.1]hexacosa-1(25),22(26),23-trien-8-yl]guanidine _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 6KK6 _cell.length_a 48.57 _cell.length_b 60.651 _cell.length_c 83.35 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6KK6 _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 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,G _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 5 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C31 H52 N10 O5' _chem_comp.formula_weight 644.809 _chem_comp.id DV0 _chem_comp.mon_nstd_flag . _chem_comp.name 1-[(5~{R},8~{R},15~{S},18~{S})-15,18-bis(4-azanylbutyl)-5-methyl-4,7,14,17,20-pentakis(oxidanylidene)-3,6,13,16,19-pentazabicyclo[20.3.1]hexacosa-1(25),22(26),23-trien-8-yl]guanidine _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 N36 C35 DV0 sing 83 n n C35 C34 DV0 sing 84 n n C26 N27 DV0 sing 85 n n C26 C25 DV0 sing 86 n n C43 C44 DV0 doub 87 n y C43 C41 DV0 sing 88 n y C34 C33 DV0 sing 89 n n C40 C41 DV0 sing 90 n n C40 C38 DV0 sing 91 n n C44 C01 DV0 sing 92 n y C41 C42 DV0 doub 93 n y C24 C25 DV0 sing 94 n n C24 C23 DV0 sing 95 n n C01 C02 DV0 doub 96 n y C42 C02 DV0 sing 97 n y C33 C32 DV0 sing 98 n n C02 C03 DV0 sing 99 n n N37 C38 DV0 sing 100 n n N37 C31 DV0 sing 101 n n C03 N04 DV0 sing 102 n n C32 C31 DV0 sing 103 n n C38 O39 DV0 doub 104 n n C23 C22 DV0 sing 105 n n O46 C05 DV0 doub 106 n n C31 C29 DV0 sing 107 n n N28 C29 DV0 sing 108 n n N28 C22 DV0 sing 109 n n N04 C05 DV0 sing 110 n n C05 C06 DV0 sing 111 n n C29 O30 DV0 doub 112 n n C22 C20 DV0 sing 113 n n O45 C09 DV0 doub 114 n n O21 C20 DV0 doub 115 n n C20 N19 DV0 sing 116 n n N13 C12 DV0 doub 117 n n C06 N08 DV0 sing 118 n n C06 C07 DV0 sing 119 n n C09 N08 DV0 sing 120 n n C09 C10 DV0 sing 121 n n N19 C18 DV0 sing 122 n n C10 N11 DV0 sing 123 n n C10 C15 DV0 sing 124 n n C12 N11 DV0 sing 125 n n C12 N14 DV0 sing 126 n n C16 C15 DV0 sing 127 n n C16 C17 DV0 sing 128 n n C18 C17 DV0 sing 129 n n C10 H1 DV0 sing 130 n n C15 H2 DV0 sing 131 n n C15 H3 DV0 sing 132 n n C17 H4 DV0 sing 133 n n C17 H5 DV0 sing 134 n n C22 H6 DV0 sing 135 n n C24 H7 DV0 sing 136 n n C24 H8 DV0 sing 137 n n C26 H9 DV0 sing 138 n n C26 H10 DV0 sing 139 n n C01 H11 DV0 sing 140 n n C03 H12 DV0 sing 141 n n C03 H13 DV0 sing 142 n n C06 H14 DV0 sing 143 n n C07 H15 DV0 sing 144 n n C07 H16 DV0 sing 145 n n C07 H17 DV0 sing 146 n n C16 H18 DV0 sing 147 n n C16 H19 DV0 sing 148 n n C18 H20 DV0 sing 149 n n C18 H21 DV0 sing 150 n n C23 H22 DV0 sing 151 n n C23 H23 DV0 sing 152 n n C25 H24 DV0 sing 153 n n C25 H25 DV0 sing 154 n n C31 H26 DV0 sing 155 n n C32 H27 DV0 sing 156 n n C32 H28 DV0 sing 157 n n C33 H29 DV0 sing 158 n n C33 H30 DV0 sing 159 n n C34 H31 DV0 sing 160 n n C34 H32 DV0 sing 161 n n C35 H33 DV0 sing 162 n n C35 H34 DV0 sing 163 n n C40 H35 DV0 sing 164 n n C40 H36 DV0 sing 165 n n C42 H37 DV0 sing 166 n n C43 H38 DV0 sing 167 n n C44 H39 DV0 sing 168 n n N04 H40 DV0 sing 169 n n N08 H41 DV0 sing 170 n n N11 H42 DV0 sing 171 n n N13 H43 DV0 sing 172 n n N14 H44 DV0 sing 173 n n N14 H45 DV0 sing 174 n n N19 H46 DV0 sing 175 n n N27 H47 DV0 sing 176 n n N27 H48 DV0 sing 177 n n N28 H50 DV0 sing 178 n n N36 H51 DV0 sing 179 n n N36 H52 DV0 sing 180 n n N37 H54 DV0 sing 181 n n # _atom_sites.entry_id 6KK6 _atom_sites.fract_transf_matrix[1][1] 0.020589 _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] 0.016488 _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] 0.011998 _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 SO4 A 1 101 3 SO4 SO4 . D 4 GOL B 1 201 1 GOL GOL . E 5 DV0 B 1 202 201 DV0 LIG . F 6 HOH A 1 201 62 HOH HOH . F 6 HOH A 2 202 97 HOH HOH . F 6 HOH A 3 203 85 HOH HOH . F 6 HOH A 4 204 25 HOH HOH . F 6 HOH A 5 205 46 HOH HOH . F 6 HOH A 6 206 64 HOH HOH . F 6 HOH A 7 207 19 HOH HOH . F 6 HOH A 8 208 48 HOH HOH . F 6 HOH A 9 209 31 HOH HOH . F 6 HOH A 10 210 18 HOH HOH . F 6 HOH A 11 211 21 HOH HOH . F 6 HOH A 12 212 75 HOH HOH . F 6 HOH A 13 213 22 HOH HOH . F 6 HOH A 14 214 53 HOH HOH . F 6 HOH A 15 215 81 HOH HOH . F 6 HOH A 16 216 39 HOH HOH . F 6 HOH A 17 217 54 HOH HOH . F 6 HOH A 18 218 38 HOH HOH . F 6 HOH A 19 219 76 HOH HOH . F 6 HOH A 20 220 69 HOH HOH . F 6 HOH A 21 221 60 HOH HOH . F 6 HOH A 22 222 40 HOH HOH . F 6 HOH A 23 223 83 HOH HOH . G 6 HOH B 1 301 98 HOH HOH . G 6 HOH B 2 302 57 HOH HOH . G 6 HOH B 3 303 78 HOH HOH . G 6 HOH B 4 304 86 HOH HOH . G 6 HOH B 5 305 49 HOH HOH . G 6 HOH B 6 306 66 HOH HOH . G 6 HOH B 7 307 32 HOH HOH . G 6 HOH B 8 308 26 HOH HOH . G 6 HOH B 9 309 50 HOH HOH . G 6 HOH B 10 310 2 HOH HOH . G 6 HOH B 11 311 9 HOH HOH . G 6 HOH B 12 312 45 HOH HOH . G 6 HOH B 13 313 3 HOH HOH . G 6 HOH B 14 314 16 HOH HOH . G 6 HOH B 15 315 1 HOH HOH . G 6 HOH B 16 316 24 HOH HOH . G 6 HOH B 17 317 10 HOH HOH . G 6 HOH B 18 318 34 HOH HOH . G 6 HOH B 19 319 11 HOH HOH . G 6 HOH B 20 320 15 HOH HOH . G 6 HOH B 21 321 30 HOH HOH . G 6 HOH B 22 322 20 HOH HOH . G 6 HOH B 23 323 89 HOH HOH . G 6 HOH B 24 324 12 HOH HOH . G 6 HOH B 25 325 79 HOH HOH . G 6 HOH B 26 326 29 HOH HOH . G 6 HOH B 27 327 44 HOH HOH . G 6 HOH B 28 328 5 HOH HOH . G 6 HOH B 29 329 35 HOH HOH . G 6 HOH B 30 330 41 HOH HOH . G 6 HOH B 31 331 33 HOH HOH . G 6 HOH B 32 332 6 HOH HOH . G 6 HOH B 33 333 52 HOH HOH . G 6 HOH B 34 334 43 HOH HOH . G 6 HOH B 35 335 4 HOH HOH . G 6 HOH B 36 336 23 HOH HOH . G 6 HOH B 37 337 72 HOH HOH . G 6 HOH B 38 338 47 HOH HOH . G 6 HOH B 39 339 36 HOH HOH . G 6 HOH B 40 340 88 HOH HOH . G 6 HOH B 41 341 28 HOH HOH . G 6 HOH B 42 342 8 HOH HOH . G 6 HOH B 43 343 59 HOH HOH . G 6 HOH B 44 344 67 HOH HOH . G 6 HOH B 45 345 7 HOH HOH . G 6 HOH B 46 346 27 HOH HOH . G 6 HOH B 47 347 37 HOH HOH . G 6 HOH B 48 348 90 HOH HOH . G 6 HOH B 49 349 13 HOH HOH . G 6 HOH B 50 350 92 HOH HOH . G 6 HOH B 51 351 71 HOH HOH . G 6 HOH B 52 352 65 HOH HOH . G 6 HOH B 53 353 56 HOH HOH . G 6 HOH B 54 354 14 HOH HOH . G 6 HOH B 55 355 95 HOH HOH . G 6 HOH B 56 356 74 HOH HOH . G 6 HOH B 57 357 61 HOH HOH . G 6 HOH B 58 358 80 HOH HOH . G 6 HOH B 59 359 17 HOH HOH . G 6 HOH B 60 360 63 HOH HOH . G 6 HOH B 61 361 82 HOH HOH . G 6 HOH B 62 362 91 HOH HOH . G 6 HOH B 63 363 93 HOH HOH . G 6 HOH B 64 364 42 HOH HOH . G 6 HOH B 65 365 51 HOH HOH . G 6 HOH B 66 366 96 HOH HOH . G 6 HOH B 67 367 73 HOH HOH . G 6 HOH B 68 368 58 HOH HOH . G 6 HOH B 69 369 70 HOH HOH . G 6 HOH B 70 370 94 HOH HOH . G 6 HOH B 71 371 87 HOH HOH . G 6 HOH B 72 372 55 HOH HOH . G 6 HOH B 73 373 68 HOH HOH . G 6 HOH B 74 374 84 HOH HOH . G 6 HOH B 75 375 77 HOH HOH . G 6 HOH B 76 376 99 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 C10 DV0 . . . E 5 6.563 -13.025 5.474 1 18.62 ? C10 DV0 202 B 1 HETATM 2 C C15 DV0 . . . E 5 5.662 -13.632 6.561 1 17.42 ? C15 DV0 202 B 1 HETATM 3 C C17 DV0 . . . E 5 3.453 -14.687 7.01 1 16.4 ? C17 DV0 202 B 1 HETATM 4 C C20 DV0 . . . E 5 1.8 -14.819 4.068 1 23.25 ? C20 DV0 202 B 1 HETATM 5 C C22 DV0 . . . E 5 1.08 -13.815 3.209 1 20.77 ? C22 DV0 202 B 1 HETATM 6 C C24 DV0 . . . E 5 -0.092 -13.415 1.019 1 21.49 ? C24 DV0 202 B 1 HETATM 7 C C26 DV0 . . . E 5 -1.928 -11.816 0.456 1 26.29 ? C26 DV0 202 B 1 HETATM 8 C C01 DV0 . . . E 5 10.187 -11.206 1.015 1 19.89 ? C01 DV0 202 B 1 HETATM 9 C C02 DV0 . . . E 5 9.594 -12.445 1.237 1 20.84 ? C02 DV0 202 B 1 HETATM 10 C C03 DV0 . . . E 5 10.417 -13.676 1.625 1 22.59 ? C03 DV0 202 B 1 HETATM 11 C C05 DV0 . . . E 5 9.39 -15.55 2.995 1 24.09 ? C05 DV0 202 B 1 HETATM 12 C C06 DV0 . . . E 5 8.878 -15.968 4.373 1 22.58 ? C06 DV0 202 B 1 HETATM 13 C C07 DV0 . . . E 5 9.952 -16.642 5.221 1 22.44 ? C07 DV0 202 B 1 HETATM 14 C C09 DV0 . . . E 5 7.148 -14.165 4.644 1 19.43 ? C09 DV0 202 B 1 HETATM 15 C C12 DV0 . . . E 5 8.419 -11.319 5.522 1 21.95 ? C12 DV0 202 B 1 HETATM 16 C C16 DV0 . . . E 5 4.473 -14.347 5.913 1 17.75 ? C16 DV0 202 B 1 HETATM 17 C C18 DV0 . . . E 5 2.32 -15.519 6.414 1 17.39 ? C18 DV0 202 B 1 HETATM 18 C C23 DV0 . . . E 5 0.409 -14.472 2.002 1 22.8 ? C23 DV0 202 B 1 HETATM 19 C C25 DV0 . . . E 5 -1.442 -12.848 1.476 1 22.89 ? C25 DV0 202 B 1 HETATM 20 C C29 DV0 . . . E 5 1.941 -11.461 3.213 1 21.1 ? C29 DV0 202 B 1 HETATM 21 C C31 DV0 . . . E 5 2.908 -10.44 2.654 1 20.03 ? C31 DV0 202 B 1 HETATM 22 C C32 DV0 . . . E 5 1.986 -9.46 1.912 1 23.7 ? C32 DV0 202 B 1 HETATM 23 C C33 DV0 . . . E 5 2.743 -8.327 1.242 1 28.47 ? C33 DV0 202 B 1 HETATM 24 C C34 DV0 . . . E 5 1.699 -7.481 0.506 1 31.8 ? C34 DV0 202 B 1 HETATM 25 C C35 DV0 . . . E 5 2.356 -6.234 -0.072 1 37.1 ? C35 DV0 202 B 1 HETATM 26 C C38 DV0 . . . E 5 5.164 -11.252 1.812 1 24.68 ? C38 DV0 202 B 1 HETATM 27 C C40 DV0 . . . E 5 5.947 -11.759 0.608 1 22.37 ? C40 DV0 202 B 1 HETATM 28 C C41 DV0 . . . E 5 7.444 -11.509 0.751 1 22.17 ? C41 DV0 202 B 1 HETATM 29 C C42 DV0 . . . E 5 8.229 -12.587 1.106 1 22.76 ? C42 DV0 202 B 1 HETATM 30 C C43 DV0 . . . E 5 8.022 -10.265 0.514 1 23.64 ? C43 DV0 202 B 1 HETATM 31 C C44 DV0 . . . E 5 9.401 -10.119 0.645 1 20.96 ? C44 DV0 202 B 1 HETATM 32 N N04 DV0 . . . E 5 9.899 -14.207 2.879 1 21.52 ? N04 DV0 202 B 1 HETATM 33 N N08 DV0 . . . E 5 8.318 -14.848 5.126 1 22.57 ? N08 DV0 202 B 1 HETATM 34 N N11 DV0 . . . E 5 7.605 -12.303 6.186 1 19.7 ? N11 DV0 202 B 1 HETATM 35 N N13 DV0 . . . E 5 8.26 -11.047 4.301 1 20.9 ? N13 DV0 202 B 1 HETATM 36 N N14 DV0 . . . E 5 9.43 -10.664 6.319 1 22.98 ? N14 DV0 202 B 1 HETATM 37 N N19 DV0 . . . E 5 1.647 -14.633 5.482 1 20.06 ? N19 DV0 202 B 1 HETATM 38 N N27 DV0 . . . E 5 -3.29 -11.376 0.746 1 22.56 ? N27 DV0 202 B 1 HETATM 39 N N28 DV0 . . . E 5 2.036 -12.814 2.762 1 20.52 ? N28 DV0 202 B 1 HETATM 40 N N36 DV0 . . . E 5 1.372 -5.507 -0.853 1 32.53 ? N36 DV0 202 B 1 HETATM 41 N N37 DV0 . . . E 5 3.759 -10.994 1.602 1 19.46 ? N37 DV0 202 B 1 HETATM 42 O O21 DV0 . . . E 5 2.462 -15.701 3.617 1 21.6 ? O21 DV0 202 B 1 HETATM 43 O O30 DV0 . . . E 5 1.108 -11.125 3.992 1 21.81 ? O30 DV0 202 B 1 HETATM 44 O O39 DV0 . . . E 5 5.69 -11.079 2.858 1 22.17 ? O39 DV0 202 B 1 HETATM 45 O O45 DV0 . . . E 5 6.641 -14.497 3.618 1 22.23 ? O45 DV0 202 B 1 HETATM 46 O O46 DV0 . . . E 5 9.386 -16.315 2.071 1 24.69 ? O46 DV0 202 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 419 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 46 #