data_2QCB # _model_server_result.job_id G0jqBGGidAvObEzaAGADjQ _model_server_result.datetime_utc '2024-11-24 00:59:35' _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 2qcb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":400}' # _entry.id 2QCB # _exptl.entry_id 2QCB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 654.187 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-(4-{[(2-AMINOETHYL)AMINO]SULFONYL}PHENYL)-5-[(3AS,4S,6AR)-2-OXOHEXAHYDRO-1H-THIENO[3,4-D]IMIDAZOL-4-YL]PENTANAMIDE-(1,2,3,4,5,6-ETA)-BENZENE-CHLORO-RUTHENIUM(III) _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 2QCB _cell.length_a 57.651 _cell.length_b 57.651 _cell.length_c 183.823 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2QCB _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41 2 2' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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' 8_665 -y+1,-x+1,-z 0 -1 0 -1 0 0 0 0 -1 57.651 57.651 0 3 'crystal symmetry operation' 10_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 57.651 57.651 0 4 'crystal symmetry operation' 15_555 y,x,-z 0 1 0 1 0 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 'C24 H31 Cl N5 O4 Ru S2' _chem_comp.formula_weight 654.187 _chem_comp.id KYS _chem_comp.mon_nstd_flag . _chem_comp.name N-(4-{[(2-AMINOETHYL)AMINO]SULFONYL}PHENYL)-5-[(3AS,4S,6AR)-2-OXOHEXAHYDRO-1H-THIENO[3,4-D]IMIDAZOL-4-YL]PENTANAMIDE-(1,2,3,4,5,6-ETA)-BENZENE-CHLORO-RUTHENIUM(III) _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 O56 C54 KYS doub 160 n n C54 N53 KYS sing 161 n n C54 N55 KYS sing 162 n n N55 C50 KYS sing 163 n n N55 HN55 KYS sing 164 n n C50 C49 KYS sing 165 n n C50 C51 KYS sing 166 n n C50 H50 KYS sing 167 n n C51 S52 KYS sing 168 n n C51 H511 KYS sing 169 n n C51 H512 KYS sing 170 n n S52 C48 KYS sing 171 n n N53 C49 KYS sing 172 n n N53 HN53 KYS sing 173 n n C49 C48 KYS sing 174 n n C49 H49 KYS sing 175 n n C48 C47 KYS sing 176 n n C48 H48 KYS sing 177 n n C47 C46 KYS sing 178 n n C47 H471 KYS sing 179 n n C47 H472 KYS sing 180 n n C46 C45 KYS sing 181 n n C46 H461 KYS sing 182 n n C46 H462 KYS sing 183 n n C45 C40 KYS sing 184 n n C45 H451 KYS sing 185 n n C45 H452 KYS sing 186 n n C40 C39 KYS sing 187 n n C40 H401 KYS sing 188 n n C40 H402 KYS sing 189 n n C39 O41 KYS doub 190 n n C39 N19 KYS sing 191 n n N19 C21 KYS sing 192 n n N19 HN19 KYS sing 193 n n C21 C20 KYS doub 194 n y C21 C22 KYS sing 195 n y C22 C23 KYS doub 196 n y C22 H22 KYS sing 197 n n C23 C33 KYS sing 198 n y C23 H23 KYS sing 199 n n C20 C24 KYS sing 200 n y C20 H20 KYS sing 201 n n C24 C33 KYS doub 202 n y C24 H24 KYS sing 203 n n C33 S30 KYS sing 204 n n S30 N26 KYS sing 205 n n S30 O32 KYS doub 206 n n S30 O31 KYS doub 207 n n N26 RU1 KYS sing 208 n n N26 C28 KYS sing 209 n n RU1 C10 KYS sing 210 n n RU1 N27 KYS sing 211 n n RU1 C9 KYS sing 212 n n RU1 C5 KYS sing 213 n n RU1 C8 KYS sing 214 n n RU1 CL2 KYS sing 215 n n RU1 C6 KYS sing 216 n n RU1 C7 KYS sing 217 n n C6 C5 KYS sing 218 n n C6 C7 KYS doub 219 n n C6 H6 KYS sing 220 n n C7 C8 KYS sing 221 n n C7 H7 KYS sing 222 n n C8 C9 KYS doub 223 n n C8 H8 KYS sing 224 n n C9 C10 KYS sing 225 n n C9 H9 KYS sing 226 n n C10 C5 KYS doub 227 n n C10 H10 KYS sing 228 n n C5 H5 KYS sing 229 n n C28 C29 KYS sing 230 n n C28 H281 KYS sing 231 n n C28 H282 KYS sing 232 n n C29 N27 KYS sing 233 n n C29 H291 KYS sing 234 n n C29 H292 KYS sing 235 n n N27 HN27 KYS sing 236 n n # _atom_sites.entry_id 2QCB _atom_sites.fract_transf_matrix[1][1] 0.017346 _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] 0.017346 _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] 0.00544 _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 KYS A 1 400 400 KYS KYS . C 3 HOH A 1 401 402 HOH HOH . C 3 HOH A 2 402 403 HOH HOH . C 3 HOH A 3 403 404 HOH HOH . C 3 HOH A 4 404 405 HOH HOH . C 3 HOH A 5 405 406 HOH HOH . C 3 HOH A 6 406 407 HOH HOH . C 3 HOH A 7 407 408 HOH HOH . C 3 HOH A 8 408 409 HOH HOH . C 3 HOH A 9 409 410 HOH HOH . C 3 HOH A 10 410 411 HOH HOH . C 3 HOH A 11 411 412 HOH HOH . C 3 HOH A 12 412 413 HOH HOH . C 3 HOH A 13 413 414 HOH HOH . C 3 HOH A 14 414 415 HOH HOH . C 3 HOH A 15 415 416 HOH HOH . C 3 HOH A 16 416 417 HOH HOH . C 3 HOH A 17 417 418 HOH HOH . C 3 HOH A 18 418 419 HOH HOH . C 3 HOH A 19 419 420 HOH HOH . C 3 HOH A 20 420 421 HOH HOH . C 3 HOH A 21 421 422 HOH HOH . C 3 HOH A 22 422 423 HOH HOH . C 3 HOH A 23 423 424 HOH HOH . C 3 HOH A 24 424 425 HOH HOH . C 3 HOH A 25 425 426 HOH HOH . C 3 HOH A 26 426 427 HOH HOH . C 3 HOH A 27 427 428 HOH HOH . C 3 HOH A 28 428 429 HOH HOH . C 3 HOH A 29 429 430 HOH HOH . C 3 HOH A 30 430 431 HOH HOH . C 3 HOH A 31 431 432 HOH HOH . C 3 HOH A 32 432 433 HOH HOH . C 3 HOH A 33 433 434 HOH HOH . C 3 HOH A 34 434 435 HOH HOH . C 3 HOH A 35 435 436 HOH HOH . C 3 HOH A 36 436 437 HOH HOH . C 3 HOH A 37 437 438 HOH HOH . C 3 HOH A 38 438 439 HOH HOH . C 3 HOH A 39 439 440 HOH HOH . C 3 HOH A 40 440 441 HOH HOH . C 3 HOH A 41 441 442 HOH HOH . C 3 HOH A 42 442 443 HOH HOH . C 3 HOH A 43 443 444 HOH HOH . C 3 HOH A 44 444 445 HOH HOH . C 3 HOH A 45 445 446 HOH HOH . C 3 HOH A 46 446 447 HOH HOH . C 3 HOH A 47 447 448 HOH HOH . C 3 HOH A 48 448 449 HOH HOH . C 3 HOH A 49 449 450 HOH HOH . C 3 HOH A 50 450 451 HOH HOH . C 3 HOH A 51 451 452 HOH HOH . C 3 HOH A 52 452 453 HOH HOH . C 3 HOH A 53 453 454 HOH HOH . C 3 HOH A 54 454 455 HOH HOH . C 3 HOH A 55 455 456 HOH HOH . C 3 HOH A 56 456 457 HOH HOH . C 3 HOH A 57 457 458 HOH HOH . C 3 HOH A 58 458 459 HOH HOH . C 3 HOH A 59 459 460 HOH HOH . C 3 HOH A 60 460 461 HOH HOH . C 3 HOH A 61 461 462 HOH HOH . C 3 HOH A 62 462 463 HOH HOH . C 3 HOH A 63 463 464 HOH HOH . C 3 HOH A 64 464 465 HOH HOH . C 3 HOH A 65 465 466 HOH HOH . C 3 HOH A 66 466 467 HOH HOH . C 3 HOH A 67 467 468 HOH HOH . C 3 HOH A 68 468 469 HOH HOH . C 3 HOH A 69 469 470 HOH HOH . C 3 HOH A 70 470 471 HOH HOH . C 3 HOH A 71 471 472 HOH HOH . C 3 HOH A 72 472 473 HOH HOH . C 3 HOH A 73 473 474 HOH HOH . C 3 HOH A 74 474 475 HOH HOH . C 3 HOH A 75 475 476 HOH HOH . C 3 HOH A 76 476 477 HOH HOH . C 3 HOH A 77 477 478 HOH HOH . C 3 HOH A 78 478 479 HOH HOH . C 3 HOH A 79 479 480 HOH HOH . C 3 HOH A 80 480 481 HOH HOH . C 3 HOH A 81 481 482 HOH HOH . C 3 HOH A 82 482 483 HOH HOH . C 3 HOH A 83 483 484 HOH HOH . C 3 HOH A 84 484 485 HOH HOH . C 3 HOH A 85 485 486 HOH HOH . C 3 HOH A 86 486 487 HOH HOH . C 3 HOH A 87 487 488 HOH HOH . C 3 HOH A 88 488 489 HOH HOH . C 3 HOH A 89 489 490 HOH HOH . C 3 HOH A 90 490 491 HOH HOH . C 3 HOH A 91 491 492 HOH HOH . C 3 HOH A 92 492 493 HOH HOH . C 3 HOH A 93 493 494 HOH HOH . C 3 HOH A 94 494 495 HOH HOH . C 3 HOH A 95 495 496 HOH HOH . C 3 HOH A 96 496 497 HOH HOH . C 3 HOH A 97 497 498 HOH HOH . C 3 HOH A 98 498 499 HOH HOH . C 3 HOH A 99 499 500 HOH HOH . C 3 HOH A 100 500 501 HOH HOH . C 3 HOH A 101 501 502 HOH HOH . C 3 HOH A 102 502 503 HOH HOH . C 3 HOH A 103 503 504 HOH HOH . C 3 HOH A 104 504 505 HOH HOH . C 3 HOH A 105 505 506 HOH HOH . C 3 HOH A 106 506 507 HOH HOH . C 3 HOH A 107 507 508 HOH HOH . C 3 HOH A 108 508 509 HOH HOH . C 3 HOH A 109 509 510 HOH HOH . C 3 HOH A 110 510 511 HOH HOH . C 3 HOH A 111 511 512 HOH HOH . C 3 HOH A 112 512 513 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 O O56 KYS . . . B 2 14.294 29.446 -8.243 1 14.77 ? O56 KYS 400 A 1 HETATM 2 C C54 KYS . . . B 2 15.49 29.37 -8.507 1 14.16 ? C54 KYS 400 A 1 HETATM 3 N N55 KYS . . . B 2 16.488 29.512 -7.634 1 14.17 ? N55 KYS 400 A 1 HETATM 4 C C50 KYS . . . B 2 17.796 29.368 -8.226 1 13.56 ? C50 KYS 400 A 1 HETATM 5 C C51 KYS . . . B 2 18.542 28.15 -7.698 1 15.05 ? C51 KYS 400 A 1 HETATM 6 S S52 KYS . . . B 2 17.947 26.757 -8.617 1 14 ? S52 KYS 400 A 1 HETATM 7 N N53 KYS . . . B 2 16.031 29.156 -9.709 1 13.91 ? N53 KYS 400 A 1 HETATM 8 C C49 KYS . . . B 2 17.483 29.119 -9.702 1 13.93 ? C49 KYS 400 A 1 HETATM 9 C C48 KYS . . . B 2 18.092 27.763 -10.076 1 13.98 ? C48 KYS 400 A 1 HETATM 10 C C47 KYS . . . B 2 17.454 27.1 -11.305 1 13.51 ? C47 KYS 400 A 1 HETATM 11 C C46 KYS . . . B 2 18.322 26.015 -11.943 1 13.77 ? C46 KYS 400 A 1 HETATM 12 C C45 KYS . . . B 2 17.691 25.364 -13.174 1 14.44 ? C45 KYS 400 A 1 HETATM 13 C C40 KYS . . . B 2 18.612 24.306 -13.802 1 14.84 ? C40 KYS 400 A 1 HETATM 14 C C39 KYS . . . B 2 19.889 24.919 -14.349 1 15.4 ? C39 KYS 400 A 1 HETATM 15 O O41 KYS . . . B 2 19.777 25.932 -15.042 1 17 ? O41 KYS 400 A 1 HETATM 16 N N19 KYS . A . B 2 21.075 24.376 -14.029 0.8 18.2 ? N19 KYS 400 A 1 HETATM 17 N N19 KYS . B . B 2 21.063 24.31 -14.097 0.2 16.27 ? N19 KYS 400 A 1 HETATM 18 C C21 KYS . A . B 2 22.228 24.961 -14.455 0.4 19.3 ? C21 KYS 400 A 1 HETATM 19 C C21 KYS . B . B 2 22.24 24.77 -14.578 0.2 17.24 ? C21 KYS 400 A 1 HETATM 20 C C22 KYS . A . B 2 22.424 26.194 -14.204 0.4 20.11 ? C22 KYS 400 A 1 HETATM 21 C C22 KYS . B . B 2 22.717 25.903 -14.271 0.2 18.63 ? C22 KYS 400 A 1 HETATM 22 C C23 KYS . A . B 2 23.536 26.869 -14.594 0.4 19.12 ? C23 KYS 400 A 1 HETATM 23 C C23 KYS . B . B 2 23.899 26.338 -14.785 0.2 15.27 ? C23 KYS 400 A 1 HETATM 24 C C20 KYS . A . B 2 23.197 24.305 -15.122 0.4 20.06 ? C20 KYS 400 A 1 HETATM 25 C C20 KYS . B . B 2 22.934 23.992 -15.43 0.2 17.7 ? C20 KYS 400 A 1 HETATM 26 C C24 KYS . A . B 2 24.312 24.97 -15.506 0.4 19.2 ? C24 KYS 400 A 1 HETATM 27 C C24 KYS . B . B 2 24.099 24.419 -15.937 0.2 15.73 ? C24 KYS 400 A 1 HETATM 28 C C33 KYS . A . B 2 24.477 26.293 -15.218 0.4 20.6 ? C33 KYS 400 A 1 HETATM 29 C C33 KYS . B . B 2 24.581 25.63 -15.586 0.2 18.9 ? C33 KYS 400 A 1 HETATM 30 S S30 KYS . A . B 2 25.766 27.123 -15.688 0.4 20.33 ? S30 KYS 400 A 1 HETATM 31 S S30 KYS . B . B 2 25.949 26.164 -16.187 0.2 12.73 ? S30 KYS 400 A 1 HETATM 32 O O31 KYS . A . B 2 26.134 28.17 -14.712 0.2 21.19 ? O31 KYS 400 A 1 HETATM 33 O O31 KYS . B . B 2 26.727 26.915 -15.185 0.2 18.01 ? O31 KYS 400 A 1 HETATM 34 O O31 KYS . C . B 2 26.499 26.561 -16.835 0.2 22.1 ? O31 KYS 400 A 1 HETATM 35 O O32 KYS . A . B 2 26.898 26.189 -15.885 0.2 21.21 ? O32 KYS 400 A 1 HETATM 36 O O32 KYS . B . B 2 26.752 25.039 -16.709 0.2 16.79 ? O32 KYS 400 A 1 HETATM 37 O O32 KYS . C . B 2 25.93 28.582 -15.538 0.2 20.56 ? O32 KYS 400 A 1 HETATM 38 N N26 KYS . A . B 2 25.295 27.879 -17.078 0.2 28.1 ? N26 KYS 400 A 1 HETATM 39 N N26 KYS . B . B 2 25.597 27.151 -17.41 0.2 16.58 ? N26 KYS 400 A 1 HETATM 40 N N26 KYS . C . B 2 26.392 26.444 -14.364 0.2 22.39 ? N26 KYS 400 A 1 HETATM 41 RU RU1 KYS . A . B 2 26.644 29.231 -18.1 0.2 30.62 ? RU1 KYS 400 A 1 HETATM 42 CL CL2 KYS . A . B 2 28.477 28.023 -17.398 0.2 30.86 ? CL2 KYS 400 A 1 HETATM 43 C C6 KYS . A . B 2 25.766 31.011 -17.223 0.2 30.16 ? C6 KYS 400 A 1 HETATM 44 C C7 KYS . A . B 2 27.15 31.098 -17.108 0.2 30.05 ? C7 KYS 400 A 1 HETATM 45 C C8 KYS . A . B 2 27.961 30.959 -18.232 0.2 29.67 ? C8 KYS 400 A 1 HETATM 46 C C9 KYS . A . B 2 27.396 30.733 -19.483 0.2 29.74 ? C9 KYS 400 A 1 HETATM 47 C C10 KYS . A . B 2 25.917 30.635 -19.597 0.2 29.84 ? C10 KYS 400 A 1 HETATM 48 C C5 KYS . A . B 2 25.152 30.774 -18.451 0.2 30.2 ? C5 KYS 400 A 1 HETATM 49 C C28 KYS . A . B 2 24.792 26.852 -18.035 0.2 28.46 ? C28 KYS 400 A 1 HETATM 50 C C29 KYS . A . B 2 25.142 27.184 -19.493 0.2 29.36 ? C29 KYS 400 A 1 HETATM 51 N N27 KYS . A . B 2 26.53 27.645 -19.508 0.2 29.96 ? N27 KYS 400 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 341 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 51 #