data_5K1Z # _model_server_result.job_id xuaUgETG5Lf0A2a15PCI0Q _model_server_result.datetime_utc '2024-11-29 16:20:53' _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 5k1z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 5K1Z # loop_ _exptl.entry_id _exptl.method 5K1Z 'NEUTRON DIFFRACTION' 5K1Z 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 389.902 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (3R,4S)-1-[(4-amino-5H-pyrrolo[3,2-d]pyrimidin-7-yl)methyl]-4-{[(4-chlorophenyl)sulfanyl]methyl}pyrrolidin-3-ol _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 5K1Z _cell.length_a 83.189 _cell.length_b 83.189 _cell.length_c 67.633 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5K1Z _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 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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' 5_677 x-y+1,-y+2,-z+7/3 1 0 0 0 -1 0 0 0 -1 0 144.087575 157.810333 # _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 'C18 H20 Cl N5 O S' _chem_comp.formula_weight 389.902 _chem_comp.id 4CT _chem_comp.mon_nstd_flag . _chem_comp.name (3R,4S)-1-[(4-amino-5H-pyrrolo[3,2-d]pyrimidin-7-yl)methyl]-4-{[(4-chlorophenyl)sulfanyl]methyl}pyrrolidin-3-ol _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 C2 4CT doub 1 n y N1 C6 4CT sing 2 n y CL1 C11 4CT sing 3 n n C2 N3 4CT sing 4 n y N3 C4 4CT doub 5 n y C4 C5 4CT sing 6 n y C4 C9 4CT sing 7 n y C5 C6 4CT doub 8 n y C5 N7 4CT sing 9 n y C6 N6 4CT sing 10 n n N7 C8 4CT sing 11 n y C8 C9 4CT doub 12 n y C9 C10 4CT sing 13 n n C1' N1' 4CT sing 14 n n C1' C4' 4CT sing 15 n n N1' C10 4CT sing 16 n n N1' C2' 4CT sing 17 n n C11 C13 4CT doub 18 n y C11 C9' 4CT sing 19 n y C13 C14 4CT sing 20 n y C14 C7' 4CT doub 21 n y C2' C3' 4CT sing 22 n n C3' O3' 4CT sing 23 n n C3' C4' 4CT sing 24 n n C4' C5' 4CT sing 25 n n C5' S6' 4CT sing 26 n n S6' C7' 4CT sing 27 n n C7' C8' 4CT sing 28 n y C8' C9' 4CT doub 29 n y C2 H2 4CT sing 30 n n N6 HN6 4CT sing 31 n n N6 HN6A 4CT sing 32 n n N7 HN7 4CT sing 33 n n C8 H8 4CT sing 34 n n C1' H1' 4CT sing 35 n n C1' "H1'A" 4CT sing 36 n n C10 H10 4CT sing 37 n n C10 H10A 4CT sing 38 n n C13 H13 4CT sing 39 n n C14 H14 4CT sing 40 n n C2' H2' 4CT sing 41 n n C2' "H2'A" 4CT sing 42 n n C3' H3' 4CT sing 43 n n O3' HO3' 4CT sing 44 n n C4' H4' 4CT sing 45 n n C5' H5' 4CT sing 46 n n C5' "H5'A" 4CT sing 47 n n C8' H8' 4CT sing 48 n n C9' H9' 4CT sing 49 n n # _atom_sites.entry_id 5K1Z _atom_sites.fract_transf_matrix[1][1] 0.012021 _atom_sites.fract_transf_matrix[1][2] 0.00694 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01388 _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] 0.014786 _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 4CT A 1 301 301 4CT TSA . C 3 DOD A 1 401 4 DOD DOD . C 3 DOD A 2 402 12 DOD DOD . C 3 DOD A 3 403 49 DOD DOD . C 3 DOD A 4 404 21 DOD DOD . C 3 DOD A 5 405 5 DOD DOD . C 3 DOD A 6 406 9 DOD DOD . C 3 DOD A 7 407 8 DOD DOD . C 3 DOD A 8 408 48 DOD DOD . C 3 DOD A 9 409 31 DOD DOD . C 3 DOD A 10 410 24 DOD DOD . C 3 DOD A 11 411 7 DOD DOD . C 3 DOD A 12 412 11 DOD DOD . C 3 DOD A 13 413 26 DOD DOD . C 3 DOD A 14 414 6 DOD DOD . C 3 DOD A 15 415 18 DOD DOD . C 3 DOD A 16 416 14 DOD DOD . C 3 DOD A 17 417 23 DOD DOD . C 3 DOD A 18 418 17 DOD DOD . C 3 DOD A 19 419 1 DOD DOD . C 3 DOD A 20 420 22 DOD DOD . C 3 DOD A 21 421 76 DOD DOD . C 3 DOD A 22 422 39 DOD DOD . C 3 DOD A 23 423 30 DOD DOD . C 3 DOD A 24 424 88 DOD DOD . C 3 DOD A 25 425 19 DOD DOD . C 3 DOD A 26 426 2 DOD DOD . C 3 DOD A 27 427 3 DOD DOD . C 3 DOD A 28 428 20 DOD DOD . C 3 DOD A 29 429 33 DOD DOD . C 3 DOD A 30 430 87 DOD DOD . C 3 DOD A 31 431 29 DOD DOD . C 3 DOD A 32 432 16 DOD DOD . C 3 DOD A 33 433 40 DOD DOD . C 3 DOD A 34 434 10 DOD DOD . C 3 DOD A 35 435 15 DOD DOD . C 3 DOD A 36 436 51 DOD DOD . C 3 DOD A 37 437 73 DOD DOD . C 3 DOD A 38 438 71 DOD DOD . C 3 DOD A 39 439 37 DOD DOD . C 3 DOD A 40 440 25 DOD DOD . C 3 DOD A 41 441 82 DOD DOD . C 3 DOD A 42 442 52 DOD DOD . C 3 DOD A 43 443 27 DOD DOD . C 3 DOD A 44 444 86 DOD DOD . C 3 DOD A 45 445 13 DOD DOD . C 3 DOD A 46 446 32 DOD DOD . C 3 DOD A 47 447 74 DOD DOD . C 3 DOD A 48 448 57 DOD DOD . C 3 DOD A 49 449 44 DOD DOD . C 3 DOD A 50 450 80 DOD DOD . C 3 DOD A 51 451 75 DOD DOD . C 3 DOD A 52 452 84 DOD DOD . C 3 DOD A 53 453 68 DOD DOD . C 3 DOD A 54 454 89 DOD DOD . C 3 DOD A 55 455 85 DOD DOD . C 3 DOD A 56 456 69 DOD DOD . C 3 DOD A 57 457 78 DOD DOD . C 3 DOD A 58 458 59 DOD DOD . # 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 4CT . . . B 2 8.676 74.15 67.096 1 32.58 ? N1 4CT 301 A 1 HETATM 2 CL CL1 4CT . . . B 2 4.849 86.231 66.473 1 44.25 ? CL1 4CT 301 A 1 HETATM 3 C C2 4CT . . . B 2 7.46 74.071 67.648 1 33.43 ? C2 4CT 301 A 1 HETATM 4 N N3 4CT . . . B 2 6.301 74.325 67.003 1 32.9 ? N3 4CT 301 A 1 HETATM 5 C C4 4CT . . . B 2 6.414 74.688 65.676 1 31.85 ? C4 4CT 301 A 1 HETATM 6 C C5 4CT . . . B 2 7.639 74.78 65.079 1 32.1 ? C5 4CT 301 A 1 HETATM 7 C C6 4CT . . . B 2 8.789 74.499 65.809 1 32.49 ? C6 4CT 301 A 1 HETATM 8 N N6 4CT . . . B 2 10.06 74.577 65.232 1 33.84 ? N6 4CT 301 A 1 HETATM 9 N N7 4CT . . . B 2 7.447 75.151 63.802 1 32.43 ? N7 4CT 301 A 1 HETATM 10 C C8 4CT . . . B 2 6.187 75.303 63.555 1 29.89 ? C8 4CT 301 A 1 HETATM 11 C C9 4CT . . . B 2 5.483 75.016 64.73 1 31.36 ? C9 4CT 301 A 1 HETATM 12 C C1' 4CT . . . B 2 3.53 77.295 65.085 1 35.26 ? C1' 4CT 301 A 1 HETATM 13 N N1' 4CT . . . B 2 3.278 76.146 65.611 1 34.43 ? N1' 4CT 301 A 1 HETATM 14 C C10 4CT . . . B 2 4 75.066 64.936 1 31.51 ? C10 4CT 301 A 1 HETATM 15 C C11 4CT . . . B 2 4.852 84.513 66.738 1 47.75 ? C11 4CT 301 A 1 HETATM 16 C C13 4CT . . . B 2 4.766 83.53 65.69 1 48.03 ? C13 4CT 301 A 1 HETATM 17 C C14 4CT . . . B 2 4.779 82.163 66.021 1 46.6 ? C14 4CT 301 A 1 HETATM 18 C C2' 4CT . . . B 2 3.567 76.2 67.152 1 32.84 ? C2' 4CT 301 A 1 HETATM 19 C C3' 4CT . . . B 2 2.941 77.581 67.366 1 34.45 ? C3' 4CT 301 A 1 HETATM 20 O O3' 4CT . . . B 2 1.533 77.527 67.435 1 32.22 ? O3' 4CT 301 A 1 HETATM 21 C C4' 4CT . . . B 2 3.337 78.295 66.287 1 35.72 ? C4' 4CT 301 A 1 HETATM 22 C C5' 4CT . . . B 2 4.705 78.973 66.455 1 38.33 ? C5' 4CT 301 A 1 HETATM 23 S S6' 4CT . . . B 2 4.901 80.079 67.904 1 43.8 ? S6' 4CT 301 A 1 HETATM 24 C C7' 4CT . . . B 2 4.877 81.787 67.379 1 46.59 ? C7' 4CT 301 A 1 HETATM 25 C C8' 4CT . . . B 2 4.96 82.765 68.403 1 47.93 ? C8' 4CT 301 A 1 HETATM 26 C C9' 4CT . . . B 2 4.947 84.116 68.079 1 48.61 ? C9' 4CT 301 A 1 HETATM 27 H H2 4CT . . . B 2 7.459 73.824 68.527 1 32.28 ? H2 4CT 301 A 1 HETATM 28 D DN6 4CT . . . B 2 10.865 74.388 65.713 1 34.35 ? DN6 4CT 301 A 1 HETATM 29 D DN6A 4CT . . . B 2 10.141 74.801 64.284 1 34.81 ? DN6A 4CT 301 A 1 HETATM 30 D DN7 4CT . . . B 2 8.164 75.288 63.158 1 31.82 ? DN7 4CT 301 A 1 HETATM 31 H H8 4CT . . . B 2 5.826 75.572 62.682 1 32 ? H8 4CT 301 A 1 HETATM 32 H H1' 4CT . . . B 2 4.486 77.353 64.8 1 35.16 ? H1' 4CT 301 A 1 HETATM 33 H "H1'A" 4CT . . . B 2 2.912 77.503 64.344 1 34.74 ? "H1'A" 4CT 301 A 1 HETATM 34 H H10 4CT . . . B 2 3.753 74.236 65.479 1 33.38 ? H10 4CT 301 A 1 HETATM 35 H H10A 4CT . . . B 2 3.559 74.963 64.054 1 33.16 ? H10A 4CT 301 A 1 HETATM 36 H H13 4CT . . . B 2 4.701 83.793 64.788 1 48.61 ? H13 4CT 301 A 1 HETATM 37 H H14 4CT . . . B 2 4.723 81.515 65.348 1 47 ? H14 4CT 301 A 1 HETATM 38 H H2' 4CT . . . B 2 2.981 75.518 67.614 1 33.94 ? H2' 4CT 301 A 1 HETATM 39 H "H2'A" 4CT . . . B 2 4.532 76.209 67.352 1 34.01 ? "H2'A" 4CT 301 A 1 HETATM 40 H H3' 4CT . . . B 2 3.314 77.974 68.19 1 34.03 ? H3' 4CT 301 A 1 HETATM 41 D DO3' 4CT . . . B 2 1.01 77.178 68.137 1 30.08 ? DO3' 4CT 301 A 1 HETATM 42 H H4' 4CT . . . B 2 2.605 78.952 66.057 1 36.71 ? H4' 4CT 301 A 1 HETATM 43 H H5' 4CT . . . B 2 5.356 78.219 66.616 1 38.87 ? H5' 4CT 301 A 1 HETATM 44 H "H5'A" 4CT . . . B 2 4.919 79.484 65.657 1 39.26 ? "H5'A" 4CT 301 A 1 HETATM 45 H H8' 4CT . . . B 2 5.025 82.49 69.306 1 47.34 ? H8' 4CT 301 A 1 HETATM 46 H H9' 4CT . . . B 2 5.003 84.754 68.749 1 47.63 ? H9' 4CT 301 A 1 HETATM 47 D D151 4CT . . . B 2 2.363 75.979 65.52 1 35.96 ? D151 4CT 301 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 21 _model_server_stats.element_count 47 #