data_6VKC # _model_server_result.job_id P7ZXC4tZvikZskmy-mVadw _model_server_result.datetime_utc '2024-12-21 13:54:31' _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 6vkc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":610}' # _entry.id 6VKC # _exptl.entry_id 6VKC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 450.845 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 3-{[5-chloro-1-(4,4,4-trifluorobutyl)-1H-imidazo[4,5-b]pyridin-2-yl]methyl}-1-cyclopropyl-1,3-dihydro-2H-imidazo[4,5-c]pyridin-2-one _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 6VKC _cell.length_a 168.04 _cell.length_b 168.04 _cell.length_c 168.04 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VKC _symmetry.cell_setting ? _symmetry.Int_Tables_number 213 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,H,I,J,K,L _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 3 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id J _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 FUC _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O6 _pdbx_entity_branch_link.leaving_atom_id_2 HO6 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 A 1 NAG F 800 NAG 2 n B FUC 2 A 2 FUC F 801 FUC # 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 37 F CYS 37 1_555 A SG CYS 439 F CYS 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf2 A SG CYS 155 F CYS 155 1_555 A SG CYS 290 F CYS 290 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf3 A SG CYS 313 F CYS 313 1_555 A SG CYS 343 F CYS 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf4 A SG CYS 322 F CYS 322 1_555 A SG CYS 333 F CYS 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf5 A SG CYS 358 F CYS 358 1_555 A SG CYS 367 F CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf6 A SG CYS 382 F CYS 382 1_555 A SG CYS 393 F CYS 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf7 A SG CYS 416 F CYS 416 1_555 A SG CYS 422 F CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? covale ? covale1 A ND2 ASN 500 F ASN 500 1_555 B C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale2 B O6 NAG . A NAG 1 1_555 B C1 FUC . A FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? # _chem_comp.formula 'C20 H18 Cl F3 N6 O' _chem_comp.formula_weight 450.845 _chem_comp.id R0J _chem_comp.mon_nstd_flag . _chem_comp.name 3-{[5-chloro-1-(4,4,4-trifluorobutyl)-1H-imidazo[4,5-b]pyridin-2-yl]methyl}-1-cyclopropyl-1,3-dihydro-2H-imidazo[4,5-c]pyridin-2-one _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 C16 C17 R0J sing 330 n n C16 C15 R0J sing 331 n n O13 C12 R0J doub 332 n n C17 C15 R0J sing 333 n n C15 N14 R0J sing 334 n n C12 N14 R0J sing 335 n n C12 N11 R0J sing 336 n n F03 C02 R0J sing 337 n n N14 C18 R0J sing 338 n n C10 N11 R0J sing 339 n n C10 C09 R0J sing 340 n n F04 C02 R0J sing 341 n n N11 C23 R0J sing 342 n n C07 C06 R0J sing 343 n n C07 N08 R0J sing 344 n n C05 C02 R0J sing 345 n n C05 C06 R0J sing 346 n n C02 F01 R0J sing 347 n n C18 C23 R0J doub 348 n y C18 C19 R0J sing 349 n y C09 N08 R0J sing 350 n y C09 N24 R0J doub 351 n y N08 C31 R0J sing 352 n y C23 C22 R0J sing 353 n y C19 C20 R0J doub 354 n y N24 C25 R0J sing 355 n y C31 C25 R0J doub 356 n y C31 C30 R0J sing 357 n y C22 N21 R0J doub 358 n y C25 N26 R0J sing 359 n y C30 C29 R0J doub 360 n y C20 N21 R0J sing 361 n y N26 C27 R0J doub 362 n y C29 C27 R0J sing 363 n y C27 CL28 R0J sing 364 n n C10 H1 R0J sing 365 n n C10 H2 R0J sing 366 n n C15 H3 R0J sing 367 n n C17 H4 R0J sing 368 n n C17 H5 R0J sing 369 n n C20 H6 R0J sing 370 n n C22 H7 R0J sing 371 n n C05 H8 R0J sing 372 n n C05 H9 R0J sing 373 n n C06 H10 R0J sing 374 n n C06 H11 R0J sing 375 n n C07 H12 R0J sing 376 n n C07 H13 R0J sing 377 n n C16 H14 R0J sing 378 n n C16 H15 R0J sing 379 n n C19 H16 R0J sing 380 n n C29 H17 R0J sing 381 n n C30 H18 R0J sing 382 n n # _atom_sites.entry_id 6VKC _atom_sites.fract_transf_matrix[1][1] 0.005951 _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] 0.005951 _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] 0.005951 _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 CL F 1 603 1 CL CL . D 4 SO4 F 1 604 1 SO4 SO4 . E 4 SO4 F 1 605 2 SO4 SO4 . F 4 SO4 F 1 606 3 SO4 SO4 . G 4 SO4 F 1 607 4 SO4 SO4 . H 4 SO4 F 1 608 5 SO4 SO4 . I 4 SO4 F 1 609 6 SO4 SO4 . J 5 R0J F 1 610 1 R0J LIG . K 6 TAR F 1 611 1 TAR TAR . L 7 HOH F 1 701 55 HOH HOH . L 7 HOH F 2 702 34 HOH HOH . L 7 HOH F 3 703 27 HOH HOH . L 7 HOH F 4 704 20 HOH HOH . L 7 HOH F 5 705 48 HOH HOH . L 7 HOH F 6 706 4 HOH HOH . L 7 HOH F 7 707 5 HOH HOH . L 7 HOH F 8 708 39 HOH HOH . L 7 HOH F 9 709 19 HOH HOH . L 7 HOH F 10 710 14 HOH HOH . L 7 HOH F 11 711 72 HOH HOH . L 7 HOH F 12 712 81 HOH HOH . L 7 HOH F 13 713 6 HOH HOH . L 7 HOH F 14 714 68 HOH HOH . L 7 HOH F 15 715 85 HOH HOH . L 7 HOH F 16 716 2 HOH HOH . L 7 HOH F 17 717 17 HOH HOH . L 7 HOH F 18 718 62 HOH HOH . L 7 HOH F 19 719 47 HOH HOH . L 7 HOH F 20 720 70 HOH HOH . L 7 HOH F 21 721 51 HOH HOH . L 7 HOH F 22 722 87 HOH HOH . L 7 HOH F 23 723 10 HOH HOH . L 7 HOH F 24 724 11 HOH HOH . L 7 HOH F 25 725 30 HOH HOH . L 7 HOH F 26 726 18 HOH HOH . L 7 HOH F 27 727 53 HOH HOH . L 7 HOH F 28 728 60 HOH HOH . L 7 HOH F 29 729 57 HOH HOH . L 7 HOH F 30 730 26 HOH HOH . L 7 HOH F 31 731 7 HOH HOH . L 7 HOH F 32 732 49 HOH HOH . L 7 HOH F 33 733 44 HOH HOH . L 7 HOH F 34 734 78 HOH HOH . L 7 HOH F 35 735 46 HOH HOH . L 7 HOH F 36 736 3 HOH HOH . L 7 HOH F 37 737 24 HOH HOH . L 7 HOH F 38 738 29 HOH HOH . L 7 HOH F 39 739 71 HOH HOH . L 7 HOH F 40 740 43 HOH HOH . L 7 HOH F 41 741 89 HOH HOH . L 7 HOH F 42 742 23 HOH HOH . L 7 HOH F 43 743 8 HOH HOH . L 7 HOH F 44 744 84 HOH HOH . L 7 HOH F 45 745 77 HOH HOH . L 7 HOH F 46 746 75 HOH HOH . L 7 HOH F 47 747 1 HOH HOH . L 7 HOH F 48 748 40 HOH HOH . L 7 HOH F 49 749 16 HOH HOH . L 7 HOH F 50 750 66 HOH HOH . L 7 HOH F 51 751 67 HOH HOH . L 7 HOH F 52 752 36 HOH HOH . L 7 HOH F 53 753 59 HOH HOH . L 7 HOH F 54 754 35 HOH HOH . L 7 HOH F 55 755 61 HOH HOH . L 7 HOH F 56 756 32 HOH HOH . L 7 HOH F 57 757 25 HOH HOH . L 7 HOH F 58 758 37 HOH HOH . L 7 HOH F 59 759 50 HOH HOH . L 7 HOH F 60 760 22 HOH HOH . L 7 HOH F 61 761 42 HOH HOH . L 7 HOH F 62 762 12 HOH HOH . L 7 HOH F 63 763 21 HOH HOH . L 7 HOH F 64 764 38 HOH HOH . L 7 HOH F 65 765 13 HOH HOH . L 7 HOH F 66 766 9 HOH HOH . L 7 HOH F 67 767 73 HOH HOH . L 7 HOH F 68 768 15 HOH HOH . L 7 HOH F 69 769 54 HOH HOH . L 7 HOH F 70 770 69 HOH HOH . L 7 HOH F 71 771 91 HOH HOH . L 7 HOH F 72 772 74 HOH HOH . L 7 HOH F 73 773 76 HOH HOH . L 7 HOH F 74 774 88 HOH HOH . L 7 HOH F 75 775 65 HOH HOH . L 7 HOH F 76 776 41 HOH HOH . L 7 HOH F 77 777 58 HOH HOH . L 7 HOH F 78 778 45 HOH HOH . L 7 HOH F 79 779 90 HOH HOH . L 7 HOH F 80 780 28 HOH HOH . L 7 HOH F 81 781 80 HOH HOH . L 7 HOH F 82 782 33 HOH HOH . L 7 HOH F 83 783 82 HOH HOH . L 7 HOH F 84 784 31 HOH HOH . L 7 HOH F 85 785 64 HOH HOH . L 7 HOH F 86 786 56 HOH HOH . L 7 HOH F 87 787 86 HOH HOH . L 7 HOH F 88 788 52 HOH HOH . L 7 HOH F 89 789 79 HOH HOH . L 7 HOH F 90 790 83 HOH HOH . L 7 HOH F 91 791 63 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 R0J . . . J 5 19.732 19.942 18.292 0.33 57.31 ? C10 R0J 610 F 1 HETATM 2 C C15 R0J . . . J 5 18.913 14.982 17.209 0.33 57.73 ? C15 R0J 610 F 1 HETATM 3 C C17 R0J . . . J 5 19.546 13.692 16.667 0.33 57.57 ? C17 R0J 610 F 1 HETATM 4 C C20 R0J . . . J 5 20.999 15.789 21.386 0.33 57.2 ? C20 R0J 610 F 1 HETATM 5 C C22 R0J . . . J 5 20.815 18.036 20.746 0.33 57.35 ? C22 R0J 610 F 1 HETATM 6 C C02 R0J . . . J 5 14.7 16.262 18.678 0.33 57.76 ? C02 R0J 610 F 1 HETATM 7 C C05 R0J . . . J 5 15.999 17.1 18.638 0.33 57.74 ? C05 R0J 610 F 1 HETATM 8 C C06 R0J . . . J 5 15.881 18.464 19.368 0.33 57.63 ? C06 R0J 610 F 1 HETATM 9 C C07 R0J . . . J 5 16.629 19.606 18.619 0.33 57.45 ? C07 R0J 610 F 1 HETATM 10 C C09 R0J . . . J 5 18.833 20.571 19.392 0.33 57.49 ? C09 R0J 610 F 1 HETATM 11 C C12 R0J . . . J 5 19.161 17.563 17.402 0.33 57.6 ? C12 R0J 610 F 1 HETATM 12 C C16 R0J . . . J 5 19.222 14.837 15.71 0.33 57.71 ? C16 R0J 610 F 1 HETATM 13 C C18 R0J . . . J 5 19.977 16.31 19.234 0.33 57.49 ? C18 R0J 610 F 1 HETATM 14 C C19 R0J . . . J 5 20.389 15.355 20.194 0.33 57.29 ? C19 R0J 610 F 1 HETATM 15 C C23 R0J . . . J 5 20.201 17.674 19.525 0.33 57.03 ? C23 R0J 610 F 1 HETATM 16 C C25 R0J . . . J 5 18.184 21.736 21.154 0.33 57.02 ? C25 R0J 610 F 1 HETATM 17 C C27 R0J . . . J 5 16.922 22.738 22.848 0.33 56.68 ? C27 R0J 610 F 1 HETATM 18 C C29 R0J . . . J 5 15.747 22.16 22.348 0.33 57.08 ? C29 R0J 610 F 1 HETATM 19 C C30 R0J . . . J 5 15.791 21.343 21.211 0.33 57.18 ? C30 R0J 610 F 1 HETATM 20 C C31 R0J . . . J 5 17.075 21.134 20.612 0.33 57.31 ? C31 R0J 610 F 1 HETATM 21 F F01 R0J . . . J 5 14.143 16.311 19.93 0.33 57.47 ? F01 R0J 610 F 1 HETATM 22 F F03 R0J . . . J 5 13.813 16.761 17.76 0.33 57.61 ? F03 R0J 610 F 1 HETATM 23 F F04 R0J . . . J 5 15.003 14.961 18.371 0.33 57.68 ? F04 R0J 610 F 1 HETATM 24 N N08 R0J . . . J 5 17.495 20.413 19.521 0.33 57.76 ? N08 R0J 610 F 1 HETATM 25 N N11 R0J . . . J 5 19.694 18.468 18.388 0.33 57.5 ? N11 R0J 610 F 1 HETATM 26 N N14 R0J . . . J 5 19.326 16.22 17.903 0.33 57.71 ? N14 R0J 610 F 1 HETATM 27 N N21 R0J . . . J 5 21.19 17.103 21.624 0.33 56.85 ? N21 R0J 610 F 1 HETATM 28 N N24 R0J . . . J 5 19.264 21.366 20.382 0.33 57.25 ? N24 R0J 610 F 1 HETATM 29 N N26 R0J . . . J 5 18.097 22.528 22.264 0.33 56.2 ? N26 R0J 610 F 1 HETATM 30 O O13 R0J . . . J 5 18.67 17.873 16.363 0.33 57.56 ? O13 R0J 610 F 1 HETATM 31 CL CL28 R0J . . . J 5 16.819 23.776 24.297 0.33 56.19 ? CL28 R0J 610 F 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #