data_6KAY # _model_server_result.job_id aC2aLJd8-7nObyYmLJHypg _model_server_result.datetime_utc '2024-11-27 04:20:05' _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 6kay # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 6KAY # _exptl.entry_id 6KAY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 502.752 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-[(4-{2-[(4-cyclohexylbutyl)(cyclohexylcarbamoyl)amino]ethyl}phenyl)sulfanyl]-2-methylpropanoic acid' _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 106.71 _cell.angle_gamma 90 _cell.entry_id 6KAY _cell.length_a 44.71 _cell.length_b 62.14 _cell.length_c 53.127 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6KAY _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C29 H46 N2 O3 S' _chem_comp.formula_weight 502.752 _chem_comp.id 2VN _chem_comp.mon_nstd_flag . _chem_comp.name '2-[(4-{2-[(4-cyclohexylbutyl)(cyclohexylcarbamoyl)amino]ethyl}phenyl)sulfanyl]-2-methylpropanoic acid' _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 C10 C9 2VN sing 1 n n C10 C11 2VN sing 2 n n C14 C15 2VN sing 3 n n C14 C13 2VN sing 4 n n N1 C2 2VN sing 5 n n N1 C7 2VN sing 6 n n C9 N2 2VN sing 7 n n O3 C27 2VN doub 8 n n C3 C2 2VN sing 9 n n C3 C4 2VN sing 10 n n C11 C12 2VN sing 11 n n C15 C16 2VN sing 12 n n C2 C1 2VN sing 13 n n O2 C27 2VN sing 14 n n C27 C26 2VN sing 15 n n C13 C12 2VN sing 16 n n C13 C18 2VN sing 17 n n C7 O1 2VN doub 18 n n C7 N2 2VN sing 19 n n C29 C26 2VN sing 20 n n C28 C26 2VN sing 21 n n N2 C8 2VN sing 22 n n C26 S1 2VN sing 23 n n C4 C55 2VN sing 24 n n C16 C17 2VN sing 25 n n C18 C17 2VN sing 26 n n C1 C6 2VN sing 27 n n C8 C19 2VN sing 28 n n C55 C6 2VN sing 29 n n S1 C23 2VN sing 30 n n C22 C23 2VN doub 31 n y C22 C21 2VN sing 32 n y C23 C24 2VN sing 33 n y C21 C20 2VN doub 34 n y C24 C25 2VN doub 35 n y C20 C25 2VN sing 36 n y C20 C19 2VN sing 37 n n C1 H2 2VN sing 38 n n C1 H1 2VN sing 39 n n C10 H18 2VN sing 40 n n C10 H17 2VN sing 41 n n C11 H20 2VN sing 42 n n C11 H19 2VN sing 43 n n C12 H22 2VN sing 44 n n C12 H21 2VN sing 45 n n C13 H23 2VN sing 46 n n C14 H24 2VN sing 47 n n C14 H25 2VN sing 48 n n C15 H26 2VN sing 49 n n C15 H27 2VN sing 50 n n C16 H28 2VN sing 51 n n C16 H29 2VN sing 52 n n C17 H31 2VN sing 53 n n C17 H30 2VN sing 54 n n C18 H32 2VN sing 55 n n C18 H33 2VN sing 56 n n C19 H35 2VN sing 57 n n C19 H34 2VN sing 58 n n C2 H3 2VN sing 59 n n C21 HK6 2VN sing 60 n n C22 HL7 2VN sing 61 n n C24 HL8 2VN sing 62 n n C25 HK9 2VN sing 63 n n C28 HJ2 2VN sing 64 n n C28 HJ1 2VN sing 65 n n C28 HJ0 2VN sing 66 n n C29 HJ4 2VN sing 67 n n C29 HJ5 2VN sing 68 n n C29 HJ3 2VN sing 69 n n C3 H4 2VN sing 70 n n C3 H5 2VN sing 71 n n C4 H7 2VN sing 72 n n C4 H6 2VN sing 73 n n C55 H9 2VN sing 74 n n C55 H8 2VN sing 75 n n C6 H11 2VN sing 76 n n C6 H10 2VN sing 77 n n C8 H14 2VN sing 78 n n C8 H13 2VN sing 79 n n C9 H16 2VN sing 80 n n C9 H15 2VN sing 81 n n N1 H12 2VN sing 82 n n O2 H36 2VN sing 83 n n # _atom_sites.entry_id 6KAY _atom_sites.fract_transf_matrix[1][1] 0.022366 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006714 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016093 _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] 0.019653 _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 2VN A 1 501 1 2VN G77 . C 3 GOL A 1 502 1 GOL GOL . D 4 HOH A 1 601 25 HOH HOH . D 4 HOH A 2 602 73 HOH HOH . D 4 HOH A 3 603 13 HOH HOH . D 4 HOH A 4 604 44 HOH HOH . D 4 HOH A 5 605 21 HOH HOH . D 4 HOH A 6 606 31 HOH HOH . D 4 HOH A 7 607 23 HOH HOH . D 4 HOH A 8 608 29 HOH HOH . D 4 HOH A 9 609 75 HOH HOH . D 4 HOH A 10 610 56 HOH HOH . D 4 HOH A 11 611 34 HOH HOH . D 4 HOH A 12 612 48 HOH HOH . D 4 HOH A 13 613 46 HOH HOH . D 4 HOH A 14 614 17 HOH HOH . D 4 HOH A 15 615 4 HOH HOH . D 4 HOH A 16 616 27 HOH HOH . D 4 HOH A 17 617 10 HOH HOH . D 4 HOH A 18 618 77 HOH HOH . D 4 HOH A 19 619 6 HOH HOH . D 4 HOH A 20 620 43 HOH HOH . D 4 HOH A 21 621 1 HOH HOH . D 4 HOH A 22 622 22 HOH HOH . D 4 HOH A 23 623 39 HOH HOH . D 4 HOH A 24 624 24 HOH HOH . D 4 HOH A 25 625 66 HOH HOH . D 4 HOH A 26 626 58 HOH HOH . D 4 HOH A 27 627 63 HOH HOH . D 4 HOH A 28 628 38 HOH HOH . D 4 HOH A 29 629 42 HOH HOH . D 4 HOH A 30 630 61 HOH HOH . D 4 HOH A 31 631 45 HOH HOH . D 4 HOH A 32 632 16 HOH HOH . D 4 HOH A 33 633 47 HOH HOH . D 4 HOH A 34 634 49 HOH HOH . D 4 HOH A 35 635 2 HOH HOH . D 4 HOH A 36 636 40 HOH HOH . D 4 HOH A 37 637 33 HOH HOH . D 4 HOH A 38 638 32 HOH HOH . D 4 HOH A 39 639 57 HOH HOH . D 4 HOH A 40 640 9 HOH HOH . D 4 HOH A 41 641 37 HOH HOH . D 4 HOH A 42 642 15 HOH HOH . D 4 HOH A 43 643 7 HOH HOH . D 4 HOH A 44 644 14 HOH HOH . D 4 HOH A 45 645 3 HOH HOH . D 4 HOH A 46 646 28 HOH HOH . D 4 HOH A 47 647 20 HOH HOH . D 4 HOH A 48 648 5 HOH HOH . D 4 HOH A 49 649 67 HOH HOH . D 4 HOH A 50 650 30 HOH HOH . D 4 HOH A 51 651 41 HOH HOH . D 4 HOH A 52 652 12 HOH HOH . D 4 HOH A 53 653 26 HOH HOH . D 4 HOH A 54 654 78 HOH HOH . D 4 HOH A 55 655 35 HOH HOH . D 4 HOH A 56 656 8 HOH HOH . D 4 HOH A 57 657 54 HOH HOH . D 4 HOH A 58 658 60 HOH HOH . D 4 HOH A 59 659 11 HOH HOH . D 4 HOH A 60 660 62 HOH HOH . D 4 HOH A 61 661 19 HOH HOH . D 4 HOH A 62 662 36 HOH HOH . D 4 HOH A 63 663 64 HOH HOH . D 4 HOH A 64 664 50 HOH HOH . D 4 HOH A 65 665 69 HOH HOH . D 4 HOH A 66 666 70 HOH HOH . D 4 HOH A 67 667 72 HOH HOH . D 4 HOH A 68 668 59 HOH HOH . D 4 HOH A 69 669 18 HOH HOH . D 4 HOH A 70 670 74 HOH HOH . D 4 HOH A 71 671 68 HOH HOH . D 4 HOH A 72 672 71 HOH HOH . D 4 HOH A 73 673 52 HOH HOH . D 4 HOH A 74 674 55 HOH HOH . D 4 HOH A 75 675 76 HOH HOH . D 4 HOH A 76 676 51 HOH HOH . D 4 HOH A 77 677 53 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 C26 2VN . . . B 2 16.186 3.016 -2.144 1 29.14 ? C26 2VN 501 A 1 HETATM 2 C C1 2VN . . . B 2 6.382 7.628 -2.751 1 27.98 ? C1 2VN 501 A 1 HETATM 3 C C10 2VN . . . B 2 10.049 7.486 -7.477 1 16.57 ? C10 2VN 501 A 1 HETATM 4 C C11 2VN . . . B 2 10.254 7.597 -8.989 1 19.82 ? C11 2VN 501 A 1 HETATM 5 C C12 2VN . . . B 2 10.824 8.976 -9.301 1 17.65 ? C12 2VN 501 A 1 HETATM 6 C C13 2VN . . . B 2 10.725 9.247 -10.799 1 23.96 ? C13 2VN 501 A 1 HETATM 7 C C14 2VN . . . B 2 11.806 8.438 -11.487 1 21.41 ? C14 2VN 501 A 1 HETATM 8 C C15 2VN . . . B 2 11.796 8.689 -13.001 1 23.69 ? C15 2VN 501 A 1 HETATM 9 C C16 2VN . . . B 2 11.915 10.174 -13.321 1 23.68 ? C16 2VN 501 A 1 HETATM 10 C C17 2VN . . . B 2 10.859 10.996 -12.574 1 23.92 ? C17 2VN 501 A 1 HETATM 11 C C18 2VN . . . B 2 10.964 10.725 -11.078 1 22.15 ? C18 2VN 501 A 1 HETATM 12 C C19 2VN . . . B 2 9.997 3.666 -4.884 1 22.69 ? C19 2VN 501 A 1 HETATM 13 C C2 2VN . . . B 2 6.446 6.164 -3.165 1 22.37 ? C2 2VN 501 A 1 HETATM 14 C C20 2VN . . . B 2 11.357 3.135 -4.42 1 26.25 ? C20 2VN 501 A 1 HETATM 15 C C21 2VN . . . B 2 12.333 2.887 -5.372 1 25.43 ? C21 2VN 501 A 1 HETATM 16 C C22 2VN . . . B 2 13.578 2.435 -4.98 1 21.67 ? C22 2VN 501 A 1 HETATM 17 C C23 2VN . . . B 2 13.848 2.233 -3.647 1 22.58 ? C23 2VN 501 A 1 HETATM 18 C C24 2VN . . . B 2 12.882 2.493 -2.686 1 23.29 ? C24 2VN 501 A 1 HETATM 19 C C25 2VN . . . B 2 11.633 2.953 -3.073 1 24.06 ? C25 2VN 501 A 1 HETATM 20 C C27 2VN . . . B 2 15.533 2.926 -0.77 1 27.07 ? C27 2VN 501 A 1 HETATM 21 C C28 2VN . . . B 2 17.695 2.866 -2.017 1 26.65 ? C28 2VN 501 A 1 HETATM 22 C C29 2VN . . . B 2 15.869 4.389 -2.735 1 29.86 ? C29 2VN 501 A 1 HETATM 23 C C3 2VN . . . B 2 6.338 5.226 -1.96 1 23.98 ? C3 2VN 501 A 1 HETATM 24 C C4 2VN . . . B 2 5.063 5.501 -1.168 1 26.26 ? C4 2VN 501 A 1 HETATM 25 C C55 2VN . . . B 2 4.924 6.972 -0.793 1 26.56 ? C55 2VN 501 A 1 HETATM 26 C C6 2VN . . . B 2 5.078 7.886 -1.999 1 31.81 ? C6 2VN 501 A 1 HETATM 27 C C7 2VN . . . B 2 7.91 6.178 -5.195 1 21.67 ? C7 2VN 501 A 1 HETATM 28 C C8 2VN . . . B 2 10.204 5.182 -4.973 1 25.46 ? C8 2VN 501 A 1 HETATM 29 C C9 2VN . . . B 2 9.436 6.118 -7.191 1 20.77 ? C9 2VN 501 A 1 HETATM 30 N N2 2VN . . . B 2 9.188 5.838 -5.779 1 21.65 ? N2 2VN 501 A 1 HETATM 31 N N1 2VN . . . B 2 7.705 5.863 -3.796 1 20.62 ? N1 2VN 501 A 1 HETATM 32 O O2 2VN . . . B 2 15.573 1.844 -0.117 1 29.15 -1 O2 2VN 501 A 1 HETATM 33 O O1 2VN . . . B 2 7.061 6.711 -5.83 1 21.27 ? O1 2VN 501 A 1 HETATM 34 O O3 2VN . . . B 2 14.95 3.941 -0.312 1 25.67 ? O3 2VN 501 A 1 HETATM 35 S S1 2VN . . . B 2 15.492 1.674 -3.147 1 25.32 ? S1 2VN 501 A 1 HETATM 36 H H2 2VN . . . B 2 7.133 7.833 -2.173 1 33.58 ? H2 2VN 501 A 1 HETATM 37 H H1 2VN . . . B 2 6.413 8.188 -3.543 1 33.58 ? H1 2VN 501 A 1 HETATM 38 H H18 2VN . . . B 2 10.903 7.566 -7.023 1 19.89 ? H18 2VN 501 A 1 HETATM 39 H H17 2VN . . . B 2 9.449 8.186 -7.174 1 19.89 ? H17 2VN 501 A 1 HETATM 40 H H20 2VN . . . B 2 9.404 7.486 -9.442 1 23.78 ? H20 2VN 501 A 1 HETATM 41 H H19 2VN . . . B 2 10.874 6.913 -9.285 1 23.78 ? H19 2VN 501 A 1 HETATM 42 H H22 2VN . . . B 2 10.322 9.65 -8.817 1 21.18 ? H22 2VN 501 A 1 HETATM 43 H H21 2VN . . . B 2 11.755 9.009 -9.028 1 21.18 ? H21 2VN 501 A 1 HETATM 44 H H23 2VN . . . B 2 9.852 8.985 -11.132 1 28.75 ? H23 2VN 501 A 1 HETATM 45 H H24 2VN . . . B 2 12.67 8.693 -11.129 1 25.7 ? H24 2VN 501 A 1 HETATM 46 H H25 2VN . . . B 2 11.651 7.495 -11.32 1 25.7 ? H25 2VN 501 A 1 HETATM 47 H H26 2VN . . . B 2 12.542 8.218 -13.404 1 28.43 ? H26 2VN 501 A 1 HETATM 48 H H27 2VN . . . B 2 10.965 8.352 -13.371 1 28.43 ? H27 2VN 501 A 1 HETATM 49 H H28 2VN . . . B 2 12.797 10.482 -13.061 1 28.42 ? H28 2VN 501 A 1 HETATM 50 H H29 2VN . . . B 2 11.798 10.301 -14.275 1 28.42 ? H29 2VN 501 A 1 HETATM 51 H H31 2VN . . . B 2 11.009 11.94 -12.741 1 28.7 ? H31 2VN 501 A 1 HETATM 52 H H30 2VN . . . B 2 9.976 10.744 -12.885 1 28.7 ? H30 2VN 501 A 1 HETATM 53 H H32 2VN . . . B 2 10.298 11.252 -10.609 1 26.58 ? H32 2VN 501 A 1 HETATM 54 H H33 2VN . . . B 2 11.851 10.97 -10.769 1 26.58 ? H33 2VN 501 A 1 HETATM 55 H H35 2VN . . . B 2 9.769 3.302 -5.754 1 27.22 ? H35 2VN 501 A 1 HETATM 56 H H34 2VN . . . B 2 9.309 3.454 -4.234 1 27.22 ? H34 2VN 501 A 1 HETATM 57 H H3 2VN . . . B 2 5.721 5.975 -3.781 1 26.84 ? H3 2VN 501 A 1 HETATM 58 H HK6 2VN . . . B 2 12.149 3.021 -6.274 1 30.52 ? HK6 2VN 501 A 1 HETATM 59 H HL7 2VN . . . B 2 14.233 2.266 -5.618 1 26.01 ? HL7 2VN 501 A 1 HETATM 60 H HL8 2VN . . . B 2 13.075 2.367 -1.784 1 27.94 ? HL8 2VN 501 A 1 HETATM 61 H HK9 2VN . . . B 2 10.98 3.126 -2.434 1 28.87 ? HK9 2VN 501 A 1 HETATM 62 H HJ2 2VN . . . B 2 17.9 2.026 -1.577 1 31.98 ? HJ2 2VN 501 A 1 HETATM 63 H HJ1 2VN . . . B 2 18.096 2.875 -2.9 1 31.98 ? HJ1 2VN 501 A 1 HETATM 64 H HJ0 2VN . . . B 2 18.05 3.6 -1.492 1 31.98 ? HJ0 2VN 501 A 1 HETATM 65 H HJ4 2VN . . . B 2 14.914 4.463 -2.887 1 35.83 ? HJ4 2VN 501 A 1 HETATM 66 H HJ5 2VN . . . B 2 16.152 5.08 -2.116 1 35.83 ? HJ5 2VN 501 A 1 HETATM 67 H HJ3 2VN . . . B 2 16.34 4.496 -3.576 1 35.83 ? HJ3 2VN 501 A 1 HETATM 68 H H4 2VN . . . B 2 6.326 4.308 -2.272 1 28.78 ? H4 2VN 501 A 1 HETATM 69 H H5 2VN . . . B 2 7.106 5.362 -1.382 1 28.78 ? H5 2VN 501 A 1 HETATM 70 H H7 2VN . . . B 2 4.299 5.242 -1.706 1 31.52 ? H7 2VN 501 A 1 HETATM 71 H H6 2VN . . . B 2 5.078 4.971 -0.356 1 31.52 ? H6 2VN 501 A 1 HETATM 72 H H9 2VN . . . B 2 5.606 7.196 -0.14 1 31.87 ? H9 2VN 501 A 1 HETATM 73 H H8 2VN . . . B 2 4.048 7.114 -0.402 1 31.87 ? H8 2VN 501 A 1 HETATM 74 H H11 2VN . . . B 2 5.068 8.808 -1.697 1 38.17 ? H11 2VN 501 A 1 HETATM 75 H H10 2VN . . . B 2 4.333 7.738 -2.602 1 38.17 ? H10 2VN 501 A 1 HETATM 76 H H14 2VN . . . B 2 11.074 5.358 -5.364 1 30.55 ? H14 2VN 501 A 1 HETATM 77 H H13 2VN . . . B 2 10.181 5.554 -4.077 1 30.55 ? H13 2VN 501 A 1 HETATM 78 H H16 2VN . . . B 2 10.034 5.437 -7.537 1 24.92 ? H16 2VN 501 A 1 HETATM 79 H H15 2VN . . . B 2 8.593 6.056 -7.667 1 24.92 ? H15 2VN 501 A 1 HETATM 80 H H12 2VN . . . B 2 8.327 5.473 -3.348 1 24.75 ? H12 2VN 501 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 80 #