data_6NAE # _model_server_result.job_id -i8jqOOS7c_GcJDmhGwVRA _model_server_result.datetime_utc '2024-11-24 17:03:56' _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 6nae # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":608}' # _entry.id 6NAE # _exptl.entry_id 6NAE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 366.54 _entity.id 6 _entity.src_method man _entity.type non-polymer _entity.pdbx_description (1S,3R,5R,7S)-N-(trans-4-aminocyclohexyl)-3-methyl-5-phenyltricyclo[3.3.1.1~3,7~]decane-1-carboxamide _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 6NAE _cell.length_a 113.25 _cell.length_b 113.25 _cell.length_c 307.21 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6NAE _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,M,N,O _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' 2_565 -y,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -56.625 98.077377 0 3 'crystal symmetry operation' 3_455 -x+y-1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -113.25 0 0 # _struct_asym.details ? _struct_asym.entity_id 6 _struct_asym.id K _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 3 5 3 MAN BMA C1 O1 . O6 HO6 . 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 3 n C NAG 1 C 1 NAG B 701 NAG 3 n C NAG 2 C 2 NAG B 702 NAG 3 n C BMA 3 C 3 BMA B 703 BMA 3 n C MAN 4 C 4 MAN B 902 MAN 3 n C MAN 5 C 5 MAN B 704 MAN # 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 26 A CYS 53 1_555 B SG CYS 108 B CYS 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 81 A CYS 108 1_555 A SG CYS 108 A CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 94 A CYS 121 1_555 A SG CYS 120 A CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf4 B SG CYS 10 B CYS 511 1_555 B SG CYS 55 B CYS 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 B SG CYS 100 B CYS 601 1_555 B SG CYS 107 B CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 201 A ASN 228 1_555 G C1 NAG . A NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale2 A ND2 ASN 211 A ASN 238 1_555 E C1 NAG . A NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale3 A ND2 ASN 230 A ASN 257 1_555 D C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 A ND2 ASN 241 A ASN 268 1_555 F C1 NAG . A NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 B ND2 ASN 62 B ASN 563 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale7 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale8 C O3 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale9 C O6 BMA . C BMA 3 1_555 C C1 MAN . C MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.468 ? # _chem_comp.formula 'C24 H34 N2 O' _chem_comp.formula_weight 366.54 _chem_comp.id KHG _chem_comp.mon_nstd_flag . _chem_comp.name (1S,3R,5R,7S)-N-(trans-4-aminocyclohexyl)-3-methyl-5-phenyltricyclo[3.3.1.1~3,7~]decane-1-carboxamide _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 C12 C11 KHG doub 210 n y C12 C13 KHG sing 211 n y C11 C10 KHG sing 212 n y C13 C14 KHG doub 213 n y C10 C09 KHG doub 214 n y C14 C09 KHG sing 215 n y C09 C07 KHG sing 216 n n C15 C07 KHG sing 217 n n C15 C16 KHG sing 218 n n C07 C08 KHG sing 219 n n C07 C06 KHG sing 220 n n C08 C04 KHG sing 221 n n O26 C17 KHG doub 222 n n C24 C25 KHG sing 223 n n C24 C22 KHG sing 224 n n C25 C19 KHG sing 225 n n C17 C16 KHG sing 226 n n C17 N18 KHG sing 227 n n C06 C02 KHG sing 228 n n C16 C05 KHG sing 229 n n C16 C27 KHG sing 230 n n C05 C04 KHG sing 231 n n C04 C03 KHG sing 232 n n N18 C19 KHG sing 233 n n C22 N23 KHG sing 234 n n C22 C21 KHG sing 235 n n C19 C20 KHG sing 236 n n C27 C02 KHG sing 237 n n C02 C03 KHG sing 238 n n C02 C01 KHG sing 239 n n C21 C20 KHG sing 240 n n C12 H1 KHG sing 241 n n C13 H2 KHG sing 242 n n C14 H3 KHG sing 243 n n C15 H4 KHG sing 244 n n C15 H5 KHG sing 245 n n C21 H6 KHG sing 246 n n C21 H7 KHG sing 247 n n C22 H8 KHG sing 248 n n C27 H9 KHG sing 249 n n C27 H10 KHG sing 250 n n C24 H11 KHG sing 251 n n C24 H12 KHG sing 252 n n C01 H13 KHG sing 253 n n C01 H14 KHG sing 254 n n C01 H15 KHG sing 255 n n C03 H16 KHG sing 256 n n C03 H17 KHG sing 257 n n C04 H18 KHG sing 258 n n C05 H19 KHG sing 259 n n C05 H20 KHG sing 260 n n C06 H21 KHG sing 261 n n C06 H22 KHG sing 262 n n C08 H23 KHG sing 263 n n C08 H24 KHG sing 264 n n C10 H25 KHG sing 265 n n C11 H26 KHG sing 266 n n C19 H27 KHG sing 267 n n C20 H28 KHG sing 268 n n C20 H29 KHG sing 269 n n C25 H30 KHG sing 270 n n C25 H31 KHG sing 271 n n N18 H32 KHG sing 272 n n N23 H33 KHG sing 273 n n N23 H34 KHG sing 274 n n # _atom_sites.entry_id 6NAE _atom_sites.fract_transf_matrix[1][1] 0.00883 _atom_sites.fract_transf_matrix[1][2] 0.005098 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010196 _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] 0.003255 _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 D 4 NAG A 1 601 601 NAG NAG . E 4 NAG A 1 602 602 NAG NAG . F 4 NAG A 1 603 603 NAG NAG . G 4 NAG A 1 604 604 NAG NAG . H 5 GOL A 1 605 606 GOL GOL . I 5 GOL A 1 606 701 GOL GOL . J 5 GOL A 1 607 801 GOL GOL . K 6 KHG A 1 608 901 KHG 898 . L 5 GOL A 1 609 1001 GOL GOL . M 5 GOL B 1 706 705 GOL GOL . N 7 HOH A 1 701 14 HOH HOH . N 7 HOH A 2 702 17 HOH HOH . N 7 HOH A 3 703 3 HOH HOH . N 7 HOH A 4 704 19 HOH HOH . N 7 HOH A 5 705 9 HOH HOH . N 7 HOH A 6 706 6 HOH HOH . N 7 HOH A 7 707 2 HOH HOH . N 7 HOH A 8 708 30 HOH HOH . N 7 HOH A 9 709 1 HOH HOH . N 7 HOH A 10 710 21 HOH HOH . N 7 HOH A 11 711 28 HOH HOH . N 7 HOH A 12 712 16 HOH HOH . N 7 HOH A 13 713 20 HOH HOH . N 7 HOH A 14 714 11 HOH HOH . N 7 HOH A 15 715 18 HOH HOH . N 7 HOH A 16 716 7 HOH HOH . N 7 HOH A 17 717 22 HOH HOH . N 7 HOH A 18 718 4 HOH HOH . N 7 HOH A 19 719 8 HOH HOH . N 7 HOH A 20 720 36 HOH HOH . N 7 HOH A 21 721 32 HOH HOH . N 7 HOH A 22 722 10 HOH HOH . N 7 HOH A 23 723 25 HOH HOH . N 7 HOH A 24 724 24 HOH HOH . N 7 HOH A 25 725 13 HOH HOH . N 7 HOH A 26 726 15 HOH HOH . N 7 HOH A 27 727 29 HOH HOH . N 7 HOH A 28 728 27 HOH HOH . N 7 HOH A 29 729 26 HOH HOH . N 7 HOH A 30 730 50 HOH HOH . N 7 HOH A 31 731 40 HOH HOH . N 7 HOH A 32 732 12 HOH HOH . N 7 HOH A 33 733 42 HOH HOH . N 7 HOH A 34 734 31 HOH HOH . N 7 HOH A 35 735 48 HOH HOH . N 7 HOH A 36 736 35 HOH HOH . N 7 HOH A 37 737 75 HOH HOH . N 7 HOH A 38 738 41 HOH HOH . N 7 HOH A 39 739 44 HOH HOH . N 7 HOH A 40 740 38 HOH HOH . N 7 HOH A 41 741 37 HOH HOH . N 7 HOH A 42 742 47 HOH HOH . N 7 HOH A 43 743 39 HOH HOH . N 7 HOH A 44 744 5 HOH HOH . N 7 HOH A 45 745 33 HOH HOH . N 7 HOH A 46 746 43 HOH HOH . N 7 HOH A 47 747 83 HOH HOH . N 7 HOH A 48 748 46 HOH HOH . N 7 HOH A 49 749 49 HOH HOH . N 7 HOH A 50 750 79 HOH HOH . N 7 HOH A 51 751 34 HOH HOH . N 7 HOH A 52 752 45 HOH HOH . N 7 HOH A 53 753 77 HOH HOH . N 7 HOH A 54 754 84 HOH HOH . N 7 HOH A 55 755 76 HOH HOH . N 7 HOH A 56 756 78 HOH HOH . N 7 HOH A 57 757 51 HOH HOH . O 7 HOH B 1 801 53 HOH HOH . O 7 HOH B 2 802 55 HOH HOH . O 7 HOH B 3 803 56 HOH HOH . O 7 HOH B 4 804 61 HOH HOH . O 7 HOH B 5 805 63 HOH HOH . O 7 HOH B 6 806 62 HOH HOH . O 7 HOH B 7 807 60 HOH HOH . O 7 HOH B 8 808 58 HOH HOH . O 7 HOH B 9 809 59 HOH HOH . O 7 HOH B 10 810 52 HOH HOH . O 7 HOH B 11 811 23 HOH HOH . O 7 HOH B 12 812 54 HOH HOH . O 7 HOH B 13 813 88 HOH HOH . O 7 HOH B 14 814 67 HOH HOH . O 7 HOH B 15 815 57 HOH HOH . O 7 HOH B 16 816 65 HOH HOH . O 7 HOH B 17 817 82 HOH HOH . O 7 HOH B 18 818 70 HOH HOH . O 7 HOH B 19 819 66 HOH HOH . O 7 HOH B 20 820 80 HOH HOH . O 7 HOH B 21 821 71 HOH HOH . O 7 HOH B 22 822 85 HOH HOH . O 7 HOH B 23 823 64 HOH HOH . O 7 HOH B 24 824 68 HOH HOH . O 7 HOH B 25 825 81 HOH HOH . O 7 HOH B 26 826 87 HOH HOH . O 7 HOH B 27 827 69 HOH HOH . O 7 HOH B 28 828 86 HOH HOH . O 7 HOH B 29 829 72 HOH HOH . O 7 HOH B 30 830 74 HOH HOH . O 7 HOH B 31 831 73 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 C12 KHG . . . K 6 -47.325 11.124 -12.074 1 64.63 ? C12 KHG 608 A 1 HETATM 2 C C13 KHG . . . K 6 -47.833 10.68 -10.871 1 84.61 ? C13 KHG 608 A 1 HETATM 3 C C14 KHG . . . K 6 -47.274 11.095 -9.671 1 87.3 ? C14 KHG 608 A 1 HETATM 4 C C15 KHG . . . K 6 -45.063 13.866 -8.4 1 53.02 ? C15 KHG 608 A 1 HETATM 5 C C21 KHG . . . K 6 -40.29 15.897 -5.064 1 72.77 ? C21 KHG 608 A 1 HETATM 6 C C22 KHG . . . K 6 -39.408 15.882 -6.328 1 96.93 ? C22 KHG 608 A 1 HETATM 7 C C27 KHG . . . K 6 -45.377 14.116 -5.922 1 73.69 ? C27 KHG 608 A 1 HETATM 8 C C24 KHG . . . K 6 -40.25 16.08 -7.605 1 80.15 ? C24 KHG 608 A 1 HETATM 9 C C01 KHG . . . K 6 -46.863 12.49 -4.674 1 66.83 ? C01 KHG 608 A 1 HETATM 10 C C02 KHG . . . K 6 -45.854 12.656 -5.819 1 67.88 ? C02 KHG 608 A 1 HETATM 11 C C03 KHG . . . K 6 -44.636 11.749 -5.575 1 68.02 ? C03 KHG 608 A 1 HETATM 12 C C04 KHG . . . K 6 -43.639 11.87 -6.737 1 80.6 ? C04 KHG 608 A 1 HETATM 13 C C05 KHG . . . K 6 -43.165 13.326 -6.83 1 73.79 ? C05 KHG 608 A 1 HETATM 14 C C06 KHG . . . K 6 -46.518 12.257 -7.148 1 67.63 ? C06 KHG 608 A 1 HETATM 15 C C07 KHG . . . K 6 -45.537 12.396 -8.331 1 57.21 ? C07 KHG 608 A 1 HETATM 16 C C08 KHG . . . K 6 -44.322 11.478 -8.058 1 72.67 ? C08 KHG 608 A 1 HETATM 17 C C09 KHG . . . K 6 -46.179 11.946 -9.646 1 70.37 ? C09 KHG 608 A 1 HETATM 18 C C10 KHG . . . K 6 -45.667 12.378 -10.868 1 83.88 ? C10 KHG 608 A 1 HETATM 19 C C11 KHG . . . K 6 -46.234 11.977 -12.064 1 77.31 ? C11 KHG 608 A 1 HETATM 20 C C16 KHG . . . K 6 -44.373 14.256 -7.082 1 74.95 ? C16 KHG 608 A 1 HETATM 21 C C17 KHG . . . K 6 -43.823 15.669 -7.192 1 87.76 ? C17 KHG 608 A 1 HETATM 22 C C19 KHG . . . K 6 -42.066 17.184 -6.288 1 86.67 ? C19 KHG 608 A 1 HETATM 23 C C20 KHG . . . K 6 -41.195 17.143 -5.031 1 85.4 ? C20 KHG 608 A 1 HETATM 24 C C25 KHG . . . K 6 -41.149 17.322 -7.508 1 71.13 ? C25 KHG 608 A 1 HETATM 25 N N18 KHG . . . K 6 -42.784 15.907 -6.358 1 87.28 ? N18 KHG 608 A 1 HETATM 26 N N23 KHG . . . K 6 -38.44 16.988 -6.223 1 86.56 ? N23 KHG 608 A 1 HETATM 27 O O26 KHG . . . K 6 -44.265 16.506 -7.97 1 83.66 ? O26 KHG 608 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 32 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 27 #