data_5AVY # _model_server_result.job_id 4FqZT0ztgo58Ra8k9LxsgA _model_server_result.datetime_utc '2024-11-08 04:41:38' _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 5avy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":3001}' # _entry.id 5AVY # _exptl.entry_id 5AVY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 386.654 _entity.id 9 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description CHOLESTEROL _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 103.63 _cell.angle_gamma 90 _cell.entry_id 5AVY _cell.length_a 220.59 _cell.length_b 50.671 _cell.length_c 163.924 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5AVY _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _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,M _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 9 _struct_asym.id K _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _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 NAG _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 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _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 4 n D NAG 1 C 1 NAG B 4001 NAG 4 n D NAG 2 C 2 NAG B 4002 NAG # 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 B SG CYS 127 B CYS 127 1_555 B SG CYS 150 B CYS 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 B SG CYS 160 B CYS 160 1_555 B SG CYS 176 B CYS 176 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 B SG CYS 215 B CYS 215 1_555 B SG CYS 278 B CYS 278 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 B ND2 ASN 114 B ASN 114 1_555 D C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale2 B ND2 ASN 159 B ASN 159 1_555 L C1 NAG . B NAG 4021 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale3 D O4 NAG . C NAG 1 1_555 D C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? metalc ? metalc1 A O VAL 334 A VAL 329 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.947 ? metalc ? metalc2 A O ALA 335 A ALA 330 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.963 ? metalc ? metalc3 A O VAL 337 A VAL 332 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? metalc ? metalc4 A OE1 GLU 339 A GLU 334 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.251 ? metalc ? metalc5 A OD2 ASP 381 A ASP 376 1_555 E MG MF4 . A MF4 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? metalc ? metalc6 A OD1 ASP 381 A ASP 376 1_555 F MG MG . A MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc7 A O THR 383 A THR 378 1_555 F MG MG . A MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.939 ? metalc ? metalc8 A OD2 ASP 722 A ASP 717 1_555 F MG MG . A MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? metalc ? metalc9 A O LEU 730 A LEU 725 1_555 I K K . A K 2005 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.981 ? metalc ? metalc10 A O LEU 730 A LEU 725 1_555 J TL TL . A TL 2006 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.981 ? metalc ? metalc11 A O LYS 731 A LYS 726 1_555 I K K . A K 2005 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.84 ? metalc ? metalc12 A O LYS 731 A LYS 726 1_555 J TL TL . A TL 2006 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.84 ? metalc ? metalc13 A O ALA 733 A ALA 728 1_555 I K K . A K 2005 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.688 ? metalc ? metalc14 A O ALA 733 A ALA 728 1_555 J TL TL . A TL 2006 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.688 ? metalc ? metalc15 A OD1 ASP 752 A ASP 747 1_555 I K K . A K 2005 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.961 ? metalc ? metalc16 A OD1 ASP 752 A ASP 747 1_555 J TL TL . A TL 2006 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.961 ? metalc ? metalc17 A O THR 784 A THR 779 1_555 G TL TL . A TL 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.721 ? metalc ? metalc18 A OG SER 787 A SER 782 1_555 G TL TL . A TL 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.718 ? metalc ? metalc19 A OD1 ASN 788 A ASN 783 1_555 G TL TL . A TL 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.822 ? metalc ? metalc20 A OD1 ASN 788 A ASN 783 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.017 ? metalc ? metalc21 A OE2 GLU 791 A GLU 786 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.923 ? metalc ? metalc22 A OD1 ASP 816 A ASP 811 1_555 G TL TL . A TL 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.211 ? metalc ? metalc23 A OD2 ASP 816 A ASP 811 1_555 G TL TL . A TL 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.692 ? metalc ? metalc24 A OD2 ASP 816 A ASP 811 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.893 ? metalc ? metalc25 G TL TL . A TL 2003 1_555 M O HOH . A HOH 2101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.737 ? # _chem_comp.formula 'C27 H46 O' _chem_comp.formula_weight 386.654 _chem_comp.id CLR _chem_comp.mon_nstd_flag . _chem_comp.name CHOLESTEROL _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 C1 C2 CLR sing 70 n n C1 C10 CLR sing 71 n n C1 H11 CLR sing 72 n n C1 H12 CLR sing 73 n n C2 C3 CLR sing 74 n n C2 H21 CLR sing 75 n n C2 H22 CLR sing 76 n n C3 C4 CLR sing 77 n n C3 O1 CLR sing 78 n n C3 H3 CLR sing 79 n n C4 C5 CLR sing 80 n n C4 H41 CLR sing 81 n n C4 H42 CLR sing 82 n n C5 C6 CLR doub 83 n n C5 C10 CLR sing 84 n n C6 C7 CLR sing 85 n n C6 H6 CLR sing 86 n n C7 C8 CLR sing 87 n n C7 H71 CLR sing 88 n n C7 H72 CLR sing 89 n n C8 C9 CLR sing 90 n n C8 C14 CLR sing 91 n n C8 H8 CLR sing 92 n n C9 C10 CLR sing 93 n n C9 C11 CLR sing 94 n n C9 H9 CLR sing 95 n n C10 C19 CLR sing 96 n n C11 C12 CLR sing 97 n n C11 H111 CLR sing 98 n n C11 H112 CLR sing 99 n n C12 C13 CLR sing 100 n n C12 H121 CLR sing 101 n n C12 H122 CLR sing 102 n n C13 C14 CLR sing 103 n n C13 C17 CLR sing 104 n n C13 C18 CLR sing 105 n n C14 C15 CLR sing 106 n n C14 H14 CLR sing 107 n n C15 C16 CLR sing 108 n n C15 H151 CLR sing 109 n n C15 H152 CLR sing 110 n n C16 C17 CLR sing 111 n n C16 H161 CLR sing 112 n n C16 H162 CLR sing 113 n n C17 C20 CLR sing 114 n n C17 H17 CLR sing 115 n n C18 H181 CLR sing 116 n n C18 H182 CLR sing 117 n n C18 H183 CLR sing 118 n n C19 H191 CLR sing 119 n n C19 H192 CLR sing 120 n n C19 H193 CLR sing 121 n n C20 C21 CLR sing 122 n n C20 C22 CLR sing 123 n n C20 H20 CLR sing 124 n n C21 H211 CLR sing 125 n n C21 H212 CLR sing 126 n n C21 H213 CLR sing 127 n n C22 C23 CLR sing 128 n n C22 H221 CLR sing 129 n n C22 H222 CLR sing 130 n n C23 C24 CLR sing 131 n n C23 H231 CLR sing 132 n n C23 H232 CLR sing 133 n n C24 C25 CLR sing 134 n n C24 H241 CLR sing 135 n n C24 H242 CLR sing 136 n n C25 C26 CLR sing 137 n n C25 C27 CLR sing 138 n n C25 H25 CLR sing 139 n n C26 H261 CLR sing 140 n n C26 H262 CLR sing 141 n n C26 H263 CLR sing 142 n n C27 H271 CLR sing 143 n n C27 H272 CLR sing 144 n n C27 H273 CLR sing 145 n n O1 H1 CLR sing 146 n n # _atom_sites.entry_id 5AVY _atom_sites.fract_transf_matrix[1][1] 0.004533 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001099 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019735 _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] 0.006277 _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 E 5 MF4 A 1 2001 2001 MF4 MF4 . F 6 MG A 1 2002 2002 MG MG . G 7 TL A 1 2003 2003 TL TL . H 7 TL A 1 2004 2004 TL TL . I 8 K A 1 2005 2005 K K . J 7 TL A 1 2006 2006 TL TL . K 9 CLR B 1 3001 3001 CLR CLR . L 10 NAG B 1 4021 4021 NAG NAG . M 11 HOH A 1 2101 2101 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 C1 CLR . . . K 9 136.485 -1.545 16.968 1 176.17 ? C1 CLR 3001 B 1 HETATM 2 C C2 CLR . . . K 9 136.201 -1.827 18.452 1 176.16 ? C2 CLR 3001 B 1 HETATM 3 C C3 CLR . . . K 9 135.588 -0.641 19.198 1 176.26 ? C3 CLR 3001 B 1 HETATM 4 C C4 CLR . . . K 9 134.331 -0.159 18.477 1 176.27 ? C4 CLR 3001 B 1 HETATM 5 C C5 CLR . . . K 9 134.655 0.108 17.021 1 176.23 ? C5 CLR 3001 B 1 HETATM 6 C C6 CLR . . . K 9 134.363 1.332 16.545 1 176.1 ? C6 CLR 3001 B 1 HETATM 7 C C7 CLR . . . K 9 134.691 1.79 15.143 1 176.16 ? C7 CLR 3001 B 1 HETATM 8 C C8 CLR . . . K 9 134.824 0.596 14.202 1 176.17 ? C8 CLR 3001 B 1 HETATM 9 C C9 CLR . . . K 9 135.767 -0.461 14.803 1 176.22 ? C9 CLR 3001 B 1 HETATM 10 C C10 CLR . . . K 9 135.292 -0.99 16.175 1 176.17 ? C10 CLR 3001 B 1 HETATM 11 C C11 CLR . . . K 9 136.092 -1.592 13.796 1 176.28 ? C11 CLR 3001 B 1 HETATM 12 C C12 CLR . . . K 9 136.371 -1.164 12.34 1 176.27 ? C12 CLR 3001 B 1 HETATM 13 C C13 CLR . . . K 9 135.399 -0.114 11.799 1 176.35 ? C13 CLR 3001 B 1 HETATM 14 C C14 CLR . . . K 9 135.375 1.008 12.831 1 176.25 ? C14 CLR 3001 B 1 HETATM 15 C C15 CLR . . . K 9 134.811 2.254 12.142 1 176.35 ? C15 CLR 3001 B 1 HETATM 16 C C16 CLR . . . K 9 135.258 2.075 10.691 1 176.42 ? C16 CLR 3001 B 1 HETATM 17 C C17 CLR . . . K 9 135.87 0.667 10.552 1 176.47 ? C17 CLR 3001 B 1 HETATM 18 C C18 CLR . . . K 9 134.013 -0.747 11.586 1 176.27 ? C18 CLR 3001 B 1 HETATM 19 C C19 CLR . . . K 9 134.248 -2.09 15.967 1 176.17 ? C19 CLR 3001 B 1 HETATM 20 C C20 CLR . . . K 9 135.677 0.111 9.122 1 176.53 ? C20 CLR 3001 B 1 HETATM 21 C C21 CLR . . . K 9 136.2 -1.313 8.927 1 176.51 ? C21 CLR 3001 B 1 HETATM 22 C C22 CLR . . . K 9 136.351 1.035 8.102 1 176.53 ? C22 CLR 3001 B 1 HETATM 23 C C23 CLR . . . K 9 135.797 0.923 6.682 1 176.59 ? C23 CLR 3001 B 1 HETATM 24 C C24 CLR . . . K 9 136.613 1.801 5.732 1 176.68 ? C24 CLR 3001 B 1 HETATM 25 C C25 CLR . . . K 9 136.058 1.792 4.308 1 176.8 ? C25 CLR 3001 B 1 HETATM 26 C C26 CLR . . . K 9 136.256 3.142 3.627 1 176.78 ? C26 CLR 3001 B 1 HETATM 27 C C27 CLR . . . K 9 136.693 0.683 3.473 1 177.09 ? C27 CLR 3001 B 1 HETATM 28 O O1 CLR . . . K 9 135.24 -1.037 20.53 1 176.43 ? O1 CLR 3001 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 28 #