data_2DWD # _model_server_result.job_id PnGcZKJiwpK4NYmhZ9I2QA _model_server_result.datetime_utc '2024-11-24 03:44:08' _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 2dwd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":220}' # _entry.id 2DWD # _exptl.entry_id 2DWD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 144.254 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NONAN-1-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 90 _cell.entry_id 2DWD _cell.length_a 153.18 _cell.length_b 153.18 _cell.length_c 75.483 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2DWD _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details dodecameric _pdbx_struct_assembly.oligomeric_count 12 _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 1,2,3,4 # 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_775 -x+2,-y+2,z -1 0 0 0 -1 0 0 0 1 306.36 306.36 0 3 'crystal symmetry operation' 3_755 -y+2,x,z 0 -1 0 1 0 0 0 0 1 306.36 0 0 4 'crystal symmetry operation' 4_575 y,-x+2,z 0 1 0 -1 0 0 0 0 1 0 306.36 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # 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 22 A CYS 22 1_555 A SG CYS 96 A CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 A SG CYS 145 A CYS 145 1_555 A SG CYS 200 A CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 B SG CYS 23 B CYS 23 1_555 B SG CYS 88 B CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf4 B SG CYS 134 B CYS 134 1_555 B SG CYS 194 B CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc1 C O THR 54 C THR 75 1_555 G TL TL . C TL 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.91 ? metalc ? metalc2 C O THR 54 C THR 75 4_575 G TL TL . C TL 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.91 ? metalc ? metalc3 C O THR 54 C THR 75 3_755 G TL TL . C TL 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.91 ? metalc ? metalc4 C O THR 54 C THR 75 2_775 G TL TL . C TL 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.91 ? metalc ? metalc5 C O THR 54 C THR 75 1_555 H TL TL . C TL 3004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.363 ? metalc ? metalc6 C OG1 THR 54 C THR 75 1_555 H TL TL . C TL 3004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.051 ? metalc ? metalc7 C OG1 THR 54 C THR 75 4_575 H TL TL . C TL 3004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.051 ? metalc ? metalc8 C O THR 54 C THR 75 4_575 H TL TL . C TL 3004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.363 ? metalc ? metalc9 C OG1 THR 54 C THR 75 3_755 H TL TL . C TL 3004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.051 ? metalc ? metalc10 C O THR 54 C THR 75 3_755 H TL TL . C TL 3004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.363 ? metalc ? metalc11 C OG1 THR 54 C THR 75 2_775 H TL TL . C TL 3004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.051 ? metalc ? metalc12 C O THR 54 C THR 75 2_775 H TL TL . C TL 3004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.363 ? metalc ? metalc13 C O VAL 55 C VAL 76 1_555 F TL TL . C TL 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.109 ? metalc ? metalc14 C O VAL 55 C VAL 76 4_575 F TL TL . C TL 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.109 ? metalc ? metalc15 C O VAL 55 C VAL 76 3_755 F TL TL . C TL 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.109 ? metalc ? metalc16 C O VAL 55 C VAL 76 2_775 F TL TL . C TL 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.109 ? metalc ? metalc17 C O VAL 55 C VAL 76 1_555 G TL TL . C TL 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.966 ? metalc ? metalc18 C O VAL 55 C VAL 76 4_575 G TL TL . C TL 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.966 ? metalc ? metalc19 C O VAL 55 C VAL 76 3_755 G TL TL . C TL 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.966 ? metalc ? metalc20 C O VAL 55 C VAL 76 2_775 G TL TL . C TL 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.966 ? metalc ? metalc21 C O GLY 56 C GLY 77 1_555 E TL TL . C TL 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.409 ? metalc ? metalc22 C O GLY 56 C GLY 77 4_575 E TL TL . C TL 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.409 ? metalc ? metalc23 C O GLY 56 C GLY 77 3_755 E TL TL . C TL 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.409 ? metalc ? metalc24 C O GLY 56 C GLY 77 2_775 E TL TL . C TL 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.409 ? metalc ? metalc25 C O GLY 56 C GLY 77 1_555 F TL TL . C TL 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.995 ? metalc ? metalc26 C O GLY 56 C GLY 77 4_575 F TL TL . C TL 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.995 ? metalc ? metalc27 C O GLY 56 C GLY 77 3_755 F TL TL . C TL 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.995 ? metalc ? metalc28 C O GLY 56 C GLY 77 2_775 F TL TL . C TL 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.995 ? metalc ? metalc29 C O TYR 57 C TYR 78 1_555 E TL TL . C TL 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.006 ? metalc ? metalc30 C O TYR 57 C TYR 78 4_575 E TL TL . C TL 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.006 ? metalc ? metalc31 C O TYR 57 C TYR 78 3_755 E TL TL . C TL 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.006 ? metalc ? metalc32 C O TYR 57 C TYR 78 2_775 E TL TL . C TL 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.006 ? metalc ? metalc33 E TL TL . C TL 3001 1_555 F TL TL . C TL 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.15 ? metalc ? metalc34 E TL TL . C TL 3001 1_555 F TL TL . C TL 3002 2_775 ? ? ? ? ? ? ? ? ? ? ? ? 3.15 ? metalc ? metalc35 E TL TL . C TL 3001 1_555 F TL TL . C TL 3002 3_755 ? ? ? ? ? ? ? ? ? ? ? ? 3.15 ? metalc ? metalc36 E TL TL . C TL 3001 1_555 F TL TL . C TL 3002 4_575 ? ? ? ? ? ? ? ? ? ? ? ? 3.15 ? metalc ? metalc37 F TL TL . C TL 3002 1_555 G TL TL . C TL 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.15 ? metalc ? metalc38 F TL TL . C TL 3002 1_555 G TL TL . C TL 3003 2_775 ? ? ? ? ? ? ? ? ? ? ? ? 3.15 ? metalc ? metalc39 F TL TL . C TL 3002 1_555 G TL TL . C TL 3003 3_755 ? ? ? ? ? ? ? ? ? ? ? ? 3.15 ? metalc ? metalc40 F TL TL . C TL 3002 1_555 G TL TL . C TL 3003 4_575 ? ? ? ? ? ? ? ? ? ? ? ? 3.15 ? # _chem_comp.formula 'C9 H20 O' _chem_comp.formula_weight 144.254 _chem_comp.id F09 _chem_comp.mon_nstd_flag . _chem_comp.name NONAN-1-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 C1 C2 F09 sing 83 n n C1 H11 F09 sing 84 n n C1 H12 F09 sing 85 n n C1 H13 F09 sing 86 n n C2 C3 F09 sing 87 n n C2 H21 F09 sing 88 n n C2 H22 F09 sing 89 n n C3 C4 F09 sing 90 n n C3 H31 F09 sing 91 n n C3 H32 F09 sing 92 n n C4 C5 F09 sing 93 n n C4 H41 F09 sing 94 n n C4 H42 F09 sing 95 n n C5 C6 F09 sing 96 n n C5 H51 F09 sing 97 n n C5 H52 F09 sing 98 n n C6 C7 F09 sing 99 n n C6 H61 F09 sing 100 n n C6 H62 F09 sing 101 n n C7 C8 F09 sing 102 n n C7 H71 F09 sing 103 n n C7 H72 F09 sing 104 n n C8 C9 F09 sing 105 n n C8 H81 F09 sing 106 n n C8 H82 F09 sing 107 n n C9 OXT F09 sing 108 n n C9 H91 F09 sing 109 n n C9 H92 F09 sing 110 n n OXT HXT F09 sing 111 n n # _atom_sites.entry_id 2DWD _atom_sites.fract_transf_matrix[1][1] 0.006528 _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] 0.006528 _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] 0.013248 _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 F09 A 1 220 202 F09 F09 . E 5 TL C 1 3001 3001 TL TL . F 5 TL C 1 3002 3002 TL TL . G 5 TL C 1 3003 3003 TL TL . H 5 TL C 1 3004 3004 TL TL . I 6 L2C C 1 201 201 L2C L2C . J 7 TBA C 1 4001 4001 TBA TBA . K 8 HOH A 1 221 10 HOH HOH . K 8 HOH A 2 222 13 HOH HOH . K 8 HOH A 3 223 15 HOH HOH . K 8 HOH A 4 224 18 HOH HOH . K 8 HOH A 5 225 21 HOH HOH . K 8 HOH A 6 226 22 HOH HOH . K 8 HOH A 7 227 23 HOH HOH . K 8 HOH A 8 228 24 HOH HOH . K 8 HOH A 9 229 25 HOH HOH . K 8 HOH A 10 230 26 HOH HOH . K 8 HOH A 11 231 27 HOH HOH . K 8 HOH A 12 232 37 HOH HOH . K 8 HOH A 13 233 38 HOH HOH . K 8 HOH A 14 234 42 HOH HOH . K 8 HOH A 15 235 47 HOH HOH . K 8 HOH A 16 236 54 HOH HOH . K 8 HOH A 17 237 58 HOH HOH . K 8 HOH A 18 238 60 HOH HOH . K 8 HOH A 19 239 62 HOH HOH . K 8 HOH A 20 240 63 HOH HOH . K 8 HOH A 21 241 64 HOH HOH . K 8 HOH A 22 242 65 HOH HOH . K 8 HOH A 23 243 74 HOH HOH . L 8 HOH B 1 213 2 HOH HOH . L 8 HOH B 2 214 3 HOH HOH . L 8 HOH B 3 215 6 HOH HOH . L 8 HOH B 4 216 7 HOH HOH . L 8 HOH B 5 217 8 HOH HOH . L 8 HOH B 6 218 9 HOH HOH . L 8 HOH B 7 219 11 HOH HOH . L 8 HOH B 8 220 12 HOH HOH . L 8 HOH B 9 221 16 HOH HOH . L 8 HOH B 10 222 17 HOH HOH . L 8 HOH B 11 223 19 HOH HOH . L 8 HOH B 12 224 20 HOH HOH . L 8 HOH B 13 225 28 HOH HOH . L 8 HOH B 14 226 30 HOH HOH . L 8 HOH B 15 227 31 HOH HOH . L 8 HOH B 16 228 32 HOH HOH . L 8 HOH B 17 229 33 HOH HOH . L 8 HOH B 18 230 34 HOH HOH . L 8 HOH B 19 231 35 HOH HOH . L 8 HOH B 20 232 36 HOH HOH . L 8 HOH B 21 233 40 HOH HOH . L 8 HOH B 22 234 41 HOH HOH . L 8 HOH B 23 235 43 HOH HOH . L 8 HOH B 24 236 45 HOH HOH . L 8 HOH B 25 237 46 HOH HOH . L 8 HOH B 26 238 48 HOH HOH . L 8 HOH B 27 239 49 HOH HOH . L 8 HOH B 28 240 50 HOH HOH . L 8 HOH B 29 241 51 HOH HOH . L 8 HOH B 30 242 52 HOH HOH . L 8 HOH B 31 243 53 HOH HOH . L 8 HOH B 32 244 55 HOH HOH . L 8 HOH B 33 245 56 HOH HOH . L 8 HOH B 34 246 57 HOH HOH . L 8 HOH B 35 247 66 HOH HOH . L 8 HOH B 36 248 67 HOH HOH . L 8 HOH B 37 249 69 HOH HOH . L 8 HOH B 38 250 70 HOH HOH . L 8 HOH B 39 251 71 HOH HOH . L 8 HOH B 40 252 72 HOH HOH . L 8 HOH B 41 253 73 HOH HOH . L 8 HOH B 42 254 75 HOH HOH . L 8 HOH B 43 255 76 HOH HOH . M 8 HOH C 1 4002 1 HOH HOH . M 8 HOH C 2 4003 4 HOH HOH . M 8 HOH C 3 4004 5 HOH HOH . M 8 HOH C 4 4005 14 HOH HOH . M 8 HOH C 5 4006 29 HOH HOH . M 8 HOH C 6 4007 39 HOH HOH . M 8 HOH C 7 4008 44 HOH HOH . M 8 HOH C 8 4009 59 HOH HOH . M 8 HOH C 9 4010 68 HOH HOH . M 8 HOH C 10 4011 77 HOH HOH . M 8 HOH C 11 4012 78 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 F09 . . . D 4 154.242 131.269 -39.254 1 88.53 ? C1 F09 220 A 1 HETATM 2 C C2 F09 . . . D 4 154.257 129.864 -38.66 1 89.66 ? C2 F09 220 A 1 HETATM 3 C C3 F09 . . . D 4 153.374 129.745 -37.415 1 90.39 ? C3 F09 220 A 1 HETATM 4 C C4 F09 . . . D 4 153.971 130.48 -36.214 1 90.59 ? C4 F09 220 A 1 HETATM 5 C C5 F09 . . . D 4 154.376 129.54 -35.082 1 90.38 ? C5 F09 220 A 1 HETATM 6 C C6 F09 . . . D 4 153.185 129.09 -34.252 1 90.55 ? C6 F09 220 A 1 HETATM 7 C C7 F09 . . . D 4 153.646 128.389 -32.99 1 91.22 ? C7 F09 220 A 1 HETATM 8 C C8 F09 . . . D 4 152.466 127.9 -32.173 1 92.44 ? C8 F09 220 A 1 HETATM 9 C C9 F09 . . . D 4 152.899 127.297 -30.839 1 93.38 ? C9 F09 220 A 1 HETATM 10 O OXT F09 . . . D 4 153.514 126.23 -30.777 1 94.49 ? OXT F09 220 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 10 #