data_6CWB # _model_server_result.job_id kt2rB7X5Q1MGsCiPXUQTuw _model_server_result.datetime_utc '2024-11-27 04:13:02' _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 6cwb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":307}' # _entry.id 6CWB # _exptl.entry_id 6CWB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 624.763 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(5R,6S,7S)-5,6-dihydroxy-7-(octanoylamino)-N-[(1E)-4-phenylbutylidene]-8-{[(2S,3R,4S,5R,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)tetrahydro-2H-pyran-2-yl]oxy}octanamide (non-preferred name)' _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 6CWB _cell.length_a 78.31 _cell.length_b 190.269 _cell.length_c 151.018 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6CWB _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _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 8 _struct_asym.id I _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 5 _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 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 5 3 1 FUC NAG 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 5 n E NAG 1 E 1 NAG A 310 NAG 5 n E NAG 2 E 2 NAG A 311 NAG 5 n E FUC 3 E 3 FUC A 315 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 104 A CYS 104 1_555 A SG CYS 168 A CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? disulf ? disulf2 A SG CYS 208 A CYS 208 1_555 A SG CYS 263 A CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf3 B SG CYS 25 B CYS 25 1_555 B SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 C SG CYS 24 C CYS 23 1_555 C SG CYS 91 C CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf5 C SG CYS 138 C CYS 137 1_555 C SG CYS 188 C CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf6 C SG CYS 163 C CYS 162 1_555 D SG CYS 169 D CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf7 D SG CYS 24 D CYS 23 1_555 D SG CYS 92 D CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? disulf ? disulf8 D SG CYS 143 D CYS 142 1_555 D SG CYS 208 D CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.994 ? covale ? covale1 A ND2 ASN 20 A ASN 20 1_555 F C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale2 A ND2 ASN 42 A ASN 42 1_555 G C1 NAG . A NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale3 A ND2 ASN 165 A ASN 165 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale4 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale5 E O6 NAG . E NAG 1 1_555 E C1 FUC . E FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? metalc ? metalc1 D O ARG 37 D ARG 36 1_555 J NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.741 ? metalc ? metalc2 D O GLY 43 D GLY 42 1_555 J NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.759 ? # _chem_comp.formula 'C32 H52 N2 O10' _chem_comp.formula_weight 624.763 _chem_comp.id FJJ _chem_comp.mon_nstd_flag . _chem_comp.name '(5R,6S,7S)-5,6-dihydroxy-7-(octanoylamino)-N-[(1E)-4-phenylbutylidene]-8-{[(2S,3R,4S,5R,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)tetrahydro-2H-pyran-2-yl]oxy}octanamide (non-preferred name)' _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 C11 C10 FJJ doub 83 n y C11 C12 FJJ sing 84 n y C10 C9 FJJ sing 85 n y C12 C13 FJJ doub 86 n y C9 C8 FJJ doub 87 n y C13 C8 FJJ sing 88 n y C13 C14 FJJ sing 89 n n C14 C15 FJJ sing 90 n n C16 C15 FJJ sing 91 n n C16 C17 FJJ sing 92 n n C17 N1 FJJ doub 93 n n N1 C7 FJJ sing 94 n n C7 O FJJ doub 95 n n C7 C6 FJJ sing 96 n n C6 C5 FJJ sing 97 n n O32 C3 FJJ sing 98 n n C5 C4 FJJ sing 99 n n C3 C4 FJJ sing 100 n n C3 C2 FJJ sing 101 n n C2 O1 FJJ sing 102 n n C2 C1 FJJ sing 103 n n OG3 CG2 FJJ sing 104 n n C23 C24 FJJ sing 105 n n C23 C22 FJJ sing 106 n n C25 C24 FJJ sing 107 n n OG4 CG3 FJJ sing 108 n n C21 C22 FJJ sing 109 n n C21 C20 FJJ sing 110 n n N C1 FJJ sing 111 n n N C18 FJJ sing 112 n n CG3 CG2 FJJ sing 113 n n CG3 CG4 FJJ sing 114 n n C1 C FJJ sing 115 n n CG2 CG1 FJJ sing 116 n n OC1 CG1 FJJ sing 117 n n OC1 C FJJ sing 118 n n C19 C18 FJJ sing 119 n n C19 C20 FJJ sing 120 n n C18 O2 FJJ doub 121 n n CG1 OG FJJ sing 122 n n CG4 OG5 FJJ sing 123 n n CG4 CG FJJ sing 124 n n CG OG FJJ sing 125 n n CG CG5 FJJ sing 126 n n CG5 OG6 FJJ sing 127 n n C1 H1 FJJ sing 128 n n C2 H2 FJJ sing 129 n n C3 H3 FJJ sing 130 n n C4 H4 FJJ sing 131 n n C4 H5 FJJ sing 132 n n C5 H6 FJJ sing 133 n n C5 H7 FJJ sing 134 n n C6 H8 FJJ sing 135 n n C6 H9 FJJ sing 136 n n C11 H10 FJJ sing 137 n n C25 H11 FJJ sing 138 n n C25 H12 FJJ sing 139 n n C25 H13 FJJ sing 140 n n C24 H14 FJJ sing 141 n n C24 H15 FJJ sing 142 n n C23 H16 FJJ sing 143 n n C23 H17 FJJ sing 144 n n C22 H18 FJJ sing 145 n n C22 H19 FJJ sing 146 n n C21 H20 FJJ sing 147 n n C21 H21 FJJ sing 148 n n C20 H22 FJJ sing 149 n n C20 H23 FJJ sing 150 n n C19 H24 FJJ sing 151 n n C19 H25 FJJ sing 152 n n N H26 FJJ sing 153 n n C H27 FJJ sing 154 n n C H28 FJJ sing 155 n n CG1 H29 FJJ sing 156 n n CG H30 FJJ sing 157 n n CG5 H31 FJJ sing 158 n n CG5 H32 FJJ sing 159 n n OG6 H33 FJJ sing 160 n n CG4 H34 FJJ sing 161 n n OG5 H35 FJJ sing 162 n n CG3 H36 FJJ sing 163 n n OG4 H37 FJJ sing 164 n n CG2 H38 FJJ sing 165 n n OG3 H39 FJJ sing 166 n n O1 H40 FJJ sing 167 n n O32 H41 FJJ sing 168 n n C17 H42 FJJ sing 169 n n C16 H43 FJJ sing 170 n n C16 H44 FJJ sing 171 n n C15 H45 FJJ sing 172 n n C15 H46 FJJ sing 173 n n C14 H47 FJJ sing 174 n n C14 H48 FJJ sing 175 n n C8 H49 FJJ sing 176 n n C9 H50 FJJ sing 177 n n C10 H51 FJJ sing 178 n n C12 H52 FJJ sing 179 n n # _atom_sites.entry_id 6CWB _atom_sites.fract_transf_matrix[1][1] 0.01277 _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] 0.005256 _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] 0.006622 _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 F 6 NAG A 1 301 300 NAG NAG . G 6 NAG A 1 302 301 NAG NAG . H 7 PLM A 1 306 502 PLM PLM . I 8 FJJ A 1 307 501 FJJ 172 . J 9 NA D 1 301 1 NA NA . # 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 FJJ . . . I 8 -52.279 -27.567 19.146 1 37.07 ? C1 FJJ 307 A 1 HETATM 2 C C2 FJJ . . . I 8 -52.313 -28.264 17.777 1 37.68 ? C2 FJJ 307 A 1 HETATM 3 C C3 FJJ . . . I 8 -51.468 -27.585 16.679 1 39.75 ? C3 FJJ 307 A 1 HETATM 4 C C4 FJJ . . . I 8 -49.972 -27.397 16.947 1 42.22 ? C4 FJJ 307 A 1 HETATM 5 C C5 FJJ . . . I 8 -49.553 -26.36 15.862 1 45.69 ? C5 FJJ 307 A 1 HETATM 6 C C6 FJJ . . . I 8 -48.109 -26.635 15.413 1 48.78 ? C6 FJJ 307 A 1 HETATM 7 C C11 FJJ . . . I 8 -43.064 -29.806 7.672 1 58.42 ? C11 FJJ 307 A 1 HETATM 8 C C25 FJJ . . . I 8 -46.621 -20.986 18.157 1 43.12 ? C25 FJJ 307 A 1 HETATM 9 C C24 FJJ . . . I 8 -48.022 -20.433 18.232 1 42.35 ? C24 FJJ 307 A 1 HETATM 10 C C23 FJJ . . . I 8 -48.935 -21.642 18.067 1 41.53 ? C23 FJJ 307 A 1 HETATM 11 C C22 FJJ . . . I 8 -49.913 -21.603 19.24 1 40.91 ? C22 FJJ 307 A 1 HETATM 12 C C21 FJJ . . . I 8 -50.929 -22.688 18.918 1 39.7 ? C21 FJJ 307 A 1 HETATM 13 C C20 FJJ . . . I 8 -51.828 -22.773 20.129 1 38.42 ? C20 FJJ 307 A 1 HETATM 14 C C19 FJJ . . . I 8 -52.918 -23.8 19.811 1 37.83 ? C19 FJJ 307 A 1 HETATM 15 C C18 FJJ . . . I 8 -52.367 -25.251 19.995 1 36.99 ? C18 FJJ 307 A 1 HETATM 16 O O2 FJJ . . . I 8 -51.703 -25.55 20.99 1 36.89 ? O2 FJJ 307 A 1 HETATM 17 N N FJJ . . . I 8 -52.708 -26.156 19.047 1 36.69 ? N FJJ 307 A 1 HETATM 18 C C FJJ . . . I 8 -53.238 -28.238 20.138 1 37.02 ? C FJJ 307 A 1 HETATM 19 O OC1 FJJ . . . I 8 -54.532 -28.162 19.506 1 36.23 ? OC1 FJJ 307 A 1 HETATM 20 C CG1 FJJ . . . I 8 -55.633 -28.886 20.116 1 34.57 ? CG1 FJJ 307 A 1 HETATM 21 O OG FJJ . . . I 8 -56.023 -28.355 21.392 1 34.92 ? OG FJJ 307 A 1 HETATM 22 C CG FJJ . . . I 8 -56.52 -26.985 21.381 1 35.52 ? CG FJJ 307 A 1 HETATM 23 C CG5 FJJ . . . I 8 -57.002 -26.703 22.784 1 36 ? CG5 FJJ 307 A 1 HETATM 24 O OG6 FJJ . . . I 8 -55.809 -26.267 23.436 1 37.13 ? OG6 FJJ 307 A 1 HETATM 25 C CG4 FJJ . . . I 8 -57.69 -26.846 20.442 1 34.28 ? CG4 FJJ 307 A 1 HETATM 26 O OG5 FJJ . . . I 8 -58.794 -27.588 20.966 1 34.59 ? OG5 FJJ 307 A 1 HETATM 27 C CG3 FJJ . . . I 8 -57.31 -27.359 19.084 1 32.81 ? CG3 FJJ 307 A 1 HETATM 28 O OG4 FJJ . . . I 8 -58.453 -27.257 18.278 1 31.29 ? OG4 FJJ 307 A 1 HETATM 29 C CG2 FJJ . . . I 8 -56.821 -28.817 19.183 1 33.52 ? CG2 FJJ 307 A 1 HETATM 30 O OG3 FJJ . . . I 8 -56.428 -29.322 17.896 1 32.63 ? OG3 FJJ 307 A 1 HETATM 31 O O1 FJJ . . . I 8 -51.896 -29.608 17.937 1 37.56 ? O1 FJJ 307 A 1 HETATM 32 O O32 FJJ . . . I 8 -51.617 -28.399 15.515 1 40.18 ? O32 FJJ 307 A 1 HETATM 33 C C7 FJJ . . . I 8 -47.68 -25.567 14.341 1 51.05 ? C7 FJJ 307 A 1 HETATM 34 O O FJJ . . . I 8 -47.439 -24.428 14.733 1 50.46 ? O FJJ 307 A 1 HETATM 35 N N1 FJJ . . . I 8 -47.49 -25.983 13.035 1 53.49 ? N1 FJJ 307 A 1 HETATM 36 C C17 FJJ . . . I 8 -47.157 -25.071 11.935 1 53.57 ? C17 FJJ 307 A 1 HETATM 37 C C16 FJJ . . . I 8 -46.547 -25.635 10.617 1 55.01 ? C16 FJJ 307 A 1 HETATM 38 C C15 FJJ . . . I 8 -45.728 -26.962 10.626 1 56.07 ? C15 FJJ 307 A 1 HETATM 39 C C14 FJJ . . . I 8 -45.447 -27.205 9.116 1 56.22 ? C14 FJJ 307 A 1 HETATM 40 C C13 FJJ . . . I 8 -44.825 -28.463 8.75 1 57.3 ? C13 FJJ 307 A 1 HETATM 41 C C8 FJJ . . . I 8 -45.457 -29.693 8.994 1 59.29 ? C8 FJJ 307 A 1 HETATM 42 C C9 FJJ . . . I 8 -44.908 -30.946 8.616 1 58.3 ? C9 FJJ 307 A 1 HETATM 43 C C10 FJJ . . . I 8 -43.694 -31.023 7.949 1 55.34 ? C10 FJJ 307 A 1 HETATM 44 C C12 FJJ . . . I 8 -43.615 -28.551 8.045 1 58.48 ? C12 FJJ 307 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 44 #