data_3K9Y # _model_server_result.job_id mWDMX7LWG-LQoesQPI98wg _model_server_result.datetime_utc '2024-12-12 11:08:09' _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 3k9y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":516}' # _entry.id 3K9Y # _exptl.entry_id 3K9Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 494.573 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-CYCLOHEXYL-1-PENTYL-BETA-D-MALTOSIDE _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 122.44 _cell.angle_gamma 90 _cell.entry_id 3K9Y _cell.length_a 182.297 _cell.length_b 81.303 _cell.length_c 108.707 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3K9Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 PISA dimeric 2 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E 1 1 B,F 2 1 A,C,D,E 3 1 B,F 3 2 # 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_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -58.312187 0 91.743669 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 E N 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 metalc ? metalc1 A SG CYS 430 A CYS 462 1_555 C FE HEM . A HEM 520 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc2 B SG CYS 430 B CYS 462 1_555 F FE HEM . B HEM 520 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? # _chem_comp.formula 'C23 H42 O11' _chem_comp.formula_weight 494.573 _chem_comp.id CM5 _chem_comp.mon_nstd_flag . _chem_comp.name 5-CYCLOHEXYL-1-PENTYL-BETA-D-MALTOSIDE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '5-CYCLOHEXYLPENTYL 4-O-ALPHA-D-GLUCOPYRANOSYL-BETA-D-GLUCOPYRANOSIDE;CYMAL-5' # 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 C7 C8 CM5 sing 70 n n C7 C6 CM5 sing 71 n n C7 H71 CM5 sing 72 n n C7 H72 CM5 sing 73 n n C8 C9 CM5 sing 74 n n C8 H81 CM5 sing 75 n n C8 H82 CM5 sing 76 n n C9 C10 CM5 sing 77 n n C9 H91 CM5 sing 78 n n C9 H92 CM5 sing 79 n n C10 C11 CM5 sing 80 n n C10 H101 CM5 sing 81 n n C10 H102 CM5 sing 82 n n C11 C6 CM5 sing 83 n n C11 H111 CM5 sing 84 n n C11 H112 CM5 sing 85 n n C6 C5 CM5 sing 86 n n C6 H6 CM5 sing 87 n n C5 C4 CM5 sing 88 n n C5 H51 CM5 sing 89 n n C5 H52 CM5 sing 90 n n C4 C3 CM5 sing 91 n n C4 H41 CM5 sing 92 n n C4 H42 CM5 sing 93 n n C3 C2 CM5 sing 94 n n C3 H31A CM5 sing 95 n n C3 H32A CM5 sing 96 n n C2 C1 CM5 sing 97 n n C2 H21A CM5 sing 98 n n C2 H22A CM5 sing 99 n n C1 O12 CM5 sing 100 n n C1 H11 CM5 sing 101 n n C1 H12 CM5 sing 102 n n O12 C13 CM5 sing 103 n n C13 C18 CM5 sing 104 n n C13 O14 CM5 sing 105 n n C13 H13 CM5 sing 106 n n C18 O22 CM5 sing 107 n n C18 C17 CM5 sing 108 n n C18 H18 CM5 sing 109 n n O22 H22 CM5 sing 110 n n C17 O21 CM5 sing 111 n n C17 C16 CM5 sing 112 n n C17 H17 CM5 sing 113 n n O21 H21 CM5 sing 114 n n O14 C15 CM5 sing 115 n n C15 C19 CM5 sing 116 n n C15 C16 CM5 sing 117 n n C15 H15 CM5 sing 118 n n C19 O20 CM5 sing 119 n n C19 H191 CM5 sing 120 n n C19 H192 CM5 sing 121 n n O20 H20 CM5 sing 122 n n C16 O23 CM5 sing 123 n n C16 H16 CM5 sing 124 n n O23 C24 CM5 sing 125 n n C24 O25 CM5 sing 126 n n C24 C29 CM5 sing 127 n n C24 H24 CM5 sing 128 n n O25 C26 CM5 sing 129 n n C26 C30 CM5 sing 130 n n C26 C27 CM5 sing 131 n n C26 H26 CM5 sing 132 n n C30 O31 CM5 sing 133 n n C30 H301 CM5 sing 134 n n C30 H302 CM5 sing 135 n n O31 H31 CM5 sing 136 n n C27 O32 CM5 sing 137 n n C27 C28 CM5 sing 138 n n C27 H27 CM5 sing 139 n n O32 H32 CM5 sing 140 n n C28 O33 CM5 sing 141 n n C28 C29 CM5 sing 142 n n C28 H28 CM5 sing 143 n n O33 H33 CM5 sing 144 n n C29 O34 CM5 sing 145 n n C29 H29 CM5 sing 146 n n O34 H34 CM5 sing 147 n n # _atom_sites.entry_id 3K9Y _atom_sites.fract_transf_matrix[1][1] 0.005486 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003487 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.0123 _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] 0.0109 _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 C 2 HEM A 1 520 520 HEM HEM . D 3 CM5 A 1 516 504 CM5 CM5 . E 3 CM5 A 1 517 505 CM5 CM5 . F 2 HEM B 1 520 520 HEM HEM . # 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 C7 CM5 . . . D 3 -0.072 -10.619 31.458 1 78.19 ? C7 CM5 516 A 1 HETATM 2 C C8 CM5 . . . D 3 0.1 -9.16 31.033 1 79.85 ? C8 CM5 516 A 1 HETATM 3 C C9 CM5 . . . D 3 1.483 -8.871 30.444 1 79.51 ? C9 CM5 516 A 1 HETATM 4 C C10 CM5 . . . D 3 2.558 -9.251 31.465 1 79.29 ? C10 CM5 516 A 1 HETATM 5 C C11 CM5 . . . D 3 2.367 -10.67 31.998 1 79.74 ? C11 CM5 516 A 1 HETATM 6 C C6 CM5 . . . D 3 1.237 -11.379 31.243 1 78.99 ? C6 CM5 516 A 1 HETATM 7 C C5 CM5 . . . D 3 1.144 -12.789 31.828 1 81.32 ? C5 CM5 516 A 1 HETATM 8 C C4 CM5 . . . D 3 -0.097 -13.603 31.465 1 83.72 ? C4 CM5 516 A 1 HETATM 9 C C3 CM5 . . . D 3 0.457 -14.992 31.16 1 83.84 ? C3 CM5 516 A 1 HETATM 10 C C2 CM5 . . . D 3 0.947 -15.616 32.467 1 84.17 ? C2 CM5 516 A 1 HETATM 11 C C1 CM5 . . . D 3 2.106 -16.604 32.32 1 86.84 ? C1 CM5 516 A 1 HETATM 12 O O12 CM5 . . . D 3 3.36 -15.926 32.131 1 90.17 ? O12 CM5 516 A 1 HETATM 13 C C13 CM5 . . . D 3 4.007 -15.383 33.294 1 91.75 ? C13 CM5 516 A 1 HETATM 14 C C18 CM5 . . . D 3 3.039 -14.559 34.136 1 92.69 ? C18 CM5 516 A 1 HETATM 15 O O22 CM5 . . . D 3 2.621 -15.312 35.283 1 93.72 ? O22 CM5 516 A 1 HETATM 16 C C17 CM5 . . . D 3 3.974 -13.449 34.601 1 93.5 ? C17 CM5 516 A 1 HETATM 17 O O21 CM5 . . . D 3 3.369 -12.443 35.418 1 94.34 ? O21 CM5 516 A 1 HETATM 18 O O14 CM5 . . . D 3 4.663 -16.295 34.195 1 90.54 ? O14 CM5 516 A 1 HETATM 19 C C15 CM5 . . . D 3 5.12 -15.671 35.417 1 92.23 ? C15 CM5 516 A 1 HETATM 20 C C19 CM5 . . . D 3 6.554 -16.104 35.74 1 91.99 ? C19 CM5 516 A 1 HETATM 21 O O20 CM5 . . . D 3 7.464 -15.578 34.766 1 92.81 ? O20 CM5 516 A 1 HETATM 22 C C16 CM5 . . . D 3 5.097 -14.142 35.368 1 93.63 ? C16 CM5 516 A 1 HETATM 23 O O23 CM5 . . . D 3 5.376 -13.385 36.553 1 96.63 ? O23 CM5 516 A 1 HETATM 24 C C24 CM5 . . . D 3 6.721 -13.078 36.176 1 99.09 ? C24 CM5 516 A 1 HETATM 25 O O25 CM5 . . . D 3 7.556 -13.542 37.253 1 99.87 ? O25 CM5 516 A 1 HETATM 26 C C26 CM5 . . . D 3 8.141 -12.492 38.036 1 100.67 ? C26 CM5 516 A 1 HETATM 27 C C30 CM5 . . . D 3 8.7 -12.927 39.39 1 98.85 ? C30 CM5 516 A 1 HETATM 28 O O31 CM5 . . . D 3 10.071 -13.335 39.297 1 94.21 ? O31 CM5 516 A 1 HETATM 29 C C27 CM5 . . . D 3 7.278 -11.235 38.105 1 101.29 ? C27 CM5 516 A 1 HETATM 30 O O32 CM5 . . . D 3 7.916 -10.268 38.955 1 102.92 ? O32 CM5 516 A 1 HETATM 31 C C28 CM5 . . . D 3 7.348 -10.698 36.674 1 100.66 ? C28 CM5 516 A 1 HETATM 32 O O33 CM5 . . . D 3 6.607 -9.489 36.556 1 100.88 ? O33 CM5 516 A 1 HETATM 33 C C29 CM5 . . . D 3 6.923 -11.688 35.581 1 99.82 ? C29 CM5 516 A 1 HETATM 34 O O34 CM5 . . . D 3 5.712 -11.189 34.991 1 101.67 ? O34 CM5 516 A 1 # _model_server_stats.io_time_ms 69 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 34 #