data_2XQS # _model_server_result.job_id bt_1tT6dRidOqDKNOZl1mA _model_server_result.datetime_utc '2024-11-05 16:17:23' _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 2xqs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":102}' # _entry.id 2XQS # _exptl.entry_id 2XQS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 480.546 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description CYMAL-4 _entity.pdbx_number_of_molecules 40 _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 2XQS _cell.length_a 92.93 _cell.length_b 92.93 _cell.length_c 258.54 _cell.Z_PDB 60 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2XQS _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 63 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentadecameric _pdbx_struct_assembly.oligomeric_count 15 _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,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA _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 -46.465 80.479741 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 -92.93 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 F N N ? 2 G N N ? 2 H N N ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L N N ? 2 M N N ? 2 N N N ? 2 O N N ? 2 P N N ? 2 Q N N ? 2 R N N ? 2 S N N ? 2 T N N ? 2 U N N ? 2 V N N ? 2 W N N ? 2 X N N ? 2 Y N N ? 2 Z N N ? 2 AA N N ? 2 BA N N ? 2 CA N N ? 2 DA N N ? 2 EA N N ? 2 FA N N ? 2 GA N N ? 2 HA N N ? 2 IA N N ? 2 JA N N ? 2 KA N N ? 2 LA N N ? 2 MA N N ? 2 NA N N ? 2 OA N N ? 2 PA N N ? 2 QA N N ? 2 RA N N ? 2 SA 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 covale ? covale1 A C FME 1 A FME 1 1_555 A N GLU 2 A GLU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale2 B C FME 1 B FME 1 1_555 B N GLU 2 B GLU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale3 C C FME 1 C FME 1 1_555 C N GLU 2 C GLU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale4 D C FME 1 D FME 1 1_555 D N GLU 2 D GLU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale5 E C FME 1 E FME 1 1_555 E N GLU 2 E GLU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? # _chem_comp.formula 'C22 H40 O11' _chem_comp.formula_weight 480.546 _chem_comp.id CVM _chem_comp.mon_nstd_flag . _chem_comp.name CYMAL-4 _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '4-CYCLOHEXYLBUTYL 4-O-ALPHA-D-GLUCOPYRANOSYL-BETA-D-GLUCOPYRANOSIDE' # 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 CVM sing 55 n n C1 O12 CVM sing 56 n n C2 C3 CVM sing 57 n n C3 C4 CVM sing 58 n n C4 C6 CVM sing 59 n n C6 C7 CVM sing 60 n n C6 C11 CVM sing 61 n n C7 C8 CVM sing 62 n n C8 C9 CVM sing 63 n n C9 C10 CVM sing 64 n n C10 C11 CVM sing 65 n n O12 C13 CVM sing 66 n n C13 O14 CVM sing 67 n n C13 C18 CVM sing 68 n n O14 C15 CVM sing 69 n n C15 C16 CVM sing 70 n n C15 C19 CVM sing 71 n n C16 C17 CVM sing 72 n n C16 O23 CVM sing 73 n n C17 C18 CVM sing 74 n n C17 O21 CVM sing 75 n n C18 O22 CVM sing 76 n n C19 O20 CVM sing 77 n n O23 C24 CVM sing 78 n n C24 O25 CVM sing 79 n n C24 C29 CVM sing 80 n n O25 C26 CVM sing 81 n n C26 C27 CVM sing 82 n n C26 C30 CVM sing 83 n n C27 C28 CVM sing 84 n n C27 O32 CVM sing 85 n n C28 C29 CVM sing 86 n n C28 O33 CVM sing 87 n n C29 O34 CVM sing 88 n n C30 O31 CVM sing 89 n n C1 H11C CVM sing 90 n n C1 H12C CVM sing 91 n n C2 H21C CVM sing 92 n n C2 H22C CVM sing 93 n n C3 H31C CVM sing 94 n n C3 H32C CVM sing 95 n n C4 H41C CVM sing 96 n n C4 H42C CVM sing 97 n n C6 H6 CVM sing 98 n n C7 H71C CVM sing 99 n n C7 H72C CVM sing 100 n n C11 H111 CVM sing 101 n n C11 H112 CVM sing 102 n n C8 H81C CVM sing 103 n n C8 H82C CVM sing 104 n n C9 H91C CVM sing 105 n n C9 H92C CVM sing 106 n n C10 H101 CVM sing 107 n n C10 H102 CVM sing 108 n n C13 H13 CVM sing 109 n n C18 H18 CVM sing 110 n n C15 H15 CVM sing 111 n n C16 H16 CVM sing 112 n n C19 H191 CVM sing 113 n n C19 H192 CVM sing 114 n n C17 H17 CVM sing 115 n n O21 H21 CVM sing 116 n n O22 H22 CVM sing 117 n n O20 H20 CVM sing 118 n n C24 H24 CVM sing 119 n n C29 H29 CVM sing 120 n n C26 H26 CVM sing 121 n n C27 H27 CVM sing 122 n n C30 H301 CVM sing 123 n n C30 H302 CVM sing 124 n n C28 H28 CVM sing 125 n n O32 H32 CVM sing 126 n n O33 H33 CVM sing 127 n n O34 H34 CVM sing 128 n n O31 H31 CVM sing 129 n n # _atom_sites.entry_id 2XQS _atom_sites.fract_transf_matrix[1][1] 0.010761 _atom_sites.fract_transf_matrix[1][2] 0.006213 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012425 _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] 0.003868 _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 2 CVM A 1 102 102 CVM CVM . G 2 CVM A 1 103 103 CVM CVM . H 2 CVM A 1 104 104 CVM CVM . I 2 CVM A 1 106 106 CVM CVM . J 2 CVM A 1 107 107 CVM CVM . K 2 CVM A 1 108 108 CVM CVM . L 2 CVM A 1 109 109 CVM CVM . M 2 CVM A 1 110 110 CVM CVM . N 2 CVM B 1 102 102 CVM CVM . O 2 CVM B 1 103 103 CVM CVM . P 2 CVM B 1 104 104 CVM CVM . Q 2 CVM B 1 106 106 CVM CVM . R 2 CVM B 1 107 107 CVM CVM . S 2 CVM B 1 108 108 CVM CVM . T 2 CVM B 1 109 109 CVM CVM . U 2 CVM B 1 110 110 CVM CVM . V 2 CVM C 1 102 102 CVM CVM . W 2 CVM C 1 103 103 CVM CVM . X 2 CVM C 1 104 104 CVM CVM . Y 2 CVM C 1 106 106 CVM CVM . Z 2 CVM C 1 107 107 CVM CVM . AA 2 CVM C 1 108 108 CVM CVM . BA 2 CVM C 1 109 109 CVM CVM . CA 2 CVM C 1 110 110 CVM CVM . DA 2 CVM D 1 102 102 CVM CVM . EA 2 CVM D 1 103 103 CVM CVM . FA 2 CVM D 1 104 104 CVM CVM . GA 2 CVM D 1 106 106 CVM CVM . HA 2 CVM D 1 107 107 CVM CVM . IA 2 CVM D 1 108 108 CVM CVM . JA 2 CVM D 1 109 109 CVM CVM . KA 2 CVM D 1 110 110 CVM CVM . LA 2 CVM E 1 102 102 CVM CVM . MA 2 CVM E 1 103 103 CVM CVM . NA 2 CVM E 1 104 104 CVM CVM . OA 2 CVM E 1 106 106 CVM CVM . PA 2 CVM E 1 107 107 CVM CVM . QA 2 CVM E 1 108 108 CVM CVM . RA 2 CVM E 1 109 109 CVM CVM . SA 2 CVM E 1 110 110 CVM CVM . TA 3 HOH A 1 2001 2001 HOH HOH . TA 3 HOH A 2 2002 2002 HOH HOH . UA 3 HOH C 1 2001 2001 HOH HOH . UA 3 HOH C 2 2002 2002 HOH HOH . VA 3 HOH E 1 2001 2001 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 CVM . . . N 2 -50.22 15.13 2.829 1 99.63 ? C1 CVM 102 B 1 HETATM 2 C C2 CVM . . . N 2 -49.176 15.155 3.952 1 90.48 ? C2 CVM 102 B 1 HETATM 3 C C3 CVM . . . N 2 -49.819 15.404 5.322 1 83.92 ? C3 CVM 102 B 1 HETATM 4 C C4 CVM . . . N 2 -48.97 14.916 6.502 1 75.25 ? C4 CVM 102 B 1 HETATM 5 C C6 CVM . . . N 2 -49.821 14.634 7.749 1 74.7 ? C6 CVM 102 B 1 HETATM 6 C C7 CVM . . . N 2 -49.443 15.564 8.901 1 79.99 ? C7 CVM 102 B 1 HETATM 7 C C8 CVM . . . N 2 -50.189 15.229 10.199 1 74.87 ? C8 CVM 102 B 1 HETATM 8 C C9 CVM . . . N 2 -51.164 14.067 10.027 1 66.15 ? C9 CVM 102 B 1 HETATM 9 C C10 CVM . . . N 2 -50.422 12.855 9.482 1 63.91 ? C10 CVM 102 B 1 HETATM 10 C C11 CVM . . . N 2 -49.621 13.196 8.224 1 69.78 ? C11 CVM 102 B 1 HETATM 11 O O12 CVM . . . N 2 -49.848 14.212 1.789 1 110.49 ? O12 CVM 102 B 1 HETATM 12 C C13 CVM . . . N 2 -50.955 13.42 1.328 1 120.17 ? C13 CVM 102 B 1 HETATM 13 O O14 CVM . . . N 2 -50.538 12.104 0.945 1 120.88 ? O14 CVM 102 B 1 HETATM 14 C C15 CVM . . . N 2 -51.638 11.228 0.651 1 117.02 ? C15 CVM 102 B 1 HETATM 15 C C16 CVM . . . N 2 -52.559 11.771 -0.439 1 125.93 ? C16 CVM 102 B 1 HETATM 16 C C17 CVM . . . N 2 -52.831 13.274 -0.335 1 130.63 ? C17 CVM 102 B 1 HETATM 17 C C18 CVM . . . N 2 -51.607 14.075 0.118 1 125.71 ? C18 CVM 102 B 1 HETATM 18 C C19 CVM . . . N 2 -51.141 9.838 0.249 1 102.52 ? C19 CVM 102 B 1 HETATM 19 O O20 CVM . . . N 2 -52.262 8.993 -0.046 1 90.19 ? O20 CVM 102 B 1 HETATM 20 O O21 CVM . . . N 2 -53.253 13.745 -1.624 1 134.7 ? O21 CVM 102 B 1 HETATM 21 O O22 CVM . . . N 2 -51.972 15.42 0.46 1 123 ? O22 CVM 102 B 1 HETATM 22 O O23 CVM . . . N 2 -53.771 11.014 -0.355 0 127.16 ? O23 CVM 102 B 1 HETATM 23 C C24 CVM . . . N 2 -54.463 10.827 -1.593 0 128.36 ? C24 CVM 102 B 1 HETATM 24 O O25 CVM . . . N 2 -53.659 11.232 -2.713 0 128.77 ? O25 CVM 102 B 1 HETATM 25 C C26 CVM . . . N 2 -52.817 10.255 -3.327 0 129.27 ? C26 CVM 102 B 1 HETATM 26 C C27 CVM . . . N 2 -53.615 9.014 -3.677 0 129.78 ? C27 CVM 102 B 1 HETATM 27 C C28 CVM . . . N 2 -54.107 8.405 -2.381 0 129.59 ? C28 CVM 102 B 1 HETATM 28 C C29 CVM . . . N 2 -55.009 9.391 -1.65 0 129.09 ? C29 CVM 102 B 1 HETATM 29 C C30 CVM . . . N 2 -52.193 10.874 -4.57 0 129.48 ? C30 CVM 102 B 1 HETATM 30 O O31 CVM . . . N 2 -51.423 12.02 -4.186 0 129.1 ? O31 CVM 102 B 1 HETATM 31 O O32 CVM . . . N 2 -52.78 8.076 -4.363 0 130.15 ? O32 CVM 102 B 1 HETATM 32 O O33 CVM . . . N 2 -54.826 7.197 -2.657 0 130.06 ? O33 CVM 102 B 1 HETATM 33 O O34 CVM . . . N 2 -55.202 8.906 -0.316 0 128.98 ? O34 CVM 102 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 331 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 33 #