data_3CKD # _model_server_result.job_id aV-AcwCUYiDF5fpj0c1pCg _model_server_result.datetime_utc '2025-03-05 19:18:05' _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 3ckd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":605}' # _entry.id 3CKD # _exptl.entry_id 3CKD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 106.12 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description DI(HYDROXYETHYL)ETHER _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 3CKD _cell.length_a 128.928 _cell.length_b 128.928 _cell.length_c 282.825 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3CKD _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 2 2' # 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 ? monomeric 1 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,J 1 1 B,D,K 2 1 C,E,F,G,H,I,L 3 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 4 _struct_asym.id I _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 covale ? covale1 A C GLU 143 A GLU 406 1_555 A N MSE 144 A MSE 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale2 A C MSE 144 A MSE 407 1_555 A N PHE 145 A PHE 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale3 A C THR 175 A THR 438 1_555 A N MSE 176 A MSE 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale4 A C MSE 176 A MSE 439 1_555 A N LEU 177 A LEU 440 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale5 A C ALA 208 A ALA 471 1_555 A N MSE 209 A MSE 472 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale6 A C MSE 209 A MSE 472 1_555 A N VAL 210 A VAL 473 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale7 A C GLU 249 A GLU 512 1_555 A N MSE 250 A MSE 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale8 A C MSE 250 A MSE 513 1_555 A N LEU 251 A LEU 514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale9 A C VAL 282 A VAL 545 1_555 A N MSE 283 A MSE 546 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale10 A C MSE 283 A MSE 546 1_555 A N ARG 284 A ARG 547 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale11 B C GLU 143 B GLU 406 1_555 B N MSE 144 B MSE 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale12 B C MSE 144 B MSE 407 1_555 B N PHE 145 B PHE 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale13 B C THR 175 B THR 438 1_555 B N MSE 176 B MSE 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale14 B C MSE 176 B MSE 439 1_555 B N LEU 177 B LEU 440 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale15 B C ALA 208 B ALA 471 1_555 B N MSE 209 B MSE 472 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale16 B C MSE 209 B MSE 472 1_555 B N VAL 210 B VAL 473 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale17 B C GLU 249 B GLU 512 1_555 B N MSE 250 B MSE 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale18 B C MSE 250 B MSE 513 1_555 B N LEU 251 B LEU 514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale19 B C VAL 282 B VAL 545 1_555 B N MSE 283 B MSE 546 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale20 B C MSE 283 B MSE 546 1_555 B N ARG 284 B ARG 547 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale21 C C GLU 143 C GLU 406 1_555 C N MSE 144 C MSE 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale22 C C MSE 144 C MSE 407 1_555 C N PHE 145 C PHE 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.314 ? covale ? covale23 C C THR 175 C THR 438 1_555 C N MSE 176 C MSE 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale24 C C MSE 176 C MSE 439 1_555 C N LEU 177 C LEU 440 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale25 C C ALA 208 C ALA 471 1_555 C N MSE 209 C MSE 472 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale26 C C MSE 209 C MSE 472 1_555 C N VAL 210 C VAL 473 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.355 ? covale ? covale27 C C GLU 249 C GLU 512 1_555 C N MSE 250 C MSE 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale28 C C MSE 250 C MSE 513 1_555 C N LEU 251 C LEU 514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale29 C C VAL 282 C VAL 545 1_555 C N MSE 283 C MSE 546 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale30 C C MSE 283 C MSE 546 1_555 C N ARG 284 C ARG 547 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? # _chem_comp.formula 'C4 H10 O3' _chem_comp.formula_weight 106.12 _chem_comp.id PEG _chem_comp.mon_nstd_flag . _chem_comp.name DI(HYDROXYETHYL)ETHER _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 O1 PEG sing 250 n n C1 C2 PEG sing 251 n n C1 H11 PEG sing 252 n n C1 H12 PEG sing 253 n n O1 HO1 PEG sing 254 n n C2 O2 PEG sing 255 n n C2 H21 PEG sing 256 n n C2 H22 PEG sing 257 n n O2 C3 PEG sing 258 n n C3 C4 PEG sing 259 n n C3 H31 PEG sing 260 n n C3 H32 PEG sing 261 n n C4 O4 PEG sing 262 n n C4 H41 PEG sing 263 n n C4 H42 PEG sing 264 n n O4 HO4 PEG sing 265 n n # _atom_sites.entry_id 3CKD _atom_sites.fract_transf_matrix[1][1] 0.007756 _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] 0.007756 _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] 0.003536 _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 2 SO4 B 1 601 101 SO4 SO4 . E 2 SO4 C 1 600 100 SO4 SO4 . F 3 GOL C 1 602 200 GOL GOL . G 3 GOL C 1 603 201 GOL GOL . H 3 GOL C 1 604 202 GOL GOL . I 4 PEG C 1 605 300 PEG PEG . J 5 HOH A 1 718 18 HOH HOH . K 5 HOH B 1 701 1 HOH HOH . K 5 HOH B 2 704 4 HOH HOH . K 5 HOH B 3 717 17 HOH HOH . K 5 HOH B 4 719 19 HOH HOH . L 5 HOH C 1 702 2 HOH HOH . L 5 HOH C 2 703 3 HOH HOH . L 5 HOH C 3 705 5 HOH HOH . L 5 HOH C 4 706 6 HOH HOH . L 5 HOH C 5 707 7 HOH HOH . L 5 HOH C 6 708 8 HOH HOH . L 5 HOH C 7 709 9 HOH HOH . L 5 HOH C 8 710 10 HOH HOH . L 5 HOH C 9 711 11 HOH HOH . L 5 HOH C 10 712 12 HOH HOH . L 5 HOH C 11 713 13 HOH HOH . L 5 HOH C 12 714 14 HOH HOH . L 5 HOH C 13 715 15 HOH HOH . L 5 HOH C 14 716 16 HOH HOH . L 5 HOH C 15 720 20 HOH HOH . L 5 HOH C 16 721 21 HOH HOH . L 5 HOH C 17 722 22 HOH HOH . L 5 HOH C 18 723 23 HOH HOH . L 5 HOH C 19 724 24 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 PEG . . . I 4 27.776 29.932 72.589 1 51.41 ? C1 PEG 605 C 1 HETATM 2 O O1 PEG . . . I 4 27.321 29.48 71.294 1 43.2 ? O1 PEG 605 C 1 HETATM 3 C C2 PEG . . . I 4 28.393 28.825 73.466 1 52.94 ? C2 PEG 605 C 1 HETATM 4 O O2 PEG . . . I 4 27.556 28.402 74.559 1 54.98 ? O2 PEG 605 C 1 HETATM 5 C C3 PEG . . . I 4 26.561 27.436 74.24 1 56.46 ? C3 PEG 605 C 1 HETATM 6 C C4 PEG . . . I 4 26.324 26.557 75.47 1 61.46 ? C4 PEG 605 C 1 HETATM 7 O O4 PEG . . . I 4 26.147 27.373 76.655 1 64.05 ? O4 PEG 605 C 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 221 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 7 #