data_8WD0 # _model_server_result.job_id FjUbExSnnB-cHAcQRPgE2g _model_server_result.datetime_utc '2024-10-11 02:20:39' _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 8wd0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":503}' # _entry.id 8WD0 # _exptl.entry_id 8WD0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 318.364 _entity.id 10 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-methoxy-5-[2-(3,4,5-trimethoxyphenyl)ethyl]phenol _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 90 _cell.angle_gamma 90 _cell.entry_id 8WD0 _cell.length_a 156.56 _cell.length_b 181.54 _cell.length_c 104.74 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8WD0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 10 M N N ? 10 T 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 OD1 ASP 39 A ASP 39 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.615 ? metalc ? metalc2 A OD2 ASP 39 A ASP 39 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc3 A O THR 41 A THR 41 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? metalc ? metalc4 A OG1 THR 41 A THR 41 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc5 A O GLY 44 A GLY 44 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc6 A OE1 GLU 55 A GLU 55 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.595 ? metalc ? metalc7 A OE2 GLU 55 A GLU 55 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.596 ? metalc ? metalc8 G O1G GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? metalc ? metalc9 G O1B GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? metalc ? metalc10 K MG MG . B MG 501 1_555 N O1A GDP . B GDP 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? metalc ? metalc11 C OD1 ASP 39 C ASP 39 1_555 Q CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc12 C OD2 ASP 39 C ASP 39 1_555 Q CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.274 ? metalc ? metalc13 C O THR 41 C THR 41 1_555 Q CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc14 C OG1 THR 41 C THR 41 1_555 Q CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc15 C O GLY 44 C GLY 44 1_555 Q CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc16 C OE1 GLU 55 C GLU 55 1_555 Q CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc17 C OE2 GLU 55 C GLU 55 1_555 Q CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? metalc ? metalc18 O O1G GTP . C GTP 501 1_555 P MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.202 ? metalc ? metalc19 O O1B GTP . C GTP 501 1_555 P MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? metalc ? metalc20 R O1G GTP . D GTP 501 1_555 S MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.939 ? metalc ? metalc21 R O2G GTP . D GTP 501 1_555 S MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc22 R O1B GTP . D GTP 501 1_555 S MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? # _chem_comp.formula 'C18 H22 O5' _chem_comp.formula_weight 318.364 _chem_comp.id W4F _chem_comp.mon_nstd_flag . _chem_comp.name 2-methoxy-5-[2-(3,4,5-trimethoxyphenyl)ethyl]phenol _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Erianin # 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 W4F doub 560 n y C1 C6 W4F sing 561 n y C1 O2 W4F sing 562 n n C2 C3 W4F sing 563 n y C2 O1 W4F sing 564 n n C3 C4 W4F doub 565 n y C4 C5 W4F sing 566 n y C5 C6 W4F doub 567 n y C5 C7 W4F sing 568 n n C7 C8 W4F sing 569 n n C8 C9 W4F sing 570 n n C9 C11 W4F doub 571 n y C9 C15 W4F sing 572 n y O1 C10 W4F sing 573 n n C11 C12 W4F sing 574 n y C12 C13 W4F doub 575 n y C12 O5 W4F sing 576 n n C13 C14 W4F sing 577 n y C13 O4 W4F sing 578 n n C14 C15 W4F doub 579 n y C14 O3 W4F sing 580 n n O3 C16 W4F sing 581 n n O4 C17 W4F sing 582 n n O5 C18 W4F sing 583 n n C4 H2 W4F sing 584 n n C6 H3 W4F sing 585 n n C7 H5 W4F sing 586 n n C7 H4 W4F sing 587 n n C8 H7 W4F sing 588 n n C8 H6 W4F sing 589 n n C10 H8 W4F sing 590 n n C10 H9 W4F sing 591 n n C10 H10 W4F sing 592 n n C15 H13 W4F sing 593 n n C17 H17 W4F sing 594 n n C17 H18 W4F sing 595 n n C17 H19 W4F sing 596 n n C11 H12 W4F sing 597 n n C16 H14 W4F sing 598 n n C16 H16 W4F sing 599 n n C16 H15 W4F sing 600 n n C18 H20 W4F sing 601 n n C18 H22 W4F sing 602 n n C18 H21 W4F sing 603 n n C3 H1 W4F sing 604 n n O2 H11 W4F sing 605 n n # _atom_sites.entry_id 8WD0 _atom_sites.fract_transf_matrix[1][1] 0.006387 _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] 0.005508 _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] 0.009547 _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 G 5 GTP A 1 501 501 GTP GTP . H 6 MG A 1 502 502 MG MG . I 7 CA A 1 503 503 CA CA . J 8 GOL A 1 504 504 GOL GOL . K 6 MG B 1 501 502 MG MG . L 9 MES B 1 502 503 MES MES . M 10 W4F B 1 503 601 W4F LIG . N 11 GDP B 1 504 501 GDP GDP . O 5 GTP C 1 501 501 GTP GTP . P 6 MG C 1 502 502 MG MG . Q 7 CA C 1 503 503 CA CA . R 5 GTP D 1 501 501 GTP GTP . S 6 MG D 1 502 502 MG MG . T 10 W4F D 1 503 601 W4F LIG . U 12 ACP F 1 401 401 ACP ACP . V 13 HOH A 1 601 7 HOH HOH . V 13 HOH A 2 602 9 HOH HOH . V 13 HOH A 3 603 54 HOH HOH . V 13 HOH A 4 604 57 HOH HOH . V 13 HOH A 5 605 72 HOH HOH . V 13 HOH A 6 606 49 HOH HOH . V 13 HOH A 7 607 74 HOH HOH . V 13 HOH A 8 608 59 HOH HOH . V 13 HOH A 9 609 37 HOH HOH . V 13 HOH A 10 610 69 HOH HOH . V 13 HOH A 11 611 56 HOH HOH . W 13 HOH B 1 601 33 HOH HOH . W 13 HOH B 2 602 48 HOH HOH . W 13 HOH B 3 603 36 HOH HOH . W 13 HOH B 4 604 19 HOH HOH . W 13 HOH B 5 605 75 HOH HOH . W 13 HOH B 6 606 44 HOH HOH . W 13 HOH B 7 607 38 HOH HOH . W 13 HOH B 8 608 14 HOH HOH . W 13 HOH B 9 609 2 HOH HOH . W 13 HOH B 10 610 40 HOH HOH . W 13 HOH B 11 611 18 HOH HOH . W 13 HOH B 12 612 13 HOH HOH . W 13 HOH B 13 613 52 HOH HOH . W 13 HOH B 14 614 45 HOH HOH . W 13 HOH B 15 615 4 HOH HOH . X 13 HOH C 1 601 24 HOH HOH . X 13 HOH C 2 602 10 HOH HOH . X 13 HOH C 3 603 31 HOH HOH . X 13 HOH C 4 604 34 HOH HOH . X 13 HOH C 5 605 32 HOH HOH . X 13 HOH C 6 606 16 HOH HOH . X 13 HOH C 7 607 67 HOH HOH . X 13 HOH C 8 608 35 HOH HOH . X 13 HOH C 9 609 41 HOH HOH . X 13 HOH C 10 610 11 HOH HOH . X 13 HOH C 11 611 76 HOH HOH . X 13 HOH C 12 612 53 HOH HOH . X 13 HOH C 13 613 26 HOH HOH . X 13 HOH C 14 614 30 HOH HOH . X 13 HOH C 15 615 22 HOH HOH . X 13 HOH C 16 616 1 HOH HOH . X 13 HOH C 17 617 66 HOH HOH . X 13 HOH C 18 618 15 HOH HOH . X 13 HOH C 19 619 25 HOH HOH . X 13 HOH C 20 620 70 HOH HOH . X 13 HOH C 21 621 50 HOH HOH . X 13 HOH C 22 622 47 HOH HOH . X 13 HOH C 23 623 43 HOH HOH . X 13 HOH C 24 624 60 HOH HOH . X 13 HOH C 25 625 62 HOH HOH . X 13 HOH C 26 626 51 HOH HOH . X 13 HOH C 27 627 58 HOH HOH . X 13 HOH C 28 628 68 HOH HOH . Y 13 HOH D 1 601 6 HOH HOH . Y 13 HOH D 2 602 29 HOH HOH . Y 13 HOH D 3 603 46 HOH HOH . Y 13 HOH D 4 604 63 HOH HOH . Z 13 HOH E 1 201 71 HOH HOH . Z 13 HOH E 2 202 65 HOH HOH . Z 13 HOH E 3 203 27 HOH HOH . Z 13 HOH E 4 204 55 HOH HOH . AA 13 HOH F 1 501 8 HOH HOH . AA 13 HOH F 2 502 39 HOH HOH . AA 13 HOH F 3 503 12 HOH HOH . AA 13 HOH F 4 504 42 HOH HOH . AA 13 HOH F 5 505 20 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 C4 W4F . . . M 10 64.457 43.833 17.603 1 56 ? C4 W4F 503 B 1 HETATM 2 C C5 W4F . . . M 10 65.556 44.455 18.024 1 58.93 ? C5 W4F 503 B 1 HETATM 3 C C6 W4F . . . M 10 65.548 45.807 18.002 1 51.35 ? C6 W4F 503 B 1 HETATM 4 C C7 W4F . . . M 10 66.669 43.703 18.457 1 62.95 ? C7 W4F 503 B 1 HETATM 5 C C8 W4F . . . M 10 66.621 42.298 18.507 1 59.29 ? C8 W4F 503 B 1 HETATM 6 C C10 W4F . . . M 10 62.175 47.715 16.494 1 65.05 ? C10 W4F 503 B 1 HETATM 7 C C13 W4F . . . M 10 66.384 39.916 15.181 1 59.36 ? C13 W4F 503 B 1 HETATM 8 C C15 W4F . . . M 10 66.533 42.038 16.092 1 59.67 ? C15 W4F 503 B 1 HETATM 9 C C17 W4F . . . M 10 65.218 38.443 14.136 1 68.11 ? C17 W4F 503 B 1 HETATM 10 C C1 W4F . . . M 10 64.502 46.501 17.59 1 54.97 ? C1 W4F 503 B 1 HETATM 11 C C11 W4F . . . M 10 66.512 40.227 17.472 1 62.4 ? C11 W4F 503 B 1 HETATM 12 C C12 W4F . . . M 10 66.413 39.416 16.415 1 65.2 ? C12 W4F 503 B 1 HETATM 13 C C14 W4F . . . M 10 66.444 41.223 15.031 1 59.94 ? C14 W4F 503 B 1 HETATM 14 C C16 W4F . . . M 10 65.473 41.437 13.018 1 60.68 ? C16 W4F 503 B 1 HETATM 15 C C18 W4F . . . M 10 66.798 37.539 17.721 1 63.91 ? C18 W4F 503 B 1 HETATM 16 C C2 W4F . . . M 10 63.377 45.866 17.149 1 50.34 ? C2 W4F 503 B 1 HETATM 17 C C3 W4F . . . M 10 63.39 44.524 17.165 1 54.53 ? C3 W4F 503 B 1 HETATM 18 C C9 W4F . . . M 10 66.561 41.545 17.331 1 61.17 ? C9 W4F 503 B 1 HETATM 19 O O1 W4F . . . M 10 62.273 46.422 16.727 1 51.57 ? O1 W4F 503 B 1 HETATM 20 O O2 W4F . . . M 10 64.609 47.768 17.625 1 61.72 ? O2 W4F 503 B 1 HETATM 21 O O3 W4F . . . M 10 66.44 41.75 13.813 1 60.91 ? O3 W4F 503 B 1 HETATM 22 O O4 W4F . . . M 10 66.312 39.143 14.164 1 70.55 ? O4 W4F 503 B 1 HETATM 23 O O5 W4F . . . M 10 66.334 38.069 16.558 1 69.19 ? O5 W4F 503 B 1 HETATM 24 H H2 W4F . . . M 10 64.411 42.75 17.585 1 67.22 ? H2 W4F 503 B 1 HETATM 25 H H3 W4F . . . M 10 66.407 46.397 18.336 1 61.63 ? H3 W4F 503 B 1 HETATM 26 H H5 W4F . . . M 10 66.959 44.062 19.466 1 75.55 ? H5 W4F 503 B 1 HETATM 27 H H4 W4F . . . M 10 67.538 43.975 17.824 1 75.55 ? H4 W4F 503 B 1 HETATM 28 H H7 W4F . . . M 10 65.768 42.01 19.157 1 71.16 ? H7 W4F 503 B 1 HETATM 29 H H6 W4F . . . M 10 67.502 41.973 19.098 1 71.16 ? H6 W4F 503 B 1 HETATM 30 H H8 W4F . . . M 10 61.116 47.894 16.25 1 78.07 ? H8 W4F 503 B 1 HETATM 31 H H9 W4F . . . M 10 62.767 48.016 15.617 1 78.07 ? H9 W4F 503 B 1 HETATM 32 H H10 W4F . . . M 10 62.445 48.357 17.34 1 78.07 ? H10 W4F 503 B 1 HETATM 33 H H13 W4F . . . M 10 66.582 43.107 15.906 1 71.61 ? H13 W4F 503 B 1 HETATM 34 H H17 W4F . . . M 10 64.965 38.311 13.072 1 81.75 ? H17 W4F 503 B 1 HETATM 35 H H18 W4F . . . M 10 64.341 38.858 14.648 1 81.75 ? H18 W4F 503 B 1 HETATM 36 H H19 W4F . . . M 10 65.409 37.439 14.551 1 81.75 ? H19 W4F 503 B 1 HETATM 37 H H12 W4F . . . M 10 66.504 39.825 18.482 1 74.89 ? H12 W4F 503 B 1 HETATM 38 H H14 W4F . . . M 10 64.91 42.27 12.579 1 72.83 ? H14 W4F 503 B 1 HETATM 39 H H16 W4F . . . M 10 64.763 40.751 13.504 1 72.83 ? H16 W4F 503 B 1 HETATM 40 H H15 W4F . . . M 10 65.936 40.875 12.188 1 72.83 ? H15 W4F 503 B 1 HETATM 41 H H20 W4F . . . M 10 66.956 36.452 17.729 1 76.7 ? H20 W4F 503 B 1 HETATM 42 H H22 W4F . . . M 10 66.133 37.811 18.555 1 76.7 ? H22 W4F 503 B 1 HETATM 43 H H21 W4F . . . M 10 67.776 38.012 17.912 1 76.7 ? H21 W4F 503 B 1 HETATM 44 H H1 W4F . . . M 10 62.488 44.016 16.824 1 65.45 ? H1 W4F 503 B 1 HETATM 45 H H11 W4F . . . M 10 65.446 47.95 18.058 1 74.08 ? H11 W4F 503 B 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 45 #