data_7L4L # _model_server_result.job_id fbQMBzkkIY9dEz41wCxCQg _model_server_result.datetime_utc '2024-11-23 10:37:44' _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 7l4l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":101}' # _entry.id 7L4L # _exptl.entry_id 7L4L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 465.478 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(3~{R})-2,2-dimethyl-4-[[3-[2-[[(~{E})-oct-2-enoyl]amino]ethylamino]-3-oxidanylidene-propyl]amino]-3-oxidanyl-4-oxidanylidene-butyl] dihydrogen phosphate' _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 7L4L _cell.length_a 83.782 _cell.length_b 92.136 _cell.length_c 113.746 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7L4L _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 ? 4 G N N ? 4 H 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 SG CYS 164 A CYS 163 1_555 H C26 DYF . D DYF 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.79 ? covale ? covale2 B SG CYS 164 B CYS 163 1_555 G C26 DYF . C DYF 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.812 ? covale ? covale3 C OG SER 37 C SER 36 1_555 G P06 DYF . C DYF 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.605 ? covale ? covale4 D OG SER 37 D SER 36 1_555 H P06 DYF . D DYF 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.617 ? metalc ? metalc1 A O ASN 302 A ASN 301 1_555 E NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? metalc ? metalc2 A OD1 ASN 302 A ASN 301 1_555 E NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.752 ? metalc ? metalc3 A O ALA 303 A ALA 302 1_555 E NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.924 ? metalc ? metalc4 A OE1 GLU 350 A GLU 349 1_555 E NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? metalc ? metalc5 A O ASN 397 A ASN 396 1_555 E NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.686 ? metalc ? metalc6 B O ASN 302 B ASN 301 1_555 F NA NA . B NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.439 ? metalc ? metalc7 B OD1 ASN 302 B ASN 301 1_555 F NA NA . B NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.872 ? metalc ? metalc8 B OE1 GLU 350 B GLU 349 1_555 F NA NA . B NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc9 B O ASN 397 B ASN 396 1_555 F NA NA . B NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.705 ? # _chem_comp.formula 'C19 H36 N3 O8 P' _chem_comp.formula_weight 465.478 _chem_comp.id DYF _chem_comp.mon_nstd_flag . _chem_comp.name '[(3~{R})-2,2-dimethyl-4-[[3-[2-[[(~{E})-oct-2-enoyl]amino]ethylamino]-3-oxidanylidene-propyl]amino]-3-oxidanyl-4-oxidanylidene-butyl] dihydrogen phosphate' _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 O24 C23 DYF doub 83 n n C20 C21 DYF sing 84 n n C20 N19 DYF sing 85 n n N22 C23 DYF sing 86 n n N22 C21 DYF sing 87 n n C23 C25 DYF sing 88 n n O18 C17 DYF doub 89 n n N19 C17 DYF sing 90 n n C17 C16 DYF sing 91 n n C26 C25 DYF doub 92 e n C26 C27 DYF sing 93 n n C27 C28 DYF sing 94 n n C16 C15 DYF sing 95 n n C28 C29 DYF sing 96 n n C15 N14 DYF sing 97 n n O13 C12 DYF doub 98 n n C29 C30 DYF sing 99 n n N14 C12 DYF sing 100 n n C30 C31 DYF sing 101 n n C12 C10 DYF sing 102 n n C10 O11 DYF sing 103 n n C10 C02 DYF sing 104 n n C03 C02 DYF sing 105 n n O08 P06 DYF doub 106 n n C02 C01 DYF sing 107 n n C02 C04 DYF sing 108 n n O09 P06 DYF sing 109 n n P06 O05 DYF sing 110 n n P06 O07 DYF sing 111 n n O05 C04 DYF sing 112 n n C29 H1 DYF sing 113 n n C29 H2 DYF sing 114 n n C26 H3 DYF sing 115 n n C25 H4 DYF sing 116 n n C21 H5 DYF sing 117 n n C21 H6 DYF sing 118 n n O11 H7 DYF sing 119 n n N22 H8 DYF sing 120 n n C10 H9 DYF sing 121 n n N19 H10 DYF sing 122 n n C30 H11 DYF sing 123 n n C30 H12 DYF sing 124 n n C31 H13 DYF sing 125 n n C31 H14 DYF sing 126 n n C31 H15 DYF sing 127 n n N14 H16 DYF sing 128 n n C28 H17 DYF sing 129 n n C28 H18 DYF sing 130 n n C27 H19 DYF sing 131 n n C27 H20 DYF sing 132 n n C20 H21 DYF sing 133 n n C20 H22 DYF sing 134 n n C16 H23 DYF sing 135 n n C16 H24 DYF sing 136 n n C15 H25 DYF sing 137 n n C15 H26 DYF sing 138 n n C01 H27 DYF sing 139 n n C01 H28 DYF sing 140 n n C01 H29 DYF sing 141 n n C03 H30 DYF sing 142 n n C03 H31 DYF sing 143 n n C03 H32 DYF sing 144 n n C04 H33 DYF sing 145 n n C04 H34 DYF sing 146 n n O07 H35 DYF sing 147 n n O09 H36 DYF sing 148 n n # _atom_sites.entry_id 7L4L _atom_sites.fract_transf_matrix[1][1] 0.011936 _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] 0.010854 _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] 0.008792 _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 E 3 NA A 1 501 1 NA NA . F 3 NA B 1 501 2 NA NA . G 4 DYF C 1 101 1 DYF PNE . H 4 DYF D 1 101 1 DYF PNE . I 5 HOH A 1 601 58 HOH HOH . I 5 HOH A 2 602 117 HOH HOH . I 5 HOH A 3 603 94 HOH HOH . I 5 HOH A 4 604 18 HOH HOH . I 5 HOH A 5 605 55 HOH HOH . I 5 HOH A 6 606 113 HOH HOH . I 5 HOH A 7 607 68 HOH HOH . I 5 HOH A 8 608 20 HOH HOH . I 5 HOH A 9 609 67 HOH HOH . I 5 HOH A 10 610 142 HOH HOH . I 5 HOH A 11 611 10 HOH HOH . I 5 HOH A 12 612 71 HOH HOH . I 5 HOH A 13 613 91 HOH HOH . I 5 HOH A 14 614 104 HOH HOH . I 5 HOH A 15 615 88 HOH HOH . I 5 HOH A 16 616 141 HOH HOH . I 5 HOH A 17 617 102 HOH HOH . I 5 HOH A 18 618 4 HOH HOH . I 5 HOH A 19 619 80 HOH HOH . I 5 HOH A 20 620 54 HOH HOH . I 5 HOH A 21 621 99 HOH HOH . I 5 HOH A 22 622 3 HOH HOH . I 5 HOH A 23 623 95 HOH HOH . I 5 HOH A 24 624 123 HOH HOH . I 5 HOH A 25 625 70 HOH HOH . I 5 HOH A 26 626 25 HOH HOH . I 5 HOH A 27 627 15 HOH HOH . I 5 HOH A 28 628 40 HOH HOH . I 5 HOH A 29 629 8 HOH HOH . I 5 HOH A 30 630 56 HOH HOH . I 5 HOH A 31 631 44 HOH HOH . I 5 HOH A 32 632 12 HOH HOH . I 5 HOH A 33 633 28 HOH HOH . I 5 HOH A 34 634 1 HOH HOH . I 5 HOH A 35 635 140 HOH HOH . I 5 HOH A 36 636 90 HOH HOH . I 5 HOH A 37 637 19 HOH HOH . I 5 HOH A 38 638 35 HOH HOH . I 5 HOH A 39 639 30 HOH HOH . I 5 HOH A 40 640 34 HOH HOH . I 5 HOH A 41 641 9 HOH HOH . I 5 HOH A 42 642 7 HOH HOH . I 5 HOH A 43 643 130 HOH HOH . I 5 HOH A 44 644 48 HOH HOH . I 5 HOH A 45 645 97 HOH HOH . I 5 HOH A 46 646 136 HOH HOH . I 5 HOH A 47 647 96 HOH HOH . I 5 HOH A 48 648 61 HOH HOH . I 5 HOH A 49 649 27 HOH HOH . I 5 HOH A 50 650 29 HOH HOH . I 5 HOH A 51 651 53 HOH HOH . I 5 HOH A 52 652 92 HOH HOH . I 5 HOH A 53 653 119 HOH HOH . I 5 HOH A 54 654 106 HOH HOH . I 5 HOH A 55 655 127 HOH HOH . I 5 HOH A 56 656 138 HOH HOH . I 5 HOH A 57 657 63 HOH HOH . I 5 HOH A 58 658 83 HOH HOH . I 5 HOH A 59 659 103 HOH HOH . I 5 HOH A 60 660 110 HOH HOH . I 5 HOH A 61 661 50 HOH HOH . I 5 HOH A 62 662 65 HOH HOH . I 5 HOH A 63 663 52 HOH HOH . I 5 HOH A 64 664 47 HOH HOH . I 5 HOH A 65 665 132 HOH HOH . I 5 HOH A 66 666 118 HOH HOH . I 5 HOH A 67 667 101 HOH HOH . J 5 HOH B 1 601 57 HOH HOH . J 5 HOH B 2 602 69 HOH HOH . J 5 HOH B 3 603 23 HOH HOH . J 5 HOH B 4 604 100 HOH HOH . J 5 HOH B 5 605 78 HOH HOH . J 5 HOH B 6 606 112 HOH HOH . J 5 HOH B 7 607 17 HOH HOH . J 5 HOH B 8 608 87 HOH HOH . J 5 HOH B 9 609 115 HOH HOH . J 5 HOH B 10 610 74 HOH HOH . J 5 HOH B 11 611 14 HOH HOH . J 5 HOH B 12 612 45 HOH HOH . J 5 HOH B 13 613 11 HOH HOH . J 5 HOH B 14 614 21 HOH HOH . J 5 HOH B 15 615 43 HOH HOH . J 5 HOH B 16 616 89 HOH HOH . J 5 HOH B 17 617 137 HOH HOH . J 5 HOH B 18 618 36 HOH HOH . J 5 HOH B 19 619 79 HOH HOH . J 5 HOH B 20 620 39 HOH HOH . J 5 HOH B 21 621 38 HOH HOH . J 5 HOH B 22 622 31 HOH HOH . J 5 HOH B 23 623 108 HOH HOH . J 5 HOH B 24 624 13 HOH HOH . J 5 HOH B 25 625 125 HOH HOH . J 5 HOH B 26 626 82 HOH HOH . J 5 HOH B 27 627 41 HOH HOH . J 5 HOH B 28 628 5 HOH HOH . J 5 HOH B 29 629 42 HOH HOH . J 5 HOH B 30 630 6 HOH HOH . J 5 HOH B 31 631 98 HOH HOH . J 5 HOH B 32 632 33 HOH HOH . J 5 HOH B 33 633 139 HOH HOH . J 5 HOH B 34 634 85 HOH HOH . J 5 HOH B 35 635 2 HOH HOH . J 5 HOH B 36 636 26 HOH HOH . J 5 HOH B 37 637 84 HOH HOH . J 5 HOH B 38 638 73 HOH HOH . J 5 HOH B 39 639 32 HOH HOH . J 5 HOH B 40 640 46 HOH HOH . J 5 HOH B 41 641 60 HOH HOH . J 5 HOH B 42 642 51 HOH HOH . J 5 HOH B 43 643 86 HOH HOH . J 5 HOH B 44 644 105 HOH HOH . J 5 HOH B 45 645 116 HOH HOH . J 5 HOH B 46 646 49 HOH HOH . J 5 HOH B 47 647 77 HOH HOH . J 5 HOH B 48 648 81 HOH HOH . J 5 HOH B 49 649 64 HOH HOH . J 5 HOH B 50 650 24 HOH HOH . J 5 HOH B 51 651 66 HOH HOH . J 5 HOH B 52 652 121 HOH HOH . J 5 HOH B 53 653 93 HOH HOH . K 5 HOH C 1 201 72 HOH HOH . K 5 HOH C 2 202 107 HOH HOH . L 5 HOH D 1 201 114 HOH HOH . L 5 HOH D 2 202 75 HOH HOH . L 5 HOH D 3 203 37 HOH HOH . L 5 HOH D 4 204 134 HOH HOH . L 5 HOH D 5 205 131 HOH HOH . L 5 HOH D 6 206 22 HOH HOH . L 5 HOH D 7 207 16 HOH HOH . L 5 HOH D 8 208 62 HOH HOH . L 5 HOH D 9 209 133 HOH HOH . L 5 HOH D 10 210 76 HOH HOH . L 5 HOH D 11 211 135 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 C29 DYF . . . H 4 26.756 9.099 14.674 1 29.3 ? C29 DYF 101 D 1 HETATM 2 C C26 DYF . . . H 4 30.485 9.699 13.946 1 22.8 ? C26 DYF 101 D 1 HETATM 3 C C25 DYF . . . H 4 31.496 10.174 14.647 1 26.11 ? C25 DYF 101 D 1 HETATM 4 O O13 DYF . . . H 4 33.398 17.572 17.51 1 43.74 ? O13 DYF 101 D 1 HETATM 5 C C21 DYF . . . H 4 35.239 11.217 14.444 1 37.5 ? C21 DYF 101 D 1 HETATM 6 C C17 DYF . . . H 4 35.421 13.869 16.169 1 42.42 ? C17 DYF 101 D 1 HETATM 7 O O11 DYF . . . H 4 32.076 16.638 20.583 1 39.34 ? O11 DYF 101 D 1 HETATM 8 N N22 DYF . . . H 4 33.965 10.725 14.926 1 34.58 ? N22 DYF 101 D 1 HETATM 9 C C10 DYF . . . H 4 32.275 17.624 19.609 1 40.27 ? C10 DYF 101 D 1 HETATM 10 N N19 DYF . . . H 4 35.519 12.466 16.529 1 44.3 ? N19 DYF 101 D 1 HETATM 11 C C30 DYF . . . H 4 25.669 8.806 13.644 1 29.57 ? C30 DYF 101 D 1 HETATM 12 C C31 DYF . . . H 4 26.174 7.737 12.679 1 35.79 ? C31 DYF 101 D 1 HETATM 13 N N14 DYF . . . H 4 32.693 15.506 18.183 1 37.82 ? N14 DYF 101 D 1 HETATM 14 C C28 DYF . . . H 4 27.997 9.618 13.952 1 28.22 ? C28 DYF 101 D 1 HETATM 15 C C27 DYF . . . H 4 29.258 9.212 14.714 1 30.24 ? C27 DYF 101 D 1 HETATM 16 C C23 DYF . . . H 4 32.801 10.711 14.06 1 29 ? C23 DYF 101 D 1 HETATM 17 C C20 DYF . . . H 4 36.153 11.52 15.629 1 41.51 ? C20 DYF 101 D 1 HETATM 18 C C16 DYF . . . H 4 34.759 14.86 17.125 1 38.35 ? C16 DYF 101 D 1 HETATM 19 C C15 DYF . . . H 4 33.233 14.833 17.013 1 35.21 ? C15 DYF 101 D 1 HETATM 20 C C12 DYF . . . H 4 32.828 16.946 18.343 1 40.67 ? C12 DYF 101 D 1 HETATM 21 C C01 DYF . . . H 4 30.835 18.995 18.05 1 39.8 ? C01 DYF 101 D 1 HETATM 22 C C02 DYF . . . H 4 30.954 18.383 19.437 1 40.64 ? C02 DYF 101 D 1 HETATM 23 C C03 DYF . . . H 4 29.787 17.422 19.663 1 42.87 ? C03 DYF 101 D 1 HETATM 24 C C04 DYF . . . H 4 30.905 19.545 20.432 1 39.03 ? C04 DYF 101 D 1 HETATM 25 O O05 DYF . . . H 4 31.027 19.093 21.75 1 41.13 ? O05 DYF 101 D 1 HETATM 26 P P06 DYF . . . H 4 32.335 19.551 22.646 1 42.78 ? P06 DYF 101 D 1 HETATM 27 O O07 DYF . . . H 4 32.729 18.433 23.587 1 49.96 -1 O07 DYF 101 D 1 HETATM 28 O O08 DYF . . . H 4 33.516 19.9 21.771 1 45.69 -1 O08 DYF 101 D 1 HETATM 29 O O18 DYF . . . H 4 35.861 14.25 15.136 1 42.12 ? O18 DYF 101 D 1 HETATM 30 O O24 DYF . . . H 4 32.88 11.111 12.944 1 28.82 ? O24 DYF 101 D 1 # _model_server_stats.io_time_ms 95 _model_server_stats.parse_time_ms 39 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 30 #