data_5LP6 # _model_server_result.job_id iUfMY9HKvvqURg90xkY_BA _model_server_result.datetime_utc '2025-07-07 09:31:42' _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 5lp6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":504}' # _entry.id 5LP6 # _exptl.entry_id 5LP6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 415.503 _entity.id 10 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ~{N}-[(7~{R})-1,2,3-trimethoxy-10-methylsulfanyl-9-oxidanylidene-6,7-dihydro-5~{H}-benzo[a]heptalen-7-yl]ethanamide _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 5LP6 _cell.length_a 103.619 _cell.length_b 155.285 _cell.length_c 180.445 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5LP6 _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 hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 10 _struct_asym.id P _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 metalc ? metalc1 A OD1 ASP 39 A ASP 39 1_555 J MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.664 ? metalc ? metalc2 A OG1 THR 41 A THR 41 1_555 J MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc3 A O GLY 44 A GLY 44 1_555 J MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc4 A OE2 GLU 55 A GLU 55 1_555 J MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.54 ? metalc ? metalc5 G O2G GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.517 ? metalc ? metalc6 G O1B GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? metalc ? metalc7 B OE2 GLU 111 B GLU 113 1_555 Q MG MG . B MG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.874 ? metalc ? metalc8 M O1A GDP . B GDP 501 1_555 N MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.635 ? metalc ? metalc9 R MG MG . B MG 506 1_555 X O HOH . B HOH 613 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.242 ? metalc ? metalc10 C OD1 ASP 39 C ASP 39 1_555 U CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.939 ? metalc ? metalc11 C OG1 THR 41 C THR 41 1_555 U CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? metalc ? metalc12 C O GLY 44 C GLY 44 1_555 U CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.021 ? metalc ? metalc13 C OD2 ASP 47 C ASP 47 1_555 U CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.07 ? metalc ? metalc14 C OE2 GLU 55 C GLU 55 1_555 U CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.681 ? metalc ? metalc15 S O1G GTP . C GTP 501 1_555 T MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? metalc ? metalc16 S O1B GTP . C GTP 501 1_555 T MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? # _chem_comp.formula 'C22 H25 N O5 S' _chem_comp.formula_weight 415.503 _chem_comp.id 71P _chem_comp.mon_nstd_flag . _chem_comp.name ~{N}-[(7~{R})-1,2,3-trimethoxy-10-methylsulfanyl-9-oxidanylidene-6,7-dihydro-5~{H}-benzo[a]heptalen-7-yl]ethanamide _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 CAA OAB 71P sing 1 n n OAB CAC 71P sing 2 n n CAM OAN 71P sing 3 n n OAN CAO 71P sing 4 n n CAC CAO 71P doub 5 n y CAC CAD 71P sing 6 n y CAO CAP 71P sing 7 n y CAD CAE 71P doub 8 n y CAP OAW 71P sing 9 n n CAP CAQ 71P doub 10 n y OAW CBA 71P sing 11 n n CAE CAQ 71P sing 12 n y CAE CAF 71P sing 13 n n CAQ CAR 71P sing 14 n n CAF CAG 71P sing 15 n n CAX CAR 71P doub 16 n n CAX CAY 71P sing 17 n n CAR CAS 71P sing 18 n n CAG CAH 71P sing 19 n n CAY CAZ 71P doub 20 n n CAS CAH 71P sing 21 n n CAS CAT 71P doub 22 n n CAH NAI 71P sing 23 n n OAK CAJ 71P doub 24 n n NAI CAJ 71P sing 25 n n CAZ CAU 71P sing 26 n n CAZ SBB 71P sing 27 n n CAJ CAL 71P sing 28 n n CAT CAU 71P sing 29 n n CAU OAV 71P doub 30 n n SBB CBC 71P sing 31 n n CBA H1 71P sing 32 n n CBA H2 71P sing 33 n n CBA H3 71P sing 34 n n CAX H4 71P sing 35 n n CAY H5 71P sing 36 n n CBC H6 71P sing 37 n n CBC H7 71P sing 38 n n CBC H8 71P sing 39 n n CAT H9 71P sing 40 n n CAH H10 71P sing 41 n n NAI H11 71P sing 42 n n CAL H12 71P sing 43 n n CAL H13 71P sing 44 n n CAL H14 71P sing 45 n n CAG H15 71P sing 46 n n CAG H16 71P sing 47 n n CAF H17 71P sing 48 n n CAF H18 71P sing 49 n n CAD H19 71P sing 50 n n CAA H20 71P sing 51 n n CAA H21 71P sing 52 n n CAA H22 71P sing 53 n n CAM H23 71P sing 54 n n CAM H24 71P sing 55 n n CAM H25 71P sing 56 n n # _atom_sites.entry_id 5LP6 _atom_sites.fract_transf_matrix[1][1] 0.009651 _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] 0.00644 _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] 0.005542 _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 CL A 1 503 504 CL CL . J 6 MG A 1 504 1 MG MG . K 6 MG A 1 505 2 MG MG . L 6 MG A 1 506 4 MG MG . M 8 GDP B 1 501 501 GDP GDP . N 6 MG B 1 502 502 MG MG . O 9 MES B 1 503 504 MES MES . P 10 71P B 1 504 385 71P DRG . Q 6 MG B 1 505 3 MG MG . R 6 MG B 1 506 5 MG MG . S 5 GTP C 1 501 501 GTP GTP . T 6 MG C 1 502 502 MG MG . U 11 CA C 1 503 503 CA CA . V 8 GDP D 1 600 600 GDP GDP . W 12 HOH A 1 601 107 HOH HOH . W 12 HOH A 2 602 102 HOH HOH . W 12 HOH A 3 603 110 HOH HOH . W 12 HOH A 4 604 31 HOH HOH . W 12 HOH A 5 605 105 HOH HOH . W 12 HOH A 6 606 10 HOH HOH . W 12 HOH A 7 607 106 HOH HOH . W 12 HOH A 8 608 113 HOH HOH . W 12 HOH A 9 609 111 HOH HOH . W 12 HOH A 10 610 101 HOH HOH . W 12 HOH A 11 611 108 HOH HOH . W 12 HOH A 12 612 14 HOH HOH . W 12 HOH A 13 613 103 HOH HOH . W 12 HOH A 14 614 104 HOH HOH . W 12 HOH A 15 615 16 HOH HOH . W 12 HOH A 16 616 112 HOH HOH . W 12 HOH A 17 617 114 HOH HOH . W 12 HOH A 18 618 8 HOH HOH . W 12 HOH A 19 619 109 HOH HOH . W 12 HOH A 20 620 56 HOH HOH . W 12 HOH A 21 621 19 HOH HOH . X 12 HOH B 1 601 95 HOH HOH . X 12 HOH B 2 602 120 HOH HOH . X 12 HOH B 3 603 98 HOH HOH . X 12 HOH B 4 604 115 HOH HOH . X 12 HOH B 5 605 121 HOH HOH . X 12 HOH B 6 606 21 HOH HOH . X 12 HOH B 7 607 99 HOH HOH . X 12 HOH B 8 608 119 HOH HOH . X 12 HOH B 9 609 122 HOH HOH . X 12 HOH B 10 610 117 HOH HOH . X 12 HOH B 11 611 100 HOH HOH . X 12 HOH B 12 612 82 HOH HOH . X 12 HOH B 13 613 96 HOH HOH . X 12 HOH B 14 614 118 HOH HOH . X 12 HOH B 15 615 15 HOH HOH . X 12 HOH B 16 616 58 HOH HOH . Y 12 HOH C 1 601 124 HOH HOH . Y 12 HOH C 2 602 127 HOH HOH . Y 12 HOH C 3 603 136 HOH HOH . Y 12 HOH C 4 604 123 HOH HOH . Y 12 HOH C 5 605 125 HOH HOH . Y 12 HOH C 6 606 134 HOH HOH . Y 12 HOH C 7 607 132 HOH HOH . Y 12 HOH C 8 608 139 HOH HOH . Y 12 HOH C 9 609 141 HOH HOH . Y 12 HOH C 10 610 71 HOH HOH . Y 12 HOH C 11 611 80 HOH HOH . Y 12 HOH C 12 612 135 HOH HOH . Y 12 HOH C 13 613 140 HOH HOH . Y 12 HOH C 14 614 91 HOH HOH . Y 12 HOH C 15 615 66 HOH HOH . Y 12 HOH C 16 616 133 HOH HOH . Y 12 HOH C 17 617 81 HOH HOH . Y 12 HOH C 18 618 131 HOH HOH . Y 12 HOH C 19 619 83 HOH HOH . Y 12 HOH C 20 620 74 HOH HOH . Y 12 HOH C 21 621 126 HOH HOH . Y 12 HOH C 22 622 78 HOH HOH . Y 12 HOH C 23 623 24 HOH HOH . Y 12 HOH C 24 624 129 HOH HOH . Y 12 HOH C 25 625 79 HOH HOH . Y 12 HOH C 26 626 76 HOH HOH . Y 12 HOH C 27 627 57 HOH HOH . Y 12 HOH C 28 628 137 HOH HOH . Y 12 HOH C 29 629 130 HOH HOH . Y 12 HOH C 30 630 138 HOH HOH . Y 12 HOH C 31 631 116 HOH HOH . Y 12 HOH C 32 632 128 HOH HOH . Y 12 HOH C 33 633 97 HOH HOH . Y 12 HOH C 34 634 46 HOH HOH . Y 12 HOH C 35 635 47 HOH HOH . Z 12 HOH D 1 701 145 HOH HOH . Z 12 HOH D 2 702 142 HOH HOH . Z 12 HOH D 3 703 42 HOH HOH . Z 12 HOH D 4 704 146 HOH HOH . Z 12 HOH D 5 705 27 HOH HOH . Z 12 HOH D 6 706 143 HOH HOH . Z 12 HOH D 7 707 38 HOH HOH . Z 12 HOH D 8 708 45 HOH HOH . Z 12 HOH D 9 709 43 HOH HOH . Z 12 HOH D 10 710 144 HOH HOH . Z 12 HOH D 11 711 28 HOH HOH . AA 12 HOH E 1 201 33 HOH HOH . BA 12 HOH F 1 401 148 HOH HOH . BA 12 HOH F 2 402 94 HOH HOH . BA 12 HOH F 3 403 85 HOH HOH . BA 12 HOH F 4 404 86 HOH HOH . BA 12 HOH F 5 405 147 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 CBA 71P . . . P 10 14.408 63.976 42.193 0.8 98.31 ? CBA 71P 504 B 1 HETATM 2 O OAW 71P . . . P 10 15.698 63.435 41.706 0.8 98.64 ? OAW 71P 504 B 1 HETATM 3 C CAP 71P . . . P 10 16.545 64.505 41.696 0.8 98.13 ? CAP 71P 504 B 1 HETATM 4 C CAQ 71P . . . P 10 17.312 64.934 42.85 0.8 97.88 ? CAQ 71P 504 B 1 HETATM 5 C CAR 71P . . . P 10 17.305 64.237 44.137 0.8 97.68 ? CAR 71P 504 B 1 HETATM 6 C CAX 71P . . . P 10 16.694 62.966 44.063 0.8 96.93 ? CAX 71P 504 B 1 HETATM 7 C CAY 71P . . . P 10 16.431 61.979 45.006 0.8 96.47 ? CAY 71P 504 B 1 HETATM 8 C CAZ 71P . . . P 10 16.801 61.87 46.333 0.8 96.58 ? CAZ 71P 504 B 1 HETATM 9 S SBB 71P . . . P 10 16.24 60.393 47.144 0.8 96.54 ? SBB 71P 504 B 1 HETATM 10 C CBC 71P . . . P 10 17.713 59.72 47.881 0.8 96.22 ? CBC 71P 504 B 1 HETATM 11 C CAU 71P . . . P 10 17.514 62.81 47.056 0.8 97.15 ? CAU 71P 504 B 1 HETATM 12 O OAV 71P . . . P 10 17.75 62.608 48.248 0.8 97.22 ? OAV 71P 504 B 1 HETATM 13 C CAT 71P . . . P 10 18.005 64.015 46.592 0.8 97.65 ? CAT 71P 504 B 1 HETATM 14 C CAS 71P . . . P 10 17.945 64.647 45.333 0.8 98.31 ? CAS 71P 504 B 1 HETATM 15 C CAH 71P . . . P 10 18.714 65.82 45.61 0.8 99.08 ? CAH 71P 504 B 1 HETATM 16 N NAI 71P . . . P 10 17.938 66.951 46.232 0.8 99.51 ? NAI 71P 504 B 1 HETATM 17 C CAJ 71P . . . P 10 16.606 66.971 46.502 0.8 99.42 ? CAJ 71P 504 B 1 HETATM 18 O OAK 71P . . . P 10 15.786 66.12 46.171 0.8 100.21 ? OAK 71P 504 B 1 HETATM 19 C CAL 71P . . . P 10 16.109 68.185 47.266 0.8 98.95 ? CAL 71P 504 B 1 HETATM 20 C CAG 71P . . . P 10 19.619 66.101 44.43 0.8 98.88 ? CAG 71P 504 B 1 HETATM 21 C CAF 71P . . . P 10 18.909 66.873 43.451 0.8 98.46 ? CAF 71P 504 B 1 HETATM 22 C CAE 71P . . . P 10 18.09 66.108 42.588 0.8 98.18 ? CAE 71P 504 B 1 HETATM 23 C CAD 71P . . . P 10 18.063 66.769 41.338 0.8 97.91 ? CAD 71P 504 B 1 HETATM 24 C CAC 71P . . . P 10 17.311 66.3 40.278 0.8 97.73 ? CAC 71P 504 B 1 HETATM 25 O OAB 71P . . . P 10 17.278 66.889 39.051 0.8 96.6 ? OAB 71P 504 B 1 HETATM 26 C CAA 71P . . . P 10 18.384 66.486 38.225 0.8 96.47 ? CAA 71P 504 B 1 HETATM 27 C CAO 71P . . . P 10 16.545 65.178 40.468 0.8 98.17 ? CAO 71P 504 B 1 HETATM 28 O OAN 71P . . . P 10 15.819 64.69 39.409 0.8 98.28 ? OAN 71P 504 B 1 HETATM 29 C CAM 71P . . . P 10 14.489 65.147 39.176 0.8 97.54 ? CAM 71P 504 B 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 377 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 29 #