data_8ET5 # _model_server_result.job_id aIYjUmE6UOHbHmMBOAcvIw _model_server_result.datetime_utc '2024-11-24 08:59:50' _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 8et5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":705}' # _entry.id 8ET5 # _exptl.entry_id 8ET5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 501.366 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-[3-[(4-azanyl-2-methyl-pyrimidin-5-yl)methyl]-2-[(1~{S})-1-(dioxidanyl)-1-oxidanyl-ethyl]-4-methyl-1,3-thiazol-5-yl]ethyl phosphono hydrogen phosphate' _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 120 _cell.entry_id 8ET5 _cell.length_a 179.593 _cell.length_b 179.593 _cell.length_c 184.772 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8ET5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall 'P 64 2 (x,y,z+1/6)' _symmetry.space_group_name_H-M 'P 64 2 2' # _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,M,N _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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' 4_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 89.7965 -155.5321 0 3 'crystal symmetry operation' 9_554 -x,-x+y,-z-1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 -61.590667 4 'crystal symmetry operation' 12_544 x,x-y-1,-z-1/3 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 89.7965 -155.5321 -61.590667 # _struct_asym.details ? _struct_asym.entity_id 6 _struct_asym.id F _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 PRO 254 A PRO 339 1_555 A N CSD 255 A CSD 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 A C CSD 255 A CSD 340 1_555 A N ASP 256 A ASP 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 A O ILE 316 A ILE 401 1_555 I MG MG . A MG 708 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.48 ? metalc ? metalc2 A O ILE 316 A ILE 401 1_555 I MG MG . A MG 708 4_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.48 ? metalc ? metalc3 A OD1 ASP 453 A ASP 538 1_555 B MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc4 A O MET 458 A MET 543 1_555 H MG MG . A MG 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.51 ? metalc ? metalc5 A O MET 458 A MET 543 1_555 H MG MG . A MG 707 12_544 ? ? ? ? ? ? ? ? ? ? ? ? 2.51 ? metalc ? metalc6 A OE1 GLN 461 A GLN 546 1_555 H MG MG . A MG 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.801 ? metalc ? metalc7 A OE1 GLN 461 A GLN 546 1_555 H MG MG . A MG 707 12_544 ? ? ? ? ? ? ? ? ? ? ? ? 2.801 ? metalc ? metalc8 A OD1 ASN 480 A ASN 565 1_555 B MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc9 A O HIS 482 A HIS 567 1_555 B MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? metalc ? metalc10 B MG MG . A MG 701 1_555 F OAK AUJ . A AUJ 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc11 B MG MG . A MG 701 1_555 F OAI AUJ . A AUJ 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc12 B MG MG . A MG 701 1_555 N O HOH . A HOH 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.215 ? # _chem_comp.formula 'C14 H23 N4 O10 P2 S 1' _chem_comp.formula_weight 501.366 _chem_comp.id AUJ _chem_comp.mon_nstd_flag . _chem_comp.name '2-[3-[(4-azanyl-2-methyl-pyrimidin-5-yl)methyl]-2-[(1~{S})-1-(dioxidanyl)-1-oxidanyl-ethyl]-4-methyl-1,3-thiazol-5-yl]ethyl phosphono hydrogen 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 CAC CBC AUJ sing 70 n n OAH CBC AUJ sing 71 n n OAF PBD AUJ doub 72 n n CBC OBC1 AUJ sing 73 n n CBC CBA AUJ sing 74 n n OAJ PBD AUJ sing 75 n n OC11 OBC1 AUJ sing 76 n n NAD C4 AUJ sing 77 n n PBD OAT AUJ sing 78 n n PBD OAI AUJ sing 79 n n SAU CBA AUJ sing 80 n y SAU CAZ AUJ sing 81 n y OAT PBE AUJ sing 82 n n CBA NBB AUJ doub 83 n y C4 N3 AUJ doub 84 n y C4 C5 AUJ sing 85 n y N3 C2 AUJ sing 86 n y OAG PBE AUJ doub 87 n n CAN OAS AUJ sing 88 n n CAN CAO AUJ sing 89 n n PBE OAS AUJ sing 90 n n PBE OAK AUJ sing 91 n n NBB CAP AUJ sing 92 n n NBB CAX AUJ sing 93 n y CAZ CAO AUJ sing 94 n n CAZ CAX AUJ doub 95 n y CAP C5 AUJ sing 96 n n C5 C6 AUJ doub 97 n y CAX CAB AUJ sing 98 n n C2 CAA AUJ sing 99 n n C2 N1 AUJ doub 100 n y C6 N1 AUJ sing 101 n y CAB H1 AUJ sing 102 n n CAB H2 AUJ sing 103 n n CAB H3 AUJ sing 104 n n OAH H4 AUJ sing 105 n n CAC H5 AUJ sing 106 n n CAC H6 AUJ sing 107 n n CAC H7 AUJ sing 108 n n OAI H8 AUJ sing 109 n n OAK H9 AUJ sing 110 n n CAA H10 AUJ sing 111 n n CAA H11 AUJ sing 112 n n CAA H12 AUJ sing 113 n n CAN H13 AUJ sing 114 n n CAN H14 AUJ sing 115 n n CAO H15 AUJ sing 116 n n CAO H16 AUJ sing 117 n n CAP H17 AUJ sing 118 n n CAP H18 AUJ sing 119 n n NAD H19 AUJ sing 120 n n NAD H20 AUJ sing 121 n n OAJ H21 AUJ sing 122 n n C6 H23 AUJ sing 123 n n OC11 H24 AUJ sing 124 n n # _atom_sites.entry_id 8ET5 _atom_sites.fract_transf_matrix[1][1] 0.005568 _atom_sites.fract_transf_matrix[1][2] 0.003215 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00643 _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] 0.005412 _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 B 2 MG A 1 701 701 MG MG . C 3 FAD A 1 702 702 FAD FAD . D 4 WRQ A 1 703 801 WRQ AS . E 5 NHE A 1 704 1101 NHE NHE . F 6 AUJ A 1 705 1201 AUJ DR2 . G 7 TLA A 1 706 1301 TLA TAR . H 2 MG A 1 707 1 MG MG . I 2 MG A 1 708 2 MG MG . J 8 SO4 A 1 709 1 SO4 SO4 . K 8 SO4 A 1 710 3 SO4 SO4 . L 8 SO4 A 1 711 4 SO4 SO4 . M 8 SO4 A 1 712 5 SO4 SO4 . N 9 HOH A 1 1401 1401 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 CAB AUJ . . . F 6 75.299 -73.291 -22.005 0.9 42.39 ? CAB AUJ 705 A 1 HETATM 2 O OAH AUJ . . . F 6 70.874 -73.59 -18.423 0.59 69.94 ? OAH AUJ 705 A 1 HETATM 3 O OAG AUJ . . . F 6 77.787 -67.241 -19.495 0.9 43.9 ? OAG AUJ 705 A 1 HETATM 4 C CAC AUJ . . . F 6 72.329 -73.95 -16.581 0.96 45.05 ? CAC AUJ 705 A 1 HETATM 5 O OAI AUJ . . . F 6 80.706 -69.307 -17.094 0.9 48.84 ? OAI AUJ 705 A 1 HETATM 6 O OAK AUJ . . . F 6 79.832 -68.249 -19.43 0.9 49.58 ? OAK AUJ 705 A 1 HETATM 7 C CAA AUJ . . . F 6 70.196 -69.582 -24.198 0.9 36.37 ? CAA AUJ 705 A 1 HETATM 8 C CAN AUJ . . . F 6 76.878 -70.533 -19.089 0.9 37.64 ? CAN AUJ 705 A 1 HETATM 9 C CAO AUJ . . . F 6 76.763 -71.852 -19.816 0.9 49.41 ? CAO AUJ 705 A 1 HETATM 10 C CAP AUJ . . . F 6 72.442 -73.984 -21.173 0.9 52.78 ? CAP AUJ 705 A 1 HETATM 11 C CAX AUJ . . . F 6 74.714 -73.078 -20.626 0.9 61.96 ? CAX AUJ 705 A 1 HETATM 12 C CAZ AUJ . . . F 6 75.39 -72.454 -19.635 0.9 51.14 ? CAZ AUJ 705 A 1 HETATM 13 N NAD AUJ . . . F 6 70.834 -71.761 -19.869 0.9 57.13 ? NAD AUJ 705 A 1 HETATM 14 O OAF AUJ . . . F 6 79.642 -68.239 -15.376 0.9 47.33 ? OAF AUJ 705 A 1 HETATM 15 O OAJ AUJ . . . F 6 78.912 -70.603 -15.886 0.9 47.3 ? OAJ AUJ 705 A 1 HETATM 16 O OAS AUJ . . . F 6 77.839 -69.755 -19.755 0.9 48.25 ? OAS AUJ 705 A 1 HETATM 17 O OAT AUJ . . . F 6 78.269 -68.659 -17.458 0.9 54.8 ? OAT AUJ 705 A 1 HETATM 18 S SAU AUJ . . . F 6 74.481 -72.452 -18.119 0.9 57.64 ? SAU AUJ 705 A 1 HETATM 19 C CBA AUJ . . . F 6 73.215 -73.45 -18.838 0.81 72.32 ? CBA AUJ 705 A 1 HETATM 20 C CBC AUJ . . . F 6 72.112 -74.142 -18.065 0.4 59.75 ? CBC AUJ 705 A 1 HETATM 21 N NBB AUJ . . . F 6 73.417 -73.529 -20.243 0.9 55.26 ? NBB AUJ 705 A 1 HETATM 22 P PBD AUJ . . . F 6 79.372 -69.206 -16.464 0.9 42.85 ? PBD AUJ 705 A 1 HETATM 23 P PBE AUJ . . . F 6 78.43 -68.487 -19.023 0.9 46.45 ? PBE AUJ 705 A 1 HETATM 24 N N1 AUJ . . . F 6 71.46 -71.657 -23.998 0.9 38.35 ? N1 AUJ 705 A 1 HETATM 25 C C2 AUJ . . . F 6 70.775 -70.724 -23.391 0.9 47.6 ? C2 AUJ 705 A 1 HETATM 26 N N3 AUJ . . . F 6 70.564 -70.764 -21.986 0.9 42.36 ? N3 AUJ 705 A 1 HETATM 27 C C4 AUJ . . . F 6 71.054 -71.736 -21.269 0.9 37.81 ? C4 AUJ 705 A 1 HETATM 28 C C5 AUJ . . . F 6 71.85 -72.825 -21.95 0.9 50.7 ? C5 AUJ 705 A 1 HETATM 29 C C6 AUJ . . . F 6 72.021 -72.748 -23.283 0.9 43.07 ? C6 AUJ 705 A 1 HETATM 30 O OBC1 AUJ . . . F 6 72.125 -75.516 -18.36 0.37 54.25 ? OBC1 AUJ 705 A 1 HETATM 31 O OC11 AUJ . . . F 6 70.819 -76.183 -18.388 0.9 60.26 ? OC11 AUJ 705 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #