data_7LNH # _model_server_result.job_id q_1DpBgM8NO5vzSfPWYVOQ _model_server_result.datetime_utc '2024-11-15 23:55:30' _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 7lnh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":502}' # _entry.id 7LNH # _exptl.entry_id 7LNH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 375.397 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2~{S})-2-azanyl-4-[[(2~{S},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl-methyl-$l^{3}-sulfanyl]butanoic acid' _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 120 _cell.entry_id 7LNH _cell.length_a 144.191 _cell.length_b 144.191 _cell.length_c 188.196 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7LNH _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall 'P 6c 2c' _symmetry.space_group_name_H-M 'P 63 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 11_555 -x+y,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 0 94.098 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E N N # _chem_comp.formula 'C14 H21 N3 O7 S' _chem_comp.formula_weight 375.397 _chem_comp.id YQP _chem_comp.mon_nstd_flag . _chem_comp.name '(2~{S})-2-azanyl-4-[[(2~{S},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl-methyl-$l^{3}-sulfanyl]butanoic acid' _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 CAV CAS YQP doub 385 n n CAV CAW YQP sing 386 n n CAS NAR YQP sing 387 n n OAX CAW YQP doub 388 n n OAQ CAN YQP sing 389 n n CAW NAU YQP sing 390 n n NAR CAM YQP sing 391 n n NAR CAT YQP sing 392 n n CAM CAN YQP sing 393 n n CAM OAL YQP sing 394 n n CAN CAO YQP sing 395 n n NAU CAT YQP sing 396 n n OAL CAK YQP sing 397 n n CAT OAY YQP doub 398 n n CAK CAO YQP sing 399 n n CAK CAH YQP sing 400 n n CAO OAP YQP sing 401 n n CE SD YQP doub 402 n n CAH SD YQP sing 403 n n SD CG YQP sing 404 n n CG CB YQP sing 405 n n CB CA YQP sing 406 n n OXT C YQP doub 407 n n N CA YQP sing 408 n n CA C YQP sing 409 n n C O YQP sing 410 n n N H1 YQP sing 411 n n N H2 YQP sing 412 n n CA H4 YQP sing 413 n n O H5 YQP sing 414 n n CB H6 YQP sing 415 n n CB H7 YQP sing 416 n n CG H8 YQP sing 417 n n CG H9 YQP sing 418 n n CE H10 YQP sing 419 n n CE H11 YQP sing 420 n n CAH H13 YQP sing 421 n n CAH H14 YQP sing 422 n n CAK H15 YQP sing 423 n n CAM H16 YQP sing 424 n n CAN H17 YQP sing 425 n n CAO H18 YQP sing 426 n n CAS H19 YQP sing 427 n n CAV H20 YQP sing 428 n n NAU H21 YQP sing 429 n n OAP H22 YQP sing 430 n n OAQ H23 YQP sing 431 n n # _atom_sites.entry_id 7LNH _atom_sites.fract_transf_matrix[1][1] 0.006935 _atom_sites.fract_transf_matrix[1][2] 0.004004 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008008 _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] 0.005314 _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 C 2 YQP A 1 601 601 YQP DRG . D 3 EDO B 1 501 501 EDO EDO . E 2 YQP B 1 502 601 YQP DRG . F 4 HOH A 1 701 30 HOH HOH . F 4 HOH A 2 702 9 HOH HOH . F 4 HOH A 3 703 1 HOH HOH . F 4 HOH A 4 704 7 HOH HOH . F 4 HOH A 5 705 12 HOH HOH . F 4 HOH A 6 706 4 HOH HOH . F 4 HOH A 7 707 10 HOH HOH . G 4 HOH B 1 601 20 HOH HOH . G 4 HOH B 2 602 26 HOH HOH . G 4 HOH B 3 603 28 HOH HOH . G 4 HOH B 4 604 14 HOH HOH . G 4 HOH B 5 605 24 HOH HOH . G 4 HOH B 6 606 8 HOH HOH . G 4 HOH B 7 607 23 HOH HOH . G 4 HOH B 8 608 21 HOH HOH . G 4 HOH B 9 609 31 HOH HOH . G 4 HOH B 10 610 17 HOH HOH . G 4 HOH B 11 611 3 HOH HOH . G 4 HOH B 12 612 27 HOH HOH . G 4 HOH B 13 613 5 HOH HOH . G 4 HOH B 14 614 18 HOH HOH . G 4 HOH B 15 615 32 HOH HOH . G 4 HOH B 16 616 2 HOH HOH . G 4 HOH B 17 617 33 HOH HOH . G 4 HOH B 18 618 6 HOH HOH . G 4 HOH B 19 619 15 HOH HOH . G 4 HOH B 20 620 25 HOH HOH . G 4 HOH B 21 621 29 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 N N YQP . . . E 2 17.366 -38.237 44.509 0.88 114.12 ? N YQP 502 B 1 HETATM 2 C CA YQP . . . E 2 17.661 -37.376 43.38 0.88 117.72 ? CA YQP 502 B 1 HETATM 3 C C YQP . . . E 2 17.553 -35.926 43.813 0.88 111.72 ? C YQP 502 B 1 HETATM 4 O O YQP . . . E 2 18.599 -35.266 44.039 0.88 117.01 ? O YQP 502 B 1 HETATM 5 C CB YQP . . . E 2 19.106 -37.644 42.89 0.88 112.77 ? CB YQP 502 B 1 HETATM 6 C CG YQP . . . E 2 19.378 -39.193 42.985 0.88 116.97 ? CG YQP 502 B 1 HETATM 7 S SD YQP . . . E 2 20.844 -39.503 44.013 0.88 116.03 ? SD YQP 502 B 1 HETATM 8 C CE YQP . . . E 2 21.929 -38.081 43.898 0.88 108.85 ? CE YQP 502 B 1 HETATM 9 O OXT YQP . . . E 2 16.429 -35.393 43.944 0.88 99.28 ? OXT YQP 502 B 1 HETATM 10 C CAH YQP . . . E 2 21.658 -41.028 43.372 0.88 102.81 ? CAH YQP 502 B 1 HETATM 11 C CAK YQP . . . E 2 22.645 -41.585 44.335 0.88 108.73 ? CAK YQP 502 B 1 HETATM 12 C CAM YQP . . . E 2 23.979 -41.096 46.211 0.88 99.48 ? CAM YQP 502 B 1 HETATM 13 C CAN YQP . . . E 2 22.956 -42.087 46.577 0.88 97.1 ? CAN YQP 502 B 1 HETATM 14 C CAO YQP . . . E 2 21.982 -42.117 45.534 0.88 99.38 ? CAO YQP 502 B 1 HETATM 15 C CAS YQP . . . E 2 25.499 -39.586 47.309 0.88 98.15 ? CAS YQP 502 B 1 HETATM 16 C CAT YQP . . . E 2 23.139 -39.452 47.901 0.88 100.77 ? CAT YQP 502 B 1 HETATM 17 C CAV YQP . . . E 2 25.802 -38.55 48.21 0.88 99.44 ? CAV YQP 502 B 1 HETATM 18 C CAW YQP . . . E 2 24.748 -37.947 48.978 0.88 102.79 ? CAW YQP 502 B 1 HETATM 19 N NAR YQP . . . E 2 24.172 -40.052 47.148 0.88 98.32 ? NAR YQP 502 B 1 HETATM 20 N NAU YQP . . . E 2 23.464 -38.381 48.829 0.88 104.8 ? NAU YQP 502 B 1 HETATM 21 O OAL YQP . . . E 2 23.639 -40.491 44.801 0.88 114.6 ? OAL YQP 502 B 1 HETATM 22 O OAP YQP . . . E 2 21.55 -43.506 45.288 0.88 93.37 ? OAP YQP 502 B 1 HETATM 23 O OAQ YQP . . . E 2 23.593 -43.429 46.673 0.88 95.67 ? OAQ YQP 502 B 1 HETATM 24 O OAX YQP . . . E 2 25.043 -36.91 49.883 0.88 104.66 ? OAX YQP 502 B 1 HETATM 25 O OAY YQP . . . E 2 21.796 -39.848 47.797 0.88 100.03 ? OAY YQP 502 B 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 25 #