data_5Z9Z # _entry.id 5Z9Z # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.296 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 5Z9Z WWPDB D_1300006734 # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 5Z9Z _pdbx_database_status.recvd_initial_deposition_date 2018-02-05 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Chen, J.' 1 ? 'Liu, L.' 2 ? 'You, C.' 3 ? 'Gu, J.' 4 ? 'Ruan, W.' 5 ? 'Zhang, L.' 6 ? 'Cao, C.' 7 ? 'Gan, J.' 8 ? 'Huang, Y.' 9 ? 'Chen, X.' 10 ? 'Ma, J.' 11 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nat Commun' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2041-1723 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 9 _citation.language ? _citation.page_first 3585 _citation.page_last 3585 _citation.title ;Structural and biochemical insights into small RNA 3' end trimming by Arabidopsis SDN1. ; _citation.year 2018 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1038/s41467-018-05942-7 _citation.pdbx_database_id_PubMed 30181559 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chen, J.' 1 0000-0002-1016-4661 primary 'Liu, L.' 2 ? primary 'You, C.' 3 0000-0002-9935-1892 primary 'Gu, J.' 4 ? primary 'Ruan, W.' 5 ? primary 'Zhang, L.' 6 ? primary 'Gan, J.' 7 ? primary 'Cao, C.' 8 ? primary 'Huang, Y.' 9 0000-0002-2806-2874 primary 'Chen, X.' 10 ? primary 'Ma, J.' 11 0000-0002-0232-1786 # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 5Z9Z _cell.details ? _cell.formula_units_Z ? _cell.length_a 41.132 _cell.length_a_esd ? _cell.length_b 65.620 _cell.length_b_esd ? _cell.length_c 74.730 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 8 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 5Z9Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' _symmetry.pdbx_full_space_group_name_H-M ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man 'Small RNA degrading nuclease 1' 11513.741 1 3.1.-.- E329A,E330A,E332A 'C-terminal RRM domain, UNP residues 309-409' ? 2 non-polymer syn 'CITRATE ANION' 189.100 2 ? ? ? ? 3 water nat water 18.015 74 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code ;GS(MSE)LEVEKAKLFLHKIPNNVPSAALAQVLSGKFTLDVKQAKTQGRYYCAFALFHSSEDADQAFEHIDGIE(MSE)T DSLGLPQKVVIIKLSSGSRASIYVRK(MSE)VQDE ; _entity_poly.pdbx_seq_one_letter_code_can ;GSMLEVEKAKLFLHKIPNNVPSAALAQVLSGKFTLDVKQAKTQGRYYCAFALFHSSEDADQAFEHIDGIEMTDSLGLPQK VVIIKLSSGSRASIYVRKMVQDE ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 GLY n 1 2 SER n 1 3 MSE n 1 4 LEU n 1 5 GLU n 1 6 VAL n 1 7 GLU n 1 8 LYS n 1 9 ALA n 1 10 LYS n 1 11 LEU n 1 12 PHE n 1 13 LEU n 1 14 HIS n 1 15 LYS n 1 16 ILE n 1 17 PRO n 1 18 ASN n 1 19 ASN n 1 20 VAL n 1 21 PRO n 1 22 SER n 1 23 ALA n 1 24 ALA n 1 25 LEU n 1 26 ALA n 1 27 GLN n 1 28 VAL n 1 29 LEU n 1 30 SER n 1 31 GLY n 1 32 LYS n 1 33 PHE n 1 34 THR n 1 35 LEU n 1 36 ASP n 1 37 VAL n 1 38 LYS n 1 39 GLN n 1 40 ALA n 1 41 LYS n 1 42 THR n 1 43 GLN n 1 44 GLY n 1 45 ARG n 1 46 TYR n 1 47 TYR n 1 48 CYS n 1 49 ALA n 1 50 PHE n 1 51 ALA n 1 52 LEU n 1 53 PHE n 1 54 HIS n 1 55 SER n 1 56 SER n 1 57 GLU n 1 58 ASP n 1 59 ALA n 1 60 ASP n 1 61 GLN n 1 62 ALA n 1 63 PHE n 1 64 GLU n 1 65 HIS n 1 66 ILE n 1 67 ASP n 1 68 GLY n 1 69 ILE n 1 70 GLU n 1 71 MSE n 1 72 THR n 1 73 ASP n 1 74 SER n 1 75 LEU n 1 76 GLY n 1 77 LEU n 1 78 PRO n 1 79 GLN n 1 80 LYS n 1 81 VAL n 1 82 VAL n 1 83 ILE n 1 84 ILE n 1 85 LYS n 1 86 LEU n 1 87 SER n 1 88 SER n 1 89 GLY n 1 90 SER n 1 91 ARG n 1 92 ALA n 1 93 SER n 1 94 ILE n 1 95 TYR n 1 96 VAL n 1 97 ARG n 1 98 LYS n 1 99 MSE n 1 100 VAL n 1 101 GLN n 1 102 ASP n 1 103 GLU n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type 'Biological sequence' _entity_src_gen.pdbx_beg_seq_num 1 _entity_src_gen.pdbx_end_seq_num 103 _entity_src_gen.gene_src_common_name 'Mouse-ear cress' _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'SDN1, At3g50100, F3A4.180' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Arabidopsis thaliana' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 3702 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type plasmid _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code SDN1_ARATH _struct_ref.pdbx_db_accession A3KPE8 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MLEVEKAKLFLHKIPNNVPSEELEQVLSGKFTLDVKQAKTQGRYYCAFALFHSSEDADQAFEHIDGIEMTDSLGLPQKVV IIKLSSGSRASIYVRKMVQDE ; _struct_ref.pdbx_align_begin 309 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 5Z9Z _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 3 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 103 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession A3KPE8 _struct_ref_seq.db_align_beg 309 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 409 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 309 _struct_ref_seq.pdbx_auth_seq_align_end 409 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 5Z9Z GLY A 1 ? UNP A3KPE8 ? ? 'expression tag' 307 1 1 5Z9Z SER A 2 ? UNP A3KPE8 ? ? 'expression tag' 308 2 1 5Z9Z ALA A 23 ? UNP A3KPE8 GLU 329 'engineered mutation' 329 3 1 5Z9Z ALA A 24 ? UNP A3KPE8 GLU 330 'engineered mutation' 330 4 1 5Z9Z ALA A 26 ? UNP A3KPE8 GLU 332 'engineered mutation' 332 5 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 FLC non-polymer . 'CITRATE ANION' ? 'C6 H5 O7 -3' 189.100 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 5Z9Z _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 2.17 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 43.37 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 290 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details 'PEG 3350, ammonium citrate' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 80 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? # _diffrn_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'MARMOSAIC 225 mm CCD' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2013-04-11 # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.987 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'SSRF BEAMLINE BL17U1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.987 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL17U1 _diffrn_source.pdbx_synchrotron_site SSRF # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 5Z9Z _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.049 _reflns.d_resolution_low 34.96 _reflns.details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.number_all ? _reflns.number_obs 6556 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 99.56 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 13.7 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 29.4 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 2.05 _reflns_shell.d_res_low 2.12 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs ? _reflns_shell.percent_possible_all ? _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs ? _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half ? _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean ? _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 5Z9Z _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 2.049 _refine.ls_d_res_low 34.851 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 6539 _refine.ls_number_reflns_R_free 649 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.78 _refine.ls_percent_reflns_R_free 9.93 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1807 _refine.ls_R_factor_R_free 0.227 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.178 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.00 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 22.81 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.24 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 780 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 26 _refine_hist.number_atoms_solvent 74 _refine_hist.number_atoms_total 880 _refine_hist.d_res_high 2.049 _refine_hist.d_res_low 34.851 # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.003 ? 817 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 0.579 ? 1101 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 14.420 ? 496 ? f_dihedral_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.044 ? 123 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.002 ? 141 ? f_plane_restr ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 2.0493 2.2075 . . 118 1113 96.00 . . . 0.2633 . 0.1892 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.2075 2.4296 . . 134 1171 100.00 . . . 0.2821 . 0.1887 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.4296 2.7811 . . 133 1169 100.00 . . . 0.2661 . 0.1898 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.7811 3.5033 . . 127 1196 100.00 . . . 0.2236 . 0.1754 . . . . . . . . . . 'X-RAY DIFFRACTION' 3.5033 34.8563 . . 137 1241 99.00 . . . 0.2030 . 0.1616 . . . . . . . . . . # _struct.entry_id 5Z9Z _struct.title 'The C-terminal RRM domain of Arabidopsis SMALL RNA DEGRADING NUCLEASE 1 (E329A/E330A/E332A)' _struct.pdbx_descriptor 'Small RNA degrading nuclease 1 (E.C.3.1.-.-)' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 5Z9Z _struct_keywords.text 'RNA Recognition Motif, RNA BINDING PROTEIN' _struct_keywords.pdbx_keywords 'RNA BINDING PROTEIN' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 2 ? D N N 3 ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 AA1 SER A 2 ? LYS A 8 ? SER A 308 LYS A 314 1 ? 7 HELX_P HELX_P2 AA2 PRO A 21 ? LEU A 29 ? PRO A 327 LEU A 335 5 ? 9 HELX_P HELX_P3 AA3 SER A 55 ? ILE A 66 ? SER A 361 ILE A 372 1 ? 12 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_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_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale1 covale both ? A SER 2 C ? ? ? 1_555 A MSE 3 N ? ? A SER 308 A MSE 309 1_555 ? ? ? ? ? ? ? 1.331 ? covale2 covale both ? A MSE 3 C ? ? ? 1_555 A LEU 4 N ? ? A MSE 309 A LEU 310 1_555 ? ? ? ? ? ? ? 1.335 ? covale3 covale both ? A GLU 70 C ? ? ? 1_555 A MSE 71 N ? ? A GLU 376 A MSE 377 1_555 ? ? ? ? ? ? ? 1.327 ? covale4 covale both ? A MSE 71 C ? ? ? 1_555 A THR 72 N ? ? A MSE 377 A THR 378 1_555 ? ? ? ? ? ? ? 1.331 ? covale5 covale both ? A LYS 98 C ? ? ? 1_555 A MSE 99 N ? ? A LYS 404 A MSE 405 1_555 ? ? ? ? ? ? ? 1.324 ? covale6 covale both ? A MSE 99 C ? ? ? 1_555 A VAL 100 N ? ? A MSE 405 A VAL 406 1_555 ? ? ? ? ? ? ? 1.329 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_sheet.id AA1 _struct_sheet.type ? _struct_sheet.number_strands 6 _struct_sheet.details ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense AA1 1 2 ? anti-parallel AA1 2 3 ? anti-parallel AA1 3 4 ? anti-parallel AA1 4 5 ? anti-parallel AA1 5 6 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id AA1 1 PHE A 33 ? VAL A 37 ? PHE A 339 VAL A 343 AA1 2 TYR A 46 ? PHE A 53 ? TYR A 352 PHE A 359 AA1 3 LYS A 10 ? PRO A 17 ? LYS A 316 PRO A 323 AA1 4 ARG A 91 ? LYS A 98 ? ARG A 397 LYS A 404 AA1 5 PRO A 78 ? LYS A 85 ? PRO A 384 LYS A 391 AA1 6 ILE A 69 ? THR A 72 ? ILE A 375 THR A 378 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id AA1 1 2 N ASP A 36 ? N ASP A 342 O PHE A 50 ? O PHE A 356 AA1 2 3 O ALA A 49 ? O ALA A 355 N LEU A 13 ? N LEU A 319 AA1 3 4 N PHE A 12 ? N PHE A 318 O ARG A 97 ? O ARG A 403 AA1 4 5 O VAL A 96 ? O VAL A 402 N LYS A 80 ? N LYS A 386 AA1 5 6 O GLN A 79 ? O GLN A 385 N MSE A 71 ? N MSE A 377 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A FLC 501 ? 11 'binding site for residue FLC A 501' AC2 Software A FLC 502 ? 9 'binding site for residue FLC A 502' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 11 HIS A 14 ? HIS A 320 . ? 1_555 ? 2 AC1 11 LYS A 15 ? LYS A 321 . ? 1_555 ? 3 AC1 11 LYS A 38 ? LYS A 344 . ? 1_555 ? 4 AC1 11 TYR A 47 ? TYR A 353 . ? 1_555 ? 5 AC1 11 CYS A 48 ? CYS A 354 . ? 1_555 ? 6 AC1 11 ILE A 69 ? ILE A 375 . ? 8_456 ? 7 AC1 11 FLC C . ? FLC A 502 . ? 1_555 ? 8 AC1 11 HOH D . ? HOH A 601 . ? 1_555 ? 9 AC1 11 HOH D . ? HOH A 613 . ? 1_555 ? 10 AC1 11 HOH D . ? HOH A 615 . ? 1_555 ? 11 AC1 11 HOH D . ? HOH A 650 . ? 1_555 ? 12 AC2 9 SER A 2 ? SER A 308 . ? 8_556 ? 13 AC2 9 LEU A 4 ? LEU A 310 . ? 8_556 ? 14 AC2 9 LYS A 15 ? LYS A 321 . ? 1_555 ? 15 AC2 9 LYS A 41 ? LYS A 347 . ? 1_555 ? 16 AC2 9 TYR A 46 ? TYR A 352 . ? 1_555 ? 17 AC2 9 FLC B . ? FLC A 501 . ? 1_555 ? 18 AC2 9 HOH D . ? HOH A 607 . ? 1_555 ? 19 AC2 9 HOH D . ? HOH A 613 . ? 1_555 ? 20 AC2 9 HOH D . ? HOH A 620 . ? 1_555 ? # _atom_sites.entry_id 5Z9Z _atom_sites.fract_transf_matrix[1][1] 0.024312 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.015239 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 0.013382 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C H N O S SE # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 GLY 1 307 ? ? ? A . n A 1 2 SER 2 308 308 SER SER A . n A 1 3 MSE 3 309 309 MSE MSE A . n A 1 4 LEU 4 310 310 LEU LEU A . n A 1 5 GLU 5 311 311 GLU GLU A . n A 1 6 VAL 6 312 312 VAL VAL A . n A 1 7 GLU 7 313 313 GLU GLU A . n A 1 8 LYS 8 314 314 LYS LYS A . n A 1 9 ALA 9 315 315 ALA ALA A . n A 1 10 LYS 10 316 316 LYS LYS A . n A 1 11 LEU 11 317 317 LEU LEU A . n A 1 12 PHE 12 318 318 PHE PHE A . n A 1 13 LEU 13 319 319 LEU LEU A . n A 1 14 HIS 14 320 320 HIS HIS A . n A 1 15 LYS 15 321 321 LYS LYS A . n A 1 16 ILE 16 322 322 ILE ILE A . n A 1 17 PRO 17 323 323 PRO PRO A . n A 1 18 ASN 18 324 324 ASN ASN A . n A 1 19 ASN 19 325 325 ASN ASN A . n A 1 20 VAL 20 326 326 VAL VAL A . n A 1 21 PRO 21 327 327 PRO PRO A . n A 1 22 SER 22 328 328 SER SER A . n A 1 23 ALA 23 329 329 ALA ALA A . n A 1 24 ALA 24 330 330 ALA ALA A . n A 1 25 LEU 25 331 331 LEU LEU A . n A 1 26 ALA 26 332 332 ALA ALA A . n A 1 27 GLN 27 333 333 GLN GLN A . n A 1 28 VAL 28 334 334 VAL VAL A . n A 1 29 LEU 29 335 335 LEU LEU A . n A 1 30 SER 30 336 336 SER SER A . n A 1 31 GLY 31 337 337 GLY GLY A . n A 1 32 LYS 32 338 338 LYS LYS A . n A 1 33 PHE 33 339 339 PHE PHE A . n A 1 34 THR 34 340 340 THR THR A . n A 1 35 LEU 35 341 341 LEU LEU A . n A 1 36 ASP 36 342 342 ASP ASP A . n A 1 37 VAL 37 343 343 VAL VAL A . n A 1 38 LYS 38 344 344 LYS LYS A . n A 1 39 GLN 39 345 345 GLN GLN A . n A 1 40 ALA 40 346 346 ALA ALA A . n A 1 41 LYS 41 347 347 LYS LYS A . n A 1 42 THR 42 348 348 THR THR A . n A 1 43 GLN 43 349 349 GLN GLN A . n A 1 44 GLY 44 350 350 GLY GLY A . n A 1 45 ARG 45 351 351 ARG ARG A . n A 1 46 TYR 46 352 352 TYR TYR A . n A 1 47 TYR 47 353 353 TYR TYR A . n A 1 48 CYS 48 354 354 CYS CYS A . n A 1 49 ALA 49 355 355 ALA ALA A . n A 1 50 PHE 50 356 356 PHE PHE A . n A 1 51 ALA 51 357 357 ALA ALA A . n A 1 52 LEU 52 358 358 LEU LEU A . n A 1 53 PHE 53 359 359 PHE PHE A . n A 1 54 HIS 54 360 360 HIS HIS A . n A 1 55 SER 55 361 361 SER SER A . n A 1 56 SER 56 362 362 SER SER A . n A 1 57 GLU 57 363 363 GLU GLU A . n A 1 58 ASP 58 364 364 ASP ASP A . n A 1 59 ALA 59 365 365 ALA ALA A . n A 1 60 ASP 60 366 366 ASP ASP A . n A 1 61 GLN 61 367 367 GLN GLN A . n A 1 62 ALA 62 368 368 ALA ALA A . n A 1 63 PHE 63 369 369 PHE PHE A . n A 1 64 GLU 64 370 370 GLU GLU A . n A 1 65 HIS 65 371 371 HIS HIS A . n A 1 66 ILE 66 372 372 ILE ILE A . n A 1 67 ASP 67 373 373 ASP ASP A . n A 1 68 GLY 68 374 374 GLY GLY A . n A 1 69 ILE 69 375 375 ILE ILE A . n A 1 70 GLU 70 376 376 GLU GLU A . n A 1 71 MSE 71 377 377 MSE MSE A . n A 1 72 THR 72 378 378 THR THR A . n A 1 73 ASP 73 379 379 ASP ASP A . n A 1 74 SER 74 380 380 SER SER A . n A 1 75 LEU 75 381 381 LEU LEU A . n A 1 76 GLY 76 382 382 GLY GLY A . n A 1 77 LEU 77 383 383 LEU LEU A . n A 1 78 PRO 78 384 384 PRO PRO A . n A 1 79 GLN 79 385 385 GLN GLN A . n A 1 80 LYS 80 386 386 LYS LYS A . n A 1 81 VAL 81 387 387 VAL VAL A . n A 1 82 VAL 82 388 388 VAL VAL A . n A 1 83 ILE 83 389 389 ILE ILE A . n A 1 84 ILE 84 390 390 ILE ILE A . n A 1 85 LYS 85 391 391 LYS LYS A . n A 1 86 LEU 86 392 392 LEU LEU A . n A 1 87 SER 87 393 393 SER SER A . n A 1 88 SER 88 394 394 SER SER A . n A 1 89 GLY 89 395 395 GLY GLY A . n A 1 90 SER 90 396 396 SER SER A . n A 1 91 ARG 91 397 397 ARG ARG A . n A 1 92 ALA 92 398 398 ALA ALA A . n A 1 93 SER 93 399 399 SER SER A . n A 1 94 ILE 94 400 400 ILE ILE A . n A 1 95 TYR 95 401 401 TYR TYR A . n A 1 96 VAL 96 402 402 VAL VAL A . n A 1 97 ARG 97 403 403 ARG ARG A . n A 1 98 LYS 98 404 404 LYS LYS A . n A 1 99 MSE 99 405 405 MSE MSE A . n A 1 100 VAL 100 406 406 VAL VAL A . n A 1 101 GLN 101 407 407 GLN GLN A . n A 1 102 ASP 102 408 408 ASP ASP A . n A 1 103 GLU 103 409 ? ? ? A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_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_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 FLC 1 501 501 FLC FLC A . C 2 FLC 1 502 502 FLC FLC A . D 3 HOH 1 601 601 HOH HOH A . D 3 HOH 2 602 602 HOH HOH A . D 3 HOH 3 603 603 HOH HOH A . D 3 HOH 4 604 604 HOH HOH A . D 3 HOH 5 605 605 HOH HOH A . D 3 HOH 6 606 606 HOH HOH A . D 3 HOH 7 607 607 HOH HOH A . D 3 HOH 8 608 608 HOH HOH A . D 3 HOH 9 609 609 HOH HOH A . D 3 HOH 10 610 610 HOH HOH A . D 3 HOH 11 611 611 HOH HOH A . D 3 HOH 12 612 612 HOH HOH A . D 3 HOH 13 613 613 HOH HOH A . D 3 HOH 14 614 614 HOH HOH A . D 3 HOH 15 615 615 HOH HOH A . D 3 HOH 16 616 616 HOH HOH A . D 3 HOH 17 617 617 HOH HOH A . D 3 HOH 18 618 618 HOH HOH A . D 3 HOH 19 619 619 HOH HOH A . D 3 HOH 20 620 620 HOH HOH A . D 3 HOH 21 621 621 HOH HOH A . D 3 HOH 22 622 622 HOH HOH A . D 3 HOH 23 623 623 HOH HOH A . D 3 HOH 24 624 624 HOH HOH A . D 3 HOH 25 625 625 HOH HOH A . D 3 HOH 26 626 626 HOH HOH A . D 3 HOH 27 627 627 HOH HOH A . D 3 HOH 28 628 628 HOH HOH A . D 3 HOH 29 629 629 HOH HOH A . D 3 HOH 30 630 630 HOH HOH A . D 3 HOH 31 631 631 HOH HOH A . D 3 HOH 32 632 632 HOH HOH A . D 3 HOH 33 633 633 HOH HOH A . D 3 HOH 34 634 634 HOH HOH A . D 3 HOH 35 635 635 HOH HOH A . D 3 HOH 36 636 636 HOH HOH A . D 3 HOH 37 637 637 HOH HOH A . D 3 HOH 38 638 638 HOH HOH A . D 3 HOH 39 639 639 HOH HOH A . D 3 HOH 40 640 640 HOH HOH A . D 3 HOH 41 641 641 HOH HOH A . D 3 HOH 42 642 642 HOH HOH A . D 3 HOH 43 643 643 HOH HOH A . D 3 HOH 44 644 644 HOH HOH A . D 3 HOH 45 645 645 HOH HOH A . D 3 HOH 46 646 646 HOH HOH A . D 3 HOH 47 647 647 HOH HOH A . D 3 HOH 48 648 648 HOH HOH A . D 3 HOH 49 649 649 HOH HOH A . D 3 HOH 50 650 650 HOH HOH A . D 3 HOH 51 651 651 HOH HOH A . D 3 HOH 52 652 652 HOH HOH A . D 3 HOH 53 653 653 HOH HOH A . D 3 HOH 54 654 654 HOH HOH A . D 3 HOH 55 655 655 HOH HOH A . D 3 HOH 56 656 656 HOH HOH A . D 3 HOH 57 657 657 HOH HOH A . D 3 HOH 58 658 658 HOH HOH A . D 3 HOH 59 659 659 HOH HOH A . D 3 HOH 60 660 660 HOH HOH A . D 3 HOH 61 661 661 HOH HOH A . D 3 HOH 62 662 662 HOH HOH A . D 3 HOH 63 663 663 HOH HOH A . D 3 HOH 64 664 664 HOH HOH A . D 3 HOH 65 665 665 HOH HOH A . D 3 HOH 66 666 666 HOH HOH A . D 3 HOH 67 667 667 HOH HOH A . D 3 HOH 68 668 668 HOH HOH A . D 3 HOH 69 669 669 HOH HOH A . D 3 HOH 70 670 670 HOH HOH A . D 3 HOH 71 671 671 HOH HOH A . D 3 HOH 72 672 672 HOH HOH A . D 3 HOH 73 673 673 HOH HOH A . D 3 HOH 74 674 674 HOH HOH A . # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A MSE 3 A MSE 309 ? MET 'modified residue' 2 A MSE 71 A MSE 377 ? MET 'modified residue' 3 A MSE 99 A MSE 405 ? MET 'modified residue' # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 480 ? 1 MORE -0 ? 1 'SSA (A^2)' 6610 ? # _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] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 635 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id D _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2018-06-27 2 'Structure model' 1 1 2018-10-03 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Data collection' 2 2 'Structure model' 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_CSD' 4 2 'Structure model' '_citation.journal_id_ISSN' 5 2 'Structure model' '_citation.journal_volume' 6 2 'Structure model' '_citation.page_first' 7 2 'Structure model' '_citation.page_last' 8 2 'Structure model' '_citation.pdbx_database_id_DOI' 9 2 'Structure model' '_citation.pdbx_database_id_PubMed' 10 2 'Structure model' '_citation.title' 11 2 'Structure model' '_citation.year' 12 2 'Structure model' '_citation_author.identifier_ORCID' 13 2 'Structure model' '_citation_author.name' # loop_ _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][3] 'X-RAY DIFFRACTION' 1 ? refined 10.9220 22.6898 41.3711 0.1016 0.1314 0.1202 0.0432 0.0059 0.0009 0.5540 0.2836 0.7184 0.1587 0.3094 0.4119 0.0815 0.2139 -0.0864 0.0858 -0.1172 0.1860 -0.0574 -0.1151 0.0201 'X-RAY DIFFRACTION' 2 ? refined 19.4567 15.3424 48.8117 0.1110 0.0809 0.0815 -0.0135 0.0109 -0.0076 0.7070 1.4362 1.1595 -0.4596 -0.3247 0.0379 0.0056 -0.1416 -0.0670 0.2025 -0.1328 0.2603 0.0544 -0.0804 -0.0816 'X-RAY DIFFRACTION' 3 ? refined 23.1753 24.6007 37.1337 0.1608 0.2005 0.1797 -0.0091 0.0350 0.0062 0.7778 0.2068 0.9256 -0.3708 0.4342 -0.0857 0.0458 0.3721 0.4051 -0.2209 -0.1563 -0.1080 -0.2716 0.1667 -0.1526 'X-RAY DIFFRACTION' 4 ? refined 25.6175 17.1651 42.2870 0.0948 0.1340 0.1000 0.0128 0.0135 0.0073 1.7092 1.1817 1.2320 -0.1804 0.9421 -0.6811 0.1528 -0.3187 -0.2419 0.0658 0.0521 0.1995 0.0432 -0.1995 0.1627 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 'X-RAY DIFFRACTION' 1 1 ? ? ? ? ? ? ? ? ? ;chain 'A' and (resid 308 through 320 ) ; 'X-RAY DIFFRACTION' 2 2 ? ? ? ? ? ? ? ? ? ;chain 'A' and (resid 321 through 361 ) ; 'X-RAY DIFFRACTION' 3 3 ? ? ? ? ? ? ? ? ? ;chain 'A' and (resid 362 through 383 ) ; 'X-RAY DIFFRACTION' 4 4 ? ? ? ? ? ? ? ? ? ;chain 'A' and (resid 384 through 408 ) ; # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? '(1.10.1_2155: ???)' 1 ? 'data collection' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? 0.98.699a 2 ? 'model building' ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? '(1.10.1_2155: ???)' 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.8.2_1309 4 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? 0.98.699a 5 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? 0.98.699a 6 # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id GLN _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 407 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -118.80 _pdbx_validate_torsion.psi 68.78 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A GLN 349 ? CG ? A GLN 43 CG 2 1 Y 1 A GLN 349 ? CD ? A GLN 43 CD 3 1 Y 1 A GLN 349 ? OE1 ? A GLN 43 OE1 4 1 Y 1 A GLN 349 ? NE2 ? A GLN 43 NE2 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A GLY 307 ? A GLY 1 2 1 Y 1 A GLU 409 ? A GLU 103 # _pdbx_audit_support.funding_organization 'National Natural Science Foundation of China' _pdbx_audit_support.country China _pdbx_audit_support.grant_number 'NSFC 31230041' _pdbx_audit_support.ordinal 1 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CITRATE ANION' FLC 3 water HOH # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'gel filtration' _pdbx_struct_assembly_auth_evidence.details ? #