data_7DE9 # _entry.id 7DE9 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.343 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 7DE9 WWPDB D_1300018034 # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 7DE9 _pdbx_database_status.recvd_initial_deposition_date 2020-11-03 _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.status_code_nmr_data ? _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 'Song, Z.' 1 ? 'Du, J.' 2 ? # _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 12 _citation.language ? _citation.page_first 3367 _citation.page_last 3367 _citation.title ;A histone H3K4me1-specific binding protein is required for siRNA accumulation and DNA methylation at a subset of loci targeted by RNA-directed DNA methylation. ; _citation.year 2021 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1038/s41467-021-23637-4 _citation.pdbx_database_id_PubMed 34099688 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Niu, Q.' 1 0000-0001-6498-5265 primary 'Song, Z.' 2 0000-0002-3823-0261 primary 'Tang, K.' 3 0000-0003-3913-6426 primary 'Chen, L.' 4 ? primary 'Wang, L.' 5 ? primary 'Ban, T.' 6 ? primary 'Guo, Z.' 7 ? primary 'Kim, C.' 8 0000-0003-4133-9070 primary 'Zhang, H.' 9 ? primary 'Duan, C.G.' 10 0000-0003-0527-5866 primary 'Zhang, H.' 11 0000-0003-0695-3593 primary 'Zhu, J.K.' 12 0000-0001-5134-731X primary 'Du, J.' 13 0000-0002-1337-0786 primary 'Lang, Z.' 14 0000-0002-0269-8663 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 90.000 _cell.angle_gamma_esd ? _cell.entry_id 7DE9 _cell.details ? _cell.formula_units_Z ? _cell.length_a 28.579 _cell.length_a_esd ? _cell.length_b 36.963 _cell.length_b_esd ? _cell.length_c 46.678 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 4 _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 7DE9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 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 'Transcriptional regulator' 7590.374 1 ? ? ? ? 2 polymer syn 'Histone H3.2' 1578.816 1 ? ? ? ? 3 water nat water 18.015 25 ? ? ? ? # _entity_name_com.entity_id 2 _entity_name_com.name 'Histone H3.1' # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 'polypeptide(L)' no yes 'SLGQGKASGESLVGSRIKVWWP(MSE)DQAYYKGVVESYDAAKKKHLVIYDDGDQEILYLKNQKWSPLDE' SLGQGKASGESLVGSRIKVWWPMDQAYYKGVVESYDAAKKKHLVIYDDGDQEILYLKNQKWSPLDE A ? 2 'polypeptide(L)' no yes 'ART(MLZ)QTARKSTGGKA' ARTKQTARKSTGGKA P ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 SER n 1 2 LEU n 1 3 GLY n 1 4 GLN n 1 5 GLY n 1 6 LYS n 1 7 ALA n 1 8 SER n 1 9 GLY n 1 10 GLU n 1 11 SER n 1 12 LEU n 1 13 VAL n 1 14 GLY n 1 15 SER n 1 16 ARG n 1 17 ILE n 1 18 LYS n 1 19 VAL n 1 20 TRP n 1 21 TRP n 1 22 PRO n 1 23 MSE n 1 24 ASP n 1 25 GLN n 1 26 ALA n 1 27 TYR n 1 28 TYR n 1 29 LYS n 1 30 GLY n 1 31 VAL n 1 32 VAL n 1 33 GLU n 1 34 SER n 1 35 TYR n 1 36 ASP n 1 37 ALA n 1 38 ALA n 1 39 LYS n 1 40 LYS n 1 41 LYS n 1 42 HIS n 1 43 LEU n 1 44 VAL n 1 45 ILE n 1 46 TYR n 1 47 ASP n 1 48 ASP n 1 49 GLY n 1 50 ASP n 1 51 GLN n 1 52 GLU n 1 53 ILE n 1 54 LEU n 1 55 TYR n 1 56 LEU n 1 57 LYS n 1 58 ASN n 1 59 GLN n 1 60 LYS n 1 61 TRP n 1 62 SER n 1 63 PRO n 1 64 LEU n 1 65 ASP n 1 66 GLU n 2 1 ALA n 2 2 ARG n 2 3 THR n 2 4 MLZ n 2 5 GLN n 2 6 THR n 2 7 ALA n 2 8 ARG n 2 9 LYS n 2 10 SER n 2 11 THR n 2 12 GLY n 2 13 GLY n 2 14 LYS n 2 15 ALA 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 66 _entity_src_gen.gene_src_common_name 'Mouse-ear cress' _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'At4g31880, F11C18.80, F11C18_80' _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 BL21(DE3)' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 469008 _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 pET-Sumo _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _pdbx_entity_src_syn.entity_id 2 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 15 _pdbx_entity_src_syn.organism_scientific 'Arabidopsis thaliana' _pdbx_entity_src_syn.organism_common_name 'Mouse-ear cress' _pdbx_entity_src_syn.ncbi_taxonomy_id 3702 _pdbx_entity_src_syn.details ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 UNP Q8GUP3_ARATH Q8GUP3 ? 1 SLGQGKASGESLVGSRIKVWWPMDQAYYKGVVESYDAAKKKHLVIYDDGDQEILYLKNQKWSPLDE 597 2 UNP H32_ARATH P59226 ? 2 ARTKQTARKSTGGKA 2 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 7DE9 A 1 ? 66 ? Q8GUP3 597 ? 662 ? 596 661 2 2 7DE9 P 1 ? 15 ? P59226 2 ? 16 ? 1 15 # 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 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 MLZ 'L-peptide linking' n N-METHYL-LYSINE ? 'C7 H16 N2 O2' 160.214 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 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 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 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 7DE9 _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 1.34 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 8.51 _exptl_crystal.description 'THE ENTRY CONTAINS FRIEDEL PAIRS IN I/F_PLUS/MINUS COLUMNS.' _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, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 8.5 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '0.1 M Tris-HCl, pH 8.5, and 20% PEG 1000' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _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.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'ADSC QUANTUM 315r' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2016-03-26 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator 'double crystal' _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 0.9792 _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 0.9792 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL17U1 _diffrn_source.pdbx_synchrotron_site SSRF # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 7DE9 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.700 _reflns.d_resolution_low 50.000 _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 5630 _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 99.900 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 8.700 _reflns.pdbx_Rmerge_I_obs 0.099 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 5.900 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 1.245 _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 0.106 _reflns.pdbx_Rpim_I_all 0.036 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _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 _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_CC_half _reflns_shell.pdbx_CC_star _reflns_shell.pdbx_R_split 1.700 1.760 ? ? ? ? ? ? 545 99.800 ? ? ? ? 0.500 ? ? ? ? ? ? ? ? 9.000 ? 0.612 ? ? 0.533 0.182 ? 1 1 0.841 ? ? 1.760 1.830 ? ? ? ? ? ? 537 100.000 ? ? ? ? 0.402 ? ? ? ? ? ? ? ? 8.800 ? 0.696 ? ? 0.429 0.146 ? 2 1 0.933 ? ? 1.830 1.910 ? ? ? ? ? ? 561 99.800 ? ? ? ? 0.293 ? ? ? ? ? ? ? ? 8.600 ? 0.802 ? ? 0.314 0.109 ? 3 1 0.940 ? ? 1.910 2.020 ? ? ? ? ? ? 549 99.600 ? ? ? ? 0.248 ? ? ? ? ? ? ? ? 8.100 ? 1.007 ? ? 0.266 0.094 ? 4 1 0.950 ? ? 2.020 2.140 ? ? ? ? ? ? 548 100.000 ? ? ? ? 0.199 ? ? ? ? ? ? ? ? 9.300 ? 1.157 ? ? 0.213 0.072 ? 5 1 0.967 ? ? 2.140 2.310 ? ? ? ? ? ? 556 99.800 ? ? ? ? 0.158 ? ? ? ? ? ? ? ? 9.100 ? 1.322 ? ? 0.168 0.056 ? 6 1 0.984 ? ? 2.310 2.540 ? ? ? ? ? ? 559 100.000 ? ? ? ? 0.140 ? ? ? ? ? ? ? ? 8.900 ? 1.404 ? ? 0.150 0.050 ? 7 1 0.982 ? ? 2.540 2.910 ? ? ? ? ? ? 565 99.800 ? ? ? ? 0.113 ? ? ? ? ? ? ? ? 8.100 ? 1.618 ? ? 0.121 0.043 ? 8 1 0.989 ? ? 2.910 3.660 ? ? ? ? ? ? 581 100.000 ? ? ? ? 0.087 ? ? ? ? ? ? ? ? 9.100 ? 1.857 ? ? 0.092 0.030 ? 9 1 0.993 ? ? 3.660 50.000 ? ? ? ? ? ? 629 99.800 ? ? ? ? 0.069 ? ? ? ? ? ? ? ? 8.100 ? 1.888 ? ? 0.074 0.026 ? 10 1 0.992 ? ? # _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 91.100 _refine.B_iso_mean 32.7157 _refine.B_iso_min 17.850 _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 7DE9 _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 1.7110 _refine.ls_d_res_low 28.9780 _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 5595 _refine.ls_number_reflns_R_free 464 _refine.ls_number_reflns_R_work 9672 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.4400 _refine.ls_percent_reflns_R_free 4.5800 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1843 _refine.ls_R_factor_R_free 0.2022 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1834 _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 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _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 0.310 _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 THROUGHOUT _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ML _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 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _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 25.8600 _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 0.1200 _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 final _refine_hist.details ? _refine_hist.d_res_high 1.7110 _refine_hist.d_res_low 28.9780 _refine_hist.number_atoms_solvent 25 _refine_hist.number_atoms_total 542 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total 63 _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent 37.86 _refine_hist.pdbx_number_atoms_protein 517 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # 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' ? 0.005 ? 529 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 0.954 ? 712 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.034 ? 73 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.004 ? 87 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 16.912 ? 195 ? f_dihedral_angle_d ? ? # 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_R_complete _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' 1.7112 1.9588 . . 147 3127 96.0000 . . . 0.2864 0.0000 0.2187 . . . . . . . . . . . 'X-RAY DIFFRACTION' 1.9588 2.4676 . . 168 3265 100.0000 . . . 0.2312 0.0000 0.2004 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.4676 28 . . 149 3280 100.0000 . . . 0.1725 0.0000 0.1703 . . . . . . . . . . . # _struct.entry_id 7DE9 _struct.title 'crystal structure of Arabidopsis RDM15 tudor domain in complex with an H3K4me1 peptide' _struct.pdbx_descriptor 'Transcriptional regulator, Histone H3.2' _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 7DE9 _struct_keywords.text 'tudor domain, histone, epigenetics, DNA methylation, GENE REGULATION' _struct_keywords.pdbx_keywords 'GENE REGULATION' # 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 3 ? 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 GLY A 9 ? VAL A 13 ? GLY A 604 VAL A 608 5 ? 5 HELX_P HELX_P2 AA2 TYR A 55 ? GLN A 59 ? TYR A 650 GLN A 654 5 ? 5 # _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 _struct_conn.pdbx_role covale1 covale both ? A PRO 22 C ? ? ? 1_555 A MSE 23 N ? ? A PRO 617 A MSE 618 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale2 covale both ? A MSE 23 C ? ? ? 1_555 A ASP 24 N ? ? A MSE 618 A ASP 619 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale3 covale both ? B THR 3 C ? ? ? 1_555 B MLZ 4 N ? ? P THR 3 P MLZ 4 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale4 covale both ? B MLZ 4 C ? ? ? 1_555 B GLN 5 N ? ? P MLZ 4 P GLN 5 1_555 ? ? ? ? ? ? ? 1.326 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_sheet.id AA1 _struct_sheet.type ? _struct_sheet.number_strands 5 _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 # 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 GLN A 51 ? LEU A 54 ? GLN A 646 LEU A 649 AA1 2 LYS A 41 ? TYR A 46 ? LYS A 636 TYR A 641 AA1 3 ALA A 26 ? ASP A 36 ? ALA A 621 ASP A 631 AA1 4 ARG A 16 ? TRP A 21 ? ARG A 611 TRP A 616 AA1 5 TRP A 61 ? PRO A 63 ? TRP A 656 PRO A 658 # 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 O GLU A 52 ? O GLU A 647 N VAL A 44 ? N VAL A 639 AA1 2 3 O LYS A 41 ? O LYS A 636 N ASP A 36 ? N ASP A 631 AA1 3 4 O ALA A 26 ? O ALA A 621 N TRP A 21 ? N TRP A 616 AA1 4 5 N LYS A 18 ? N LYS A 613 O SER A 62 ? O SER A 657 # _atom_sites.entry_id 7DE9 _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.fract_transf_matrix[1][1] 0.034991 _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] 0.027054 _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] 0.021423 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C N O 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 SER 1 596 ? ? ? A . n A 1 2 LEU 2 597 ? ? ? A . n A 1 3 GLY 3 598 ? ? ? A . n A 1 4 GLN 4 599 ? ? ? A . n A 1 5 GLY 5 600 ? ? ? A . n A 1 6 LYS 6 601 ? ? ? A . n A 1 7 ALA 7 602 602 ALA ALA A . n A 1 8 SER 8 603 603 SER SER A . n A 1 9 GLY 9 604 604 GLY GLY A . n A 1 10 GLU 10 605 605 GLU GLU A . n A 1 11 SER 11 606 606 SER SER A . n A 1 12 LEU 12 607 607 LEU LEU A . n A 1 13 VAL 13 608 608 VAL VAL A . n A 1 14 GLY 14 609 609 GLY GLY A . n A 1 15 SER 15 610 610 SER SER A . n A 1 16 ARG 16 611 611 ARG ARG A . n A 1 17 ILE 17 612 612 ILE ILE A . n A 1 18 LYS 18 613 613 LYS LYS A . n A 1 19 VAL 19 614 614 VAL VAL A . n A 1 20 TRP 20 615 615 TRP TRP A . n A 1 21 TRP 21 616 616 TRP TRP A . n A 1 22 PRO 22 617 617 PRO PRO A . n A 1 23 MSE 23 618 618 MSE MSE A . n A 1 24 ASP 24 619 619 ASP ASP A . n A 1 25 GLN 25 620 620 GLN GLN A . n A 1 26 ALA 26 621 621 ALA ALA A . n A 1 27 TYR 27 622 622 TYR TYR A . n A 1 28 TYR 28 623 623 TYR TYR A . n A 1 29 LYS 29 624 624 LYS LYS A . n A 1 30 GLY 30 625 625 GLY GLY A . n A 1 31 VAL 31 626 626 VAL VAL A . n A 1 32 VAL 32 627 627 VAL VAL A . n A 1 33 GLU 33 628 628 GLU GLU A . n A 1 34 SER 34 629 629 SER SER A . n A 1 35 TYR 35 630 630 TYR TYR A . n A 1 36 ASP 36 631 631 ASP ASP A . n A 1 37 ALA 37 632 632 ALA ALA A . n A 1 38 ALA 38 633 633 ALA ALA A . n A 1 39 LYS 39 634 634 LYS LYS A . n A 1 40 LYS 40 635 635 LYS LYS A . n A 1 41 LYS 41 636 636 LYS LYS A . n A 1 42 HIS 42 637 637 HIS HIS A . n A 1 43 LEU 43 638 638 LEU LEU A . n A 1 44 VAL 44 639 639 VAL VAL A . n A 1 45 ILE 45 640 640 ILE ILE A . n A 1 46 TYR 46 641 641 TYR TYR A . n A 1 47 ASP 47 642 642 ASP ASP A . n A 1 48 ASP 48 643 643 ASP ASP A . n A 1 49 GLY 49 644 644 GLY GLY A . n A 1 50 ASP 50 645 645 ASP ASP A . n A 1 51 GLN 51 646 646 GLN GLN A . n A 1 52 GLU 52 647 647 GLU GLU A . n A 1 53 ILE 53 648 648 ILE ILE A . n A 1 54 LEU 54 649 649 LEU LEU A . n A 1 55 TYR 55 650 650 TYR TYR A . n A 1 56 LEU 56 651 651 LEU LEU A . n A 1 57 LYS 57 652 652 LYS LYS A . n A 1 58 ASN 58 653 653 ASN ASN A . n A 1 59 GLN 59 654 654 GLN GLN A . n A 1 60 LYS 60 655 655 LYS LYS A . n A 1 61 TRP 61 656 656 TRP TRP A . n A 1 62 SER 62 657 657 SER SER A . n A 1 63 PRO 63 658 658 PRO PRO A . n A 1 64 LEU 64 659 659 LEU LEU A . n A 1 65 ASP 65 660 ? ? ? A . n A 1 66 GLU 66 661 ? ? ? A . n B 2 1 ALA 1 1 1 ALA ALA P . n B 2 2 ARG 2 2 2 ARG ARG P . n B 2 3 THR 3 3 3 THR THR P . n B 2 4 MLZ 4 4 4 MLZ MLZ P . n B 2 5 GLN 5 5 5 GLN GLN P . n B 2 6 THR 6 6 ? ? ? P . n B 2 7 ALA 7 7 ? ? ? P . n B 2 8 ARG 8 8 ? ? ? P . n B 2 9 LYS 9 9 ? ? ? P . n B 2 10 SER 10 10 ? ? ? P . n B 2 11 THR 11 11 ? ? ? P . n B 2 12 GLY 12 12 ? ? ? P . n B 2 13 GLY 13 13 ? ? ? P . n B 2 14 LYS 14 14 ? ? ? P . n B 2 15 ALA 15 15 ? ? ? P . 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 C 3 HOH 1 701 13 HOH HOH A . C 3 HOH 2 702 14 HOH HOH A . C 3 HOH 3 703 9 HOH HOH A . C 3 HOH 4 704 11 HOH HOH A . C 3 HOH 5 705 4 HOH HOH A . C 3 HOH 6 706 18 HOH HOH A . C 3 HOH 7 707 1 HOH HOH A . C 3 HOH 8 708 17 HOH HOH A . C 3 HOH 9 709 7 HOH HOH A . C 3 HOH 10 710 3 HOH HOH A . C 3 HOH 11 711 16 HOH HOH A . C 3 HOH 12 712 8 HOH HOH A . C 3 HOH 13 713 6 HOH HOH A . C 3 HOH 14 714 10 HOH HOH A . C 3 HOH 15 715 12 HOH HOH A . C 3 HOH 16 716 23 HOH HOH A . C 3 HOH 17 717 25 HOH HOH A . C 3 HOH 18 718 20 HOH HOH A . C 3 HOH 19 719 24 HOH HOH A . C 3 HOH 20 720 19 HOH HOH A . C 3 HOH 21 721 22 HOH HOH A . C 3 HOH 22 722 21 HOH HOH A . C 3 HOH 23 723 5 HOH HOH A . D 3 HOH 1 101 2 HOH HOH P . D 3 HOH 2 102 15 HOH HOH P . # 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 23 A MSE 618 ? MET 'modified residue' 2 B MLZ 4 P MLZ 4 ? LYS '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 dimeric _pdbx_struct_assembly.oligomeric_count 2 # _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)' 710 ? 1 MORE -3 ? 1 'SSA (A^2)' 4270 ? # _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 # 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 2021-04-07 2 'Structure model' 1 1 2021-06-23 # _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 ? _pdbx_audit_revision_details.details ? # _pdbx_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group '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.journal_volume' 2 2 'Structure model' '_citation.page_first' 3 2 'Structure model' '_citation.page_last' 4 2 'Structure model' '_citation.pdbx_database_id_DOI' 5 2 'Structure model' '_citation.pdbx_database_id_PubMed' 6 2 'Structure model' '_citation.title' # loop_ _pdbx_refine_tls.id _pdbx_refine_tls.pdbx_refine_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[1][1]_esd _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][2]_esd _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[1][3]_esd _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[2][2]_esd _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.T[2][3]_esd _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[3][3]_esd _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[1][1]_esd _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][2]_esd _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[1][3]_esd _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[2][2]_esd _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.L[2][3]_esd _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[3][3]_esd _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][1]_esd _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][2]_esd _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[1][3]_esd _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][1]_esd _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][2]_esd _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[2][3]_esd _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][1]_esd _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][2]_esd _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.S[3][3]_esd 1 'X-RAY DIFFRACTION' ? refined 8.4812 18.9074 19.4705 0.1692 ? 0.0158 ? -0.0299 ? 0.1486 ? -0.0277 ? 0.1646 ? 3.3968 ? 2.1109 ? -1.8795 ? 5.9165 ? -2.8686 ? 3.5993 ? 0.0812 ? 0.1649 ? 0.2116 ? -0.0040 ? 0.0567 ? 0.3852 ? -0.3263 ? -0.0885 ? -0.1184 ? 2 'X-RAY DIFFRACTION' ? refined 12.8999 20.8277 19.4693 0.1813 ? 0.0225 ? -0.0223 ? 0.1278 ? 0.0342 ? 0.1860 ? 5.4885 ? 1.4475 ? -4.0539 ? 3.4162 ? -0.7571 ? 8.4656 ? 0.1441 ? -0.0317 ? -0.2091 ? -0.2587 ? -0.2267 ? 0.0117 ? -0.4274 ? 0.3195 ? 0.0952 ? 3 'X-RAY DIFFRACTION' ? refined 16.6333 17.5700 18.3357 0.1629 ? -0.0186 ? -0.0060 ? 0.1776 ? 0.0192 ? 0.1963 ? 4.4384 ? 0.2359 ? -0.6286 ? 3.5630 ? 0.1562 ? 2.1163 ? 0.0156 ? -0.1150 ? -0.1223 ? 0.0150 ? -0.1281 ? -0.2122 ? 0.1052 ? 0.2352 ? 0.0900 ? 4 'X-RAY DIFFRACTION' ? refined 6.7585 16.6982 14.0415 0.3489 ? 0.0389 ? -0.0330 ? 0.3935 ? -0.0110 ? 0.3769 ? 2.3213 ? -2.4505 ? -3.8091 ? 5.5847 ? 1.5703 ? 8.2832 ? -0.0094 ? 0.6962 ? 0.0608 ? 0.4023 ? -0.1941 ? 0.6154 ? -0.3736 ? -0.9269 ? -0.1170 ? 5 'X-RAY DIFFRACTION' ? refined 10.8831 8.6449 28.1637 0.2316 ? -0.0107 ? 0.0092 ? 0.2481 ? 0.0872 ? 0.3096 ? 3.6219 ? 0.2803 ? -0.3351 ? 9.2865 ? 1.5263 ? 5.7958 ? 0.0154 ? -0.4586 ? -0.3542 ? 0.7519 ? -0.1705 ? 0.0680 ? 0.5168 ? -0.0386 ? 0.0325 ? # loop_ _pdbx_refine_tls_group.id _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_PDB_ins_code _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_PDB_ins_code _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 1 'X-RAY DIFFRACTION' 1 ? ? A 602 ? ? ? A 620 ? ? ;chain 'A' and (resid 602 through 620 ) ; 2 'X-RAY DIFFRACTION' 2 ? ? A 621 ? ? ? A 631 ? ? ;chain 'A' and (resid 621 through 631 ) ; 3 'X-RAY DIFFRACTION' 3 ? ? A 632 ? ? ? A 649 ? ? ;chain 'A' and (resid 632 through 649 ) ; 4 'X-RAY DIFFRACTION' 4 ? ? A 650 ? ? ? A 658 ? ? ;chain 'A' and (resid 650 through 658 ) ; 5 'X-RAY DIFFRACTION' 5 ? ? P 1 ? ? ? P 5 ? ? ;chain 'P' and (resid 1 through 5 ) ; # 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 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.9_1692 2 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.25 3 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? . 5 # _pdbx_entry_details.entry_id 7DE9 _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 SER A 603 ? ? -113.52 -156.35 2 1 PRO A 658 ? ? -67.70 -173.76 # 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 SER 596 ? A SER 1 2 1 Y 1 A LEU 597 ? A LEU 2 3 1 Y 1 A GLY 598 ? A GLY 3 4 1 Y 1 A GLN 599 ? A GLN 4 5 1 Y 1 A GLY 600 ? A GLY 5 6 1 Y 1 A LYS 601 ? A LYS 6 7 1 Y 1 A ASP 660 ? A ASP 65 8 1 Y 1 A GLU 661 ? A GLU 66 9 1 Y 1 P THR 6 ? B THR 6 10 1 Y 1 P ALA 7 ? B ALA 7 11 1 Y 1 P ARG 8 ? B ARG 8 12 1 Y 1 P LYS 9 ? B LYS 9 13 1 Y 1 P SER 10 ? B SER 10 14 1 Y 1 P THR 11 ? B THR 11 15 1 Y 1 P GLY 12 ? B GLY 12 16 1 Y 1 P GLY 13 ? B GLY 13 17 1 Y 1 P LYS 14 ? B LYS 14 18 1 Y 1 P ALA 15 ? B ALA 15 # loop_ _pdbx_entity_instance_feature.ordinal _pdbx_entity_instance_feature.comp_id _pdbx_entity_instance_feature.asym_id _pdbx_entity_instance_feature.seq_num _pdbx_entity_instance_feature.auth_comp_id _pdbx_entity_instance_feature.auth_asym_id _pdbx_entity_instance_feature.auth_seq_num _pdbx_entity_instance_feature.feature_type _pdbx_entity_instance_feature.details 1 MLZ ? ? MLZ ? ? 'SUBJECT OF INVESTIGATION' ? 2 MSE ? ? MSE ? ? 'SUBJECT OF INVESTIGATION' ? # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'isothermal titration calorimetry' _pdbx_struct_assembly_auth_evidence.details ? #