data_6D07 # _entry.id 6D07 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.321 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 6D07 WWPDB D_1000233794 # _pdbx_database_related.content_type unspecified _pdbx_database_related.db_id 6D08 _pdbx_database_related.db_name PDB _pdbx_database_related.details . # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6D07 _pdbx_database_status.recvd_initial_deposition_date 2018-04-10 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _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 'Arora, S.' 1 ? 'Horne, W.S.' 2 ? 'Islam, K.' 3 ? # _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 US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev J.Am.Chem.Soc. _citation.journal_id_ASTM JACSAT _citation.journal_id_CSD ? _citation.journal_id_ISSN 1520-5126 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 141 _citation.language ? _citation.page_first 15466 _citation.page_last 15470 _citation.title 'Engineering Methyllysine Writers and Readers for Allele-Specific Regulation of Protein-Protein Interactions.' _citation.year 2019 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/jacs.9b05725 _citation.pdbx_database_id_PubMed 31518125 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Arora, S.' 1 ? primary 'Horne, W.S.' 2 0000-0003-2927-1739 primary 'Islam, K.' 3 0000-0002-8680-6130 # _cell.entry_id 6D07 _cell.length_a 32.016 _cell.length_b 32.124 _cell.length_c 34.053 _cell.angle_alpha 99.05 _cell.angle_beta 106.20 _cell.angle_gamma 102.42 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6D07 _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # 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 'Chromobox protein homolog 1' 6496.267 2 ? ? 'UNP residues 20-73' ? 2 polymer syn 'Histone H3.1' 1605.885 2 ? ? 'H3K9(me)3 peptide (UNP residues 2-16)' ? 3 non-polymer syn GLYCEROL 92.094 1 ? ? ? ? 4 water nat water 18.015 100 ? ? ? ? # loop_ _entity_name_com.entity_id _entity_name_com.name 1 'HP1Hsbeta, Heterochromatin protein 1 homolog beta, HP1 beta, Heterochromatin protein p25, M31, Modifier 1 protein, p25beta' 2 ;Histone H3/a, Histone H3/b, Histone H3/c, Histone H3/d, Histone H3/f, Histone H3/h, Histone H3/i, Histone H3/j, Histone H3/k, Histone H3/l ; # 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 no GEYVVEKVLDRRVVKGKVEYLLKWKGFSDEDNTWEPEENLDCPDLIAEFLQSQKT GEYVVEKVLDRRVVKGKVEYLLKWKGFSDEDNTWEPEENLDCPDLIAEFLQSQKT A,B ? 2 'polypeptide(L)' no yes 'ARTKQTAR(M3L)STGGKA(NH2)' ARTKQTARKSTGGKAX C,D ? # 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 GLU n 1 3 TYR n 1 4 VAL n 1 5 VAL n 1 6 GLU n 1 7 LYS n 1 8 VAL n 1 9 LEU n 1 10 ASP n 1 11 ARG n 1 12 ARG n 1 13 VAL n 1 14 VAL n 1 15 LYS n 1 16 GLY n 1 17 LYS n 1 18 VAL n 1 19 GLU n 1 20 TYR n 1 21 LEU n 1 22 LEU n 1 23 LYS n 1 24 TRP n 1 25 LYS n 1 26 GLY n 1 27 PHE n 1 28 SER n 1 29 ASP n 1 30 GLU n 1 31 ASP n 1 32 ASN n 1 33 THR n 1 34 TRP n 1 35 GLU n 1 36 PRO n 1 37 GLU n 1 38 GLU n 1 39 ASN n 1 40 LEU n 1 41 ASP n 1 42 CYS n 1 43 PRO n 1 44 ASP n 1 45 LEU n 1 46 ILE n 1 47 ALA n 1 48 GLU n 1 49 PHE n 1 50 LEU n 1 51 GLN n 1 52 SER n 1 53 GLN n 1 54 LYS n 1 55 THR n 2 1 ALA n 2 2 ARG n 2 3 THR n 2 4 LYS n 2 5 GLN n 2 6 THR n 2 7 ALA n 2 8 ARG n 2 9 M3L 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 2 16 NH2 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 55 _entity_src_gen.gene_src_common_name Human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'CBX1, CBX' _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 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _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 ? _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 ? # _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 16 _pdbx_entity_src_syn.organism_scientific 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name Human _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _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 CBX1_HUMAN P83916 ? 1 EYVVEKVLDRRVVKGKVEYLLKWKGFSDEDNTWEPEENLDCPDLIAEFLQSQKT 20 2 UNP H31_HUMAN P68431 ? 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 6D07 A 2 ? 55 ? P83916 20 ? 73 ? 2 55 2 1 6D07 B 2 ? 55 ? P83916 20 ? 73 ? 2 55 3 2 6D07 C 1 ? 15 ? P68431 2 ? 16 ? 1 15 4 2 6D07 D 1 ? 15 ? P68431 2 ? 16 ? 1 15 # 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 6D07 GLY A 1 ? UNP P83916 ? ? 'expression tag' 1 1 2 6D07 GLY B 1 ? UNP P83916 ? ? 'expression tag' 1 2 3 6D07 NH2 C 16 ? UNP P68431 ? ? amidation 16 3 4 6D07 NH2 D 16 ? UNP P68431 ? ? amidation 16 4 # 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 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 GOL non-polymer . GLYCEROL 'GLYCERIN; PROPANE-1,2,3-TRIOL' 'C3 H8 O3' 92.094 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 M3L 'L-peptide linking' n N-TRIMETHYLLYSINE ? 'C9 H21 N2 O2 1' 189.275 NH2 non-polymer . 'AMINO GROUP' ? 'H2 N' 16.023 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 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 6D07 _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 1.97 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 37.62 _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 8 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '0.2 M sodium chloride, 0.1 M Tris, pH 8.0, 30% w/v PEG3350' _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_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'RIGAKU SATURN 944' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2017-03-29 # _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 1.5418 _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 'ROTATING ANODE' _diffrn_source.target ? _diffrn_source.type 'RIGAKU FR-E SUPERBRIGHT' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.5418 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_synchrotron_site ? # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 6D07 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.1 _reflns.d_resolution_low 26.34 _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 6737 _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 93.5 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 1.9 _reflns.pdbx_Rmerge_I_obs 0.073 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 8.5 _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 2.10 _reflns_shell.d_res_low 2.18 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 2.6 _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 86.7 _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 0.208 _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 1.8 _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.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 6D07 _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 6734 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.22 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 26.336 _refine.ls_d_res_high 2.100 _refine.ls_percent_reflns_obs 93.42 _refine.ls_R_factor_obs 0.2094 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2044 _refine.ls_R_factor_R_free 0.2569 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 9.73 _refine.ls_number_reflns_R_free 655 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_ls_cross_valid_method 'FREE R-VALUE' _refine.details ? _refine.pdbx_starting_model 'PDB entry 3FDT' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.24 _refine.pdbx_overall_phase_error 30.70 _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1007 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 6 _refine_hist.number_atoms_solvent 100 _refine_hist.number_atoms_total 1113 _refine_hist.d_res_high 2.100 _refine_hist.d_res_low 26.336 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function f_bond_d 0.002 ? ? 1028 'X-RAY DIFFRACTION' ? f_angle_d 0.515 ? ? 1383 'X-RAY DIFFRACTION' ? f_dihedral_angle_d 13.120 ? ? 620 'X-RAY DIFFRACTION' ? f_chiral_restr 0.043 ? ? 146 'X-RAY DIFFRACTION' ? f_plane_restr 0.002 ? ? 175 'X-RAY DIFFRACTION' ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_all _refine_ls_shell.R_factor_all 'X-RAY DIFFRACTION' . 2.1001 2.2622 1158 0.2382 90.00 0.3332 . . 137 . . 'X-RAY DIFFRACTION' . 2.2622 2.4897 1213 0.2449 92.00 0.2910 . . 123 . . 'X-RAY DIFFRACTION' . 2.4897 2.8496 1219 0.2407 95.00 0.3109 . . 145 . . 'X-RAY DIFFRACTION' . 2.8496 3.5888 1231 0.1957 94.00 0.2270 . . 130 . . 'X-RAY DIFFRACTION' . 3.5888 26.3377 1258 0.1707 96.00 0.2117 . . 120 . . # _struct.entry_id 6D07 _struct.title 'Crystal structure of the complex between human chromobox homolog 1 (CBX1) and H3K9me3 peptide' _struct.pdbx_descriptor 'Chromobox protein homolog 1, Histone H3.1' _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 6D07 _struct_keywords.text 'Lysine modification, Chromodomain, Bump-hole, Epigenetics, PROTEIN BINDING' _struct_keywords.pdbx_keywords 'PROTEIN BINDING' # 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 1 ? C N N 2 ? D N N 2 ? E N N 3 ? F N N 4 ? G N N 4 ? H N N 4 ? I N N 4 ? # 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 28 ? ASN A 32 ? SER A 28 ASN A 32 5 ? 5 HELX_P HELX_P2 AA2 CYS A 42 ? LYS A 54 ? CYS A 42 LYS A 54 1 ? 13 HELX_P HELX_P3 AA3 SER B 28 ? ASN B 32 ? SER B 28 ASN B 32 5 ? 5 HELX_P HELX_P4 AA4 CYS B 42 ? GLN B 51 ? CYS B 42 GLN B 51 1 ? 10 # _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 ? C ARG 8 C ? ? ? 1_555 C M3L 9 N ? ? C ARG 8 C M3L 9 1_555 ? ? ? ? ? ? ? 1.327 ? covale2 covale both ? C M3L 9 C ? ? ? 1_555 C SER 10 N ? ? C M3L 9 C SER 10 1_555 ? ? ? ? ? ? ? 1.331 ? covale3 covale both ? D ARG 8 C ? ? ? 1_555 D M3L 9 N ? ? D ARG 8 D M3L 9 1_555 ? ? ? ? ? ? ? 1.331 ? covale4 covale both ? D M3L 9 C ? ? ? 1_555 D SER 10 N ? ? D M3L 9 D SER 10 1_555 ? ? ? ? ? ? ? 1.331 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 5 ? AA2 ? 5 ? # 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 AA2 1 2 ? anti-parallel AA2 2 3 ? anti-parallel AA2 3 4 ? anti-parallel AA2 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 THR A 33 ? PRO A 36 ? THR A 33 PRO A 36 AA1 2 LYS A 17 ? TRP A 24 ? LYS A 17 TRP A 24 AA1 3 GLU A 2 ? VAL A 14 ? GLU A 2 VAL A 14 AA1 4 THR C 6 ? ARG C 8 ? THR C 6 ARG C 8 AA1 5 LEU A 40 ? ASP A 41 ? LEU A 40 ASP A 41 AA2 1 THR B 33 ? PRO B 36 ? THR B 33 PRO B 36 AA2 2 LYS B 17 ? TRP B 24 ? LYS B 17 TRP B 24 AA2 3 GLU B 2 ? VAL B 14 ? GLU B 2 VAL B 14 AA2 4 THR D 6 ? ARG D 8 ? THR D 6 ARG D 8 AA2 5 LEU B 40 ? ASP B 41 ? LEU B 40 ASP B 41 # 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 35 ? O GLU A 35 N TYR A 20 ? N TYR A 20 AA1 2 3 O LYS A 23 ? O LYS A 23 N GLU A 6 ? N GLU A 6 AA1 3 4 N TYR A 3 ? N TYR A 3 O ALA C 7 ? O ALA C 7 AA1 4 5 O THR C 6 ? O THR C 6 N ASP A 41 ? N ASP A 41 AA2 1 2 O GLU B 35 ? O GLU B 35 N TYR B 20 ? N TYR B 20 AA2 2 3 O LYS B 23 ? O LYS B 23 N GLU B 6 ? N GLU B 6 AA2 3 4 N TYR B 3 ? N TYR B 3 O ALA D 7 ? O ALA D 7 AA2 4 5 O THR D 6 ? O THR D 6 N ASP B 41 ? N ASP B 41 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id GOL _struct_site.pdbx_auth_seq_id 101 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 4 _struct_site.details 'binding site for residue GOL A 101' # 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 4 ASP A 44 ? ASP A 44 . ? 1_455 ? 2 AC1 4 HOH F . ? HOH A 204 . ? 1_555 ? 3 AC1 4 LEU B 21 ? LEU B 21 . ? 1_455 ? 4 AC1 4 ASN B 32 ? ASN B 32 . ? 1_455 ? # _atom_sites.entry_id 6D07 _atom_sites.fract_transf_matrix[1][1] 0.031235 _atom_sites.fract_transf_matrix[1][2] 0.006881 _atom_sites.fract_transf_matrix[1][3] 0.010972 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.031876 _atom_sites.fract_transf_matrix[2][3] 0.007596 _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] 0.031438 _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 N O S # 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 1 1 GLY GLY A . n A 1 2 GLU 2 2 2 GLU GLU A . n A 1 3 TYR 3 3 3 TYR TYR A . n A 1 4 VAL 4 4 4 VAL VAL A . n A 1 5 VAL 5 5 5 VAL VAL A . n A 1 6 GLU 6 6 6 GLU GLU A . n A 1 7 LYS 7 7 7 LYS LYS A . n A 1 8 VAL 8 8 8 VAL VAL A . n A 1 9 LEU 9 9 9 LEU LEU A . n A 1 10 ASP 10 10 10 ASP ASP A . n A 1 11 ARG 11 11 11 ARG ARG A . n A 1 12 ARG 12 12 12 ARG ARG A . n A 1 13 VAL 13 13 13 VAL VAL A . n A 1 14 VAL 14 14 14 VAL VAL A . n A 1 15 LYS 15 15 15 LYS LYS A . n A 1 16 GLY 16 16 16 GLY GLY A . n A 1 17 LYS 17 17 17 LYS LYS A . n A 1 18 VAL 18 18 18 VAL VAL A . n A 1 19 GLU 19 19 19 GLU GLU A . n A 1 20 TYR 20 20 20 TYR TYR A . n A 1 21 LEU 21 21 21 LEU LEU A . n A 1 22 LEU 22 22 22 LEU LEU A . n A 1 23 LYS 23 23 23 LYS LYS A . n A 1 24 TRP 24 24 24 TRP TRP A . n A 1 25 LYS 25 25 25 LYS LYS A . n A 1 26 GLY 26 26 26 GLY GLY A . n A 1 27 PHE 27 27 27 PHE PHE A . n A 1 28 SER 28 28 28 SER SER A . n A 1 29 ASP 29 29 29 ASP ASP A . n A 1 30 GLU 30 30 30 GLU GLU A . n A 1 31 ASP 31 31 31 ASP ASP A . n A 1 32 ASN 32 32 32 ASN ASN A . n A 1 33 THR 33 33 33 THR THR A . n A 1 34 TRP 34 34 34 TRP TRP A . n A 1 35 GLU 35 35 35 GLU GLU A . n A 1 36 PRO 36 36 36 PRO PRO A . n A 1 37 GLU 37 37 37 GLU GLU A . n A 1 38 GLU 38 38 38 GLU GLU A . n A 1 39 ASN 39 39 39 ASN ASN A . n A 1 40 LEU 40 40 40 LEU LEU A . n A 1 41 ASP 41 41 41 ASP ASP A . n A 1 42 CYS 42 42 42 CYS CYS A . n A 1 43 PRO 43 43 43 PRO PRO A . n A 1 44 ASP 44 44 44 ASP ASP A . n A 1 45 LEU 45 45 45 LEU LEU A . n A 1 46 ILE 46 46 46 ILE ILE A . n A 1 47 ALA 47 47 47 ALA ALA A . n A 1 48 GLU 48 48 48 GLU GLU A . n A 1 49 PHE 49 49 49 PHE PHE A . n A 1 50 LEU 50 50 50 LEU LEU A . n A 1 51 GLN 51 51 51 GLN GLN A . n A 1 52 SER 52 52 52 SER SER A . n A 1 53 GLN 53 53 53 GLN GLN A . n A 1 54 LYS 54 54 54 LYS LYS A . n A 1 55 THR 55 55 ? ? ? A . n B 1 1 GLY 1 1 1 GLY GLY B . n B 1 2 GLU 2 2 2 GLU GLU B . n B 1 3 TYR 3 3 3 TYR TYR B . n B 1 4 VAL 4 4 4 VAL VAL B . n B 1 5 VAL 5 5 5 VAL VAL B . n B 1 6 GLU 6 6 6 GLU GLU B . n B 1 7 LYS 7 7 7 LYS LYS B . n B 1 8 VAL 8 8 8 VAL VAL B . n B 1 9 LEU 9 9 9 LEU LEU B . n B 1 10 ASP 10 10 10 ASP ASP B . n B 1 11 ARG 11 11 11 ARG ARG B . n B 1 12 ARG 12 12 12 ARG ARG B . n B 1 13 VAL 13 13 13 VAL VAL B . n B 1 14 VAL 14 14 14 VAL VAL B . n B 1 15 LYS 15 15 15 LYS LYS B . n B 1 16 GLY 16 16 16 GLY GLY B . n B 1 17 LYS 17 17 17 LYS LYS B . n B 1 18 VAL 18 18 18 VAL VAL B . n B 1 19 GLU 19 19 19 GLU GLU B . n B 1 20 TYR 20 20 20 TYR TYR B . n B 1 21 LEU 21 21 21 LEU LEU B . n B 1 22 LEU 22 22 22 LEU LEU B . n B 1 23 LYS 23 23 23 LYS LYS B . n B 1 24 TRP 24 24 24 TRP TRP B . n B 1 25 LYS 25 25 25 LYS LYS B . n B 1 26 GLY 26 26 26 GLY GLY B . n B 1 27 PHE 27 27 27 PHE PHE B . n B 1 28 SER 28 28 28 SER SER B . n B 1 29 ASP 29 29 29 ASP ASP B . n B 1 30 GLU 30 30 30 GLU GLU B . n B 1 31 ASP 31 31 31 ASP ASP B . n B 1 32 ASN 32 32 32 ASN ASN B . n B 1 33 THR 33 33 33 THR THR B . n B 1 34 TRP 34 34 34 TRP TRP B . n B 1 35 GLU 35 35 35 GLU GLU B . n B 1 36 PRO 36 36 36 PRO PRO B . n B 1 37 GLU 37 37 37 GLU GLU B . n B 1 38 GLU 38 38 38 GLU GLU B . n B 1 39 ASN 39 39 39 ASN ASN B . n B 1 40 LEU 40 40 40 LEU LEU B . n B 1 41 ASP 41 41 41 ASP ASP B . n B 1 42 CYS 42 42 42 CYS CYS B . n B 1 43 PRO 43 43 43 PRO PRO B . n B 1 44 ASP 44 44 44 ASP ASP B . n B 1 45 LEU 45 45 45 LEU LEU B . n B 1 46 ILE 46 46 46 ILE ILE B . n B 1 47 ALA 47 47 47 ALA ALA B . n B 1 48 GLU 48 48 48 GLU GLU B . n B 1 49 PHE 49 49 49 PHE PHE B . n B 1 50 LEU 50 50 50 LEU LEU B . n B 1 51 GLN 51 51 51 GLN GLN B . n B 1 52 SER 52 52 52 SER SER B . n B 1 53 GLN 53 53 ? ? ? B . n B 1 54 LYS 54 54 ? ? ? B . n B 1 55 THR 55 55 ? ? ? B . n C 2 1 ALA 1 1 ? ? ? C . n C 2 2 ARG 2 2 ? ? ? C . n C 2 3 THR 3 3 ? ? ? C . n C 2 4 LYS 4 4 4 LYS LYS C . n C 2 5 GLN 5 5 5 GLN GLN C . n C 2 6 THR 6 6 6 THR THR C . n C 2 7 ALA 7 7 7 ALA ALA C . n C 2 8 ARG 8 8 8 ARG ARG C . n C 2 9 M3L 9 9 9 M3L M3L C . n C 2 10 SER 10 10 10 SER SER C . n C 2 11 THR 11 11 11 THR THR C . n C 2 12 GLY 12 12 12 GLY GLY C . n C 2 13 GLY 13 13 ? ? ? C . n C 2 14 LYS 14 14 ? ? ? C . n C 2 15 ALA 15 15 ? ? ? C . n C 2 16 NH2 16 16 ? ? ? C . n D 2 1 ALA 1 1 ? ? ? D . n D 2 2 ARG 2 2 ? ? ? D . n D 2 3 THR 3 3 ? ? ? D . n D 2 4 LYS 4 4 4 LYS LYS D . n D 2 5 GLN 5 5 5 GLN GLN D . n D 2 6 THR 6 6 6 THR THR D . n D 2 7 ALA 7 7 7 ALA ALA D . n D 2 8 ARG 8 8 8 ARG ARG D . n D 2 9 M3L 9 9 9 M3L M3L D . n D 2 10 SER 10 10 10 SER SER D . n D 2 11 THR 11 11 ? ? ? D . n D 2 12 GLY 12 12 ? ? ? D . n D 2 13 GLY 13 13 ? ? ? D . n D 2 14 LYS 14 14 ? ? ? D . n D 2 15 ALA 15 15 ? ? ? D . n D 2 16 NH2 16 16 ? ? ? D . 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 E 3 GOL 1 101 1 GOL GOL A . F 4 HOH 1 201 86 HOH HOH A . F 4 HOH 2 202 43 HOH HOH A . F 4 HOH 3 203 4 HOH HOH A . F 4 HOH 4 204 40 HOH HOH A . F 4 HOH 5 205 30 HOH HOH A . F 4 HOH 6 206 2 HOH HOH A . F 4 HOH 7 207 16 HOH HOH A . F 4 HOH 8 208 45 HOH HOH A . F 4 HOH 9 209 36 HOH HOH A . F 4 HOH 10 210 12 HOH HOH A . F 4 HOH 11 211 39 HOH HOH A . F 4 HOH 12 212 92 HOH HOH A . F 4 HOH 13 213 21 HOH HOH A . F 4 HOH 14 214 18 HOH HOH A . F 4 HOH 15 215 79 HOH HOH A . F 4 HOH 16 216 54 HOH HOH A . F 4 HOH 17 217 48 HOH HOH A . F 4 HOH 18 218 15 HOH HOH A . F 4 HOH 19 219 75 HOH HOH A . F 4 HOH 20 220 28 HOH HOH A . F 4 HOH 21 221 94 HOH HOH A . F 4 HOH 22 222 27 HOH HOH A . F 4 HOH 23 223 77 HOH HOH A . F 4 HOH 24 224 3 HOH HOH A . F 4 HOH 25 225 55 HOH HOH A . F 4 HOH 26 226 38 HOH HOH A . F 4 HOH 27 227 42 HOH HOH A . F 4 HOH 28 228 47 HOH HOH A . F 4 HOH 29 229 20 HOH HOH A . F 4 HOH 30 230 14 HOH HOH A . F 4 HOH 31 231 76 HOH HOH A . F 4 HOH 32 232 85 HOH HOH A . F 4 HOH 33 233 19 HOH HOH A . F 4 HOH 34 234 34 HOH HOH A . F 4 HOH 35 235 87 HOH HOH A . F 4 HOH 36 236 73 HOH HOH A . F 4 HOH 37 237 100 HOH HOH A . F 4 HOH 38 238 67 HOH HOH A . F 4 HOH 39 239 59 HOH HOH A . F 4 HOH 40 240 9 HOH HOH A . F 4 HOH 41 241 95 HOH HOH A . F 4 HOH 42 242 71 HOH HOH A . F 4 HOH 43 243 33 HOH HOH A . F 4 HOH 44 244 22 HOH HOH A . F 4 HOH 45 245 63 HOH HOH A . F 4 HOH 46 246 72 HOH HOH A . F 4 HOH 47 247 99 HOH HOH A . G 4 HOH 1 101 29 HOH HOH B . G 4 HOH 2 102 64 HOH HOH B . G 4 HOH 3 103 1 HOH HOH B . G 4 HOH 4 104 44 HOH HOH B . G 4 HOH 5 105 10 HOH HOH B . G 4 HOH 6 106 58 HOH HOH B . G 4 HOH 7 107 11 HOH HOH B . G 4 HOH 8 108 24 HOH HOH B . G 4 HOH 9 109 56 HOH HOH B . G 4 HOH 10 110 17 HOH HOH B . G 4 HOH 11 111 23 HOH HOH B . G 4 HOH 12 112 6 HOH HOH B . G 4 HOH 13 113 26 HOH HOH B . G 4 HOH 14 114 37 HOH HOH B . G 4 HOH 15 115 31 HOH HOH B . G 4 HOH 16 116 78 HOH HOH B . G 4 HOH 17 117 7 HOH HOH B . G 4 HOH 18 118 57 HOH HOH B . G 4 HOH 19 119 65 HOH HOH B . G 4 HOH 20 120 35 HOH HOH B . G 4 HOH 21 121 69 HOH HOH B . G 4 HOH 22 122 46 HOH HOH B . G 4 HOH 23 123 51 HOH HOH B . G 4 HOH 24 124 83 HOH HOH B . G 4 HOH 25 125 5 HOH HOH B . G 4 HOH 26 126 32 HOH HOH B . G 4 HOH 27 127 50 HOH HOH B . G 4 HOH 28 128 66 HOH HOH B . G 4 HOH 29 129 96 HOH HOH B . G 4 HOH 30 130 60 HOH HOH B . G 4 HOH 31 131 80 HOH HOH B . G 4 HOH 32 132 52 HOH HOH B . G 4 HOH 33 133 89 HOH HOH B . G 4 HOH 34 134 74 HOH HOH B . G 4 HOH 35 135 90 HOH HOH B . G 4 HOH 36 136 41 HOH HOH B . G 4 HOH 37 137 25 HOH HOH B . G 4 HOH 38 138 84 HOH HOH B . G 4 HOH 39 139 98 HOH HOH B . G 4 HOH 40 140 82 HOH HOH B . G 4 HOH 41 141 88 HOH HOH B . G 4 HOH 42 142 81 HOH HOH B . H 4 HOH 1 101 61 HOH HOH C . H 4 HOH 2 102 68 HOH HOH C . H 4 HOH 3 103 53 HOH HOH C . H 4 HOH 4 104 8 HOH HOH C . H 4 HOH 5 105 91 HOH HOH C . H 4 HOH 6 106 97 HOH HOH C . H 4 HOH 7 107 93 HOH HOH C . I 4 HOH 1 101 49 HOH HOH D . I 4 HOH 2 102 13 HOH HOH D . I 4 HOH 3 103 62 HOH HOH D . I 4 HOH 4 104 70 HOH HOH D . # 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 C M3L 9 C M3L 9 ? LYS 'modified residue' 2 D M3L 9 D M3L 9 ? LYS 'modified residue' # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_and_software_defined_assembly PISA dimeric 2 2 author_and_software_defined_assembly PISA dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,C,E,F,H 2 1 B,D,G,I # 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)' 1390 ? 1 MORE -5 ? 1 'SSA (A^2)' 4390 ? 2 'ABSA (A^2)' 1170 ? 2 MORE -5 ? 2 'SSA (A^2)' 4060 ? # _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 2019-04-10 2 'Structure model' 1 1 2019-10-23 3 'Structure model' 1 2 2020-01-01 # _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 ? # 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' 3 3 'Structure model' 'Author supporting evidence' # 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 3 3 'Structure model' pdbx_audit_support # 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_ASTM' 4 2 'Structure model' '_citation.journal_id_CSD' 5 2 'Structure model' '_citation.journal_id_ISSN' 6 2 'Structure model' '_citation.journal_volume' 7 2 'Structure model' '_citation.page_first' 8 2 'Structure model' '_citation.page_last' 9 2 'Structure model' '_citation.pdbx_database_id_DOI' 10 2 'Structure model' '_citation.pdbx_database_id_PubMed' 11 2 'Structure model' '_citation.title' 12 2 'Structure model' '_citation.year' 13 2 'Structure model' '_citation_author.identifier_ORCID' 14 3 'Structure model' '_pdbx_audit_support.funding_organization' # 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 ? ? ? '(1.12_2829: ???)' 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? d*TREK ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? d*TREK ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O A HOH 212 ? ? O A HOH 223 ? ? 2.18 2 1 O A HOH 226 ? ? O A HOH 238 ? ? 2.19 # 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 LYS 54 ? CG ? A LYS 54 CG 2 1 Y 1 A LYS 54 ? CD ? A LYS 54 CD 3 1 Y 1 A LYS 54 ? CE ? A LYS 54 CE 4 1 Y 1 A LYS 54 ? NZ ? A LYS 54 NZ # 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 THR 55 ? A THR 55 2 1 Y 1 B GLN 53 ? B GLN 53 3 1 Y 1 B LYS 54 ? B LYS 54 4 1 Y 1 B THR 55 ? B THR 55 5 1 Y 1 C ALA 1 ? C ALA 1 6 1 Y 1 C ARG 2 ? C ARG 2 7 1 Y 1 C THR 3 ? C THR 3 8 1 Y 1 C GLY 13 ? C GLY 13 9 1 Y 1 C LYS 14 ? C LYS 14 10 1 Y 1 C ALA 15 ? C ALA 15 11 1 Y 1 C NH2 16 ? C NH2 16 12 1 Y 1 D ALA 1 ? D ALA 1 13 1 Y 1 D ARG 2 ? D ARG 2 14 1 Y 1 D THR 3 ? D THR 3 15 1 Y 1 D THR 11 ? D THR 11 16 1 Y 1 D GLY 12 ? D GLY 12 17 1 Y 1 D GLY 13 ? D GLY 13 18 1 Y 1 D LYS 14 ? D LYS 14 19 1 Y 1 D ALA 15 ? D ALA 15 20 1 Y 1 D NH2 16 ? D NH2 16 # _pdbx_audit_support.funding_organization 'National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number 1R01GM123234 _pdbx_audit_support.ordinal 1 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 GLYCEROL GOL 4 water HOH # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'assay for oligomerization' _pdbx_struct_assembly_auth_evidence.details ? #