data_6K2U # _entry.id 6K2U # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.325 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 6K2U WWPDB D_1300012193 # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6K2U _pdbx_database_status.recvd_initial_deposition_date 2019-05-15 _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 _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Wang, X.' 1 0000-0002-4654-1983 'Zhou, Y.' 2 ? 'Zhu, Y.' 3 0000-0002-4158-5223 # _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 Mol.Cell _citation.journal_id_ASTM MOCEFL _citation.journal_id_CSD 2168 _citation.journal_id_ISSN 1097-2765 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 78 _citation.language ? _citation.page_first 641 _citation.page_last 652.e9 _citation.title 'Threonine ADP-Ribosylation of Ubiquitin by a Bacterial Effector Family Blocks Host Ubiquitination.' _citation.year 2020 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1016/j.molcel.2020.03.016 _citation.pdbx_database_id_PubMed 32330457 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Yan, F.' 1 ? primary 'Huang, C.' 2 ? primary 'Wang, X.' 3 ? primary 'Tan, J.' 4 ? primary 'Cheng, S.' 5 ? primary 'Wan, M.' 6 ? primary 'Wang, Z.' 7 ? primary 'Wang, S.' 8 ? primary 'Luo, S.' 9 ? primary 'Li, A.' 10 ? primary 'Guo, X.' 11 ? primary 'Feng, M.' 12 ? primary 'Liu, X.' 13 ? primary 'Zhu, Y.' 14 ? primary 'Zhou, Y.' 15 ? # _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 6K2U _cell.details ? _cell.formula_units_Z ? _cell.length_a 101.525 _cell.length_a_esd ? _cell.length_b 101.525 _cell.length_b_esd ? _cell.length_c 101.525 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 24 _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 6K2U _symmetry.cell_setting ? _symmetry.Int_Tables_number 213 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 3 2' _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 Polyubiquitin-C 8663.908 1 ? ? ? ? 2 non-polymer syn ;[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE ; 559.316 1 ? ? ? ? 3 non-polymer syn 'ZINC ION' 65.409 1 ? ? ? ? 4 non-polymer syn 'MAGNESIUM ION' 24.305 2 ? ? ? ? 5 water nat water 18.015 20 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code SMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG _entity_poly.pdbx_seq_one_letter_code_can SMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG _entity_poly.pdbx_strand_id B _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 SER n 1 2 MET n 1 3 GLN n 1 4 ILE n 1 5 PHE n 1 6 VAL n 1 7 LYS n 1 8 THR n 1 9 LEU n 1 10 THR n 1 11 GLY n 1 12 LYS n 1 13 THR n 1 14 ILE n 1 15 THR n 1 16 LEU n 1 17 GLU n 1 18 VAL n 1 19 GLU n 1 20 PRO n 1 21 SER n 1 22 ASP n 1 23 THR n 1 24 ILE n 1 25 GLU n 1 26 ASN n 1 27 VAL n 1 28 LYS n 1 29 ALA n 1 30 LYS n 1 31 ILE n 1 32 GLN n 1 33 ASP n 1 34 LYS n 1 35 GLU n 1 36 GLY n 1 37 ILE n 1 38 PRO n 1 39 PRO n 1 40 ASP n 1 41 GLN n 1 42 GLN n 1 43 ARG n 1 44 LEU n 1 45 ILE n 1 46 PHE n 1 47 ALA n 1 48 GLY n 1 49 LYS n 1 50 GLN n 1 51 LEU n 1 52 GLU n 1 53 ASP n 1 54 GLY n 1 55 ARG n 1 56 THR n 1 57 LEU n 1 58 SER n 1 59 ASP n 1 60 TYR n 1 61 ASN n 1 62 ILE n 1 63 GLN n 1 64 LYS n 1 65 GLU n 1 66 SER n 1 67 THR n 1 68 LEU n 1 69 HIS n 1 70 LEU n 1 71 VAL n 1 72 LEU n 1 73 ARG n 1 74 LEU n 1 75 ARG n 1 76 GLY n 1 77 GLY 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 77 _entity_src_gen.gene_src_common_name Human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene UBC _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 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 'BL21(DE3)' _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 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code UBC_HUMAN _struct_ref.pdbx_db_accession P0CG48 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 6K2U _struct_ref_seq.pdbx_strand_id B _struct_ref_seq.seq_align_beg 2 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 77 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession P0CG48 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 76 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 76 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 6K2U _struct_ref_seq_dif.mon_id SER _struct_ref_seq_dif.pdbx_pdb_strand_id B _struct_ref_seq_dif.seq_num 1 _struct_ref_seq_dif.pdbx_pdb_ins_code ? _struct_ref_seq_dif.pdbx_seq_db_name UNP _struct_ref_seq_dif.pdbx_seq_db_accession_code P0CG48 _struct_ref_seq_dif.db_mon_id ? _struct_ref_seq_dif.pdbx_seq_db_seq_num ? _struct_ref_seq_dif.details 'expression tag' _struct_ref_seq_dif.pdbx_auth_seq_num 0 _struct_ref_seq_dif.pdbx_ordinal 1 # 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 AR6 non-polymer . ;[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE ; Adenosine-5-Diphosphoribose 'C15 H23 N5 O14 P2' 559.316 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 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 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 ZN non-polymer . 'ZINC ION' ? 'Zn 2' 65.409 # _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 6K2U _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 5.03 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 75.56 _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 5.5 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 289 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;0.1M MMT (Malic Acid, MES and TRIS (1:2:2 Molar Ratio), pH 5.5 adjusted with HCl), 0.1M magnesium chloride, 0.1M zinc acetate 12% PEG8000 ; _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 PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS PILATUS 6M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2018-01-26 _diffrn_detector.pdbx_frequency ? # _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 0.97853 _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 BL19U1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.97853 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL19U1 _diffrn_source.pdbx_synchrotron_site SSRF # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 6K2U _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.550 _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 6182 _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 98.800 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 4.900 _reflns.pdbx_Rmerge_I_obs 0.089 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 6.800 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 1.175 _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 0.099 _reflns.pdbx_Rpim_I_all 0.043 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all 30046 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _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_R_split 2.550 2.590 ? ? ? ? ? ? 298 100.000 ? ? ? ? 0.693 ? ? ? ? ? ? ? ? 5.100 ? 0.519 ? ? 0.775 0.336 ? 1 1 0.801 ? 2.590 2.640 ? ? ? ? ? ? 297 99.700 ? ? ? ? 0.563 ? ? ? ? ? ? ? ? 5.100 ? 0.540 ? ? 0.629 0.274 ? 2 1 0.830 ? 2.640 2.690 ? ? ? ? ? ? 302 100.000 ? ? ? ? 0.552 ? ? ? ? ? ? ? ? 5.000 ? 0.537 ? ? 0.618 0.270 ? 3 1 0.772 ? 2.690 2.750 ? ? ? ? ? ? 296 99.700 ? ? ? ? 0.450 ? ? ? ? ? ? ? ? 4.900 ? 0.558 ? ? 0.503 0.219 ? 4 1 0.881 ? 2.750 2.810 ? ? ? ? ? ? 309 99.700 ? ? ? ? 0.422 ? ? ? ? ? ? ? ? 4.700 ? 0.570 ? ? 0.476 0.211 ? 5 1 0.893 ? 2.810 2.870 ? ? ? ? ? ? 292 97.700 ? ? ? ? 0.304 ? ? ? ? ? ? ? ? 4.900 ? 0.597 ? ? 0.342 0.152 ? 6 1 0.922 ? 2.870 2.940 ? ? ? ? ? ? 301 100.000 ? ? ? ? 0.304 ? ? ? ? ? ? ? ? 5.200 ? 0.658 ? ? 0.340 0.146 ? 7 1 0.938 ? 2.940 3.020 ? ? ? ? ? ? 306 100.000 ? ? ? ? 0.277 ? ? ? ? ? ? ? ? 5.100 ? 0.754 ? ? 0.310 0.136 ? 8 1 0.961 ? 3.020 3.110 ? ? ? ? ? ? 305 100.000 ? ? ? ? 0.227 ? ? ? ? ? ? ? ? 5.000 ? 0.876 ? ? 0.255 0.112 ? 9 1 0.970 ? 3.110 3.210 ? ? ? ? ? ? 305 100.000 ? ? ? ? 0.183 ? ? ? ? ? ? ? ? 5.000 ? 1.133 ? ? 0.205 0.090 ? 10 1 0.973 ? 3.210 3.330 ? ? ? ? ? ? 310 99.700 ? ? ? ? 0.148 ? ? ? ? ? ? ? ? 4.800 ? 1.230 ? ? 0.166 0.073 ? 11 1 0.970 ? 3.330 3.460 ? ? ? ? ? ? 296 99.000 ? ? ? ? 0.126 ? ? ? ? ? ? ? ? 4.600 ? 1.333 ? ? 0.142 0.063 ? 12 1 0.980 ? 3.460 3.620 ? ? ? ? ? ? 313 99.100 ? ? ? ? 0.107 ? ? ? ? ? ? ? ? 4.900 ? 1.536 ? ? 0.120 0.051 ? 13 1 0.985 ? 3.620 3.810 ? ? ? ? ? ? 310 99.700 ? ? ? ? 0.091 ? ? ? ? ? ? ? ? 5.000 ? 1.449 ? ? 0.101 0.042 ? 14 1 0.991 ? 3.810 4.050 ? ? ? ? ? ? 314 100.000 ? ? ? ? 0.070 ? ? ? ? ? ? ? ? 4.900 ? 1.462 ? ? 0.078 0.034 ? 15 1 0.995 ? 4.050 4.360 ? ? ? ? ? ? 318 99.700 ? ? ? ? 0.060 ? ? ? ? ? ? ? ? 4.800 ? 1.659 ? ? 0.067 0.029 ? 16 1 0.995 ? 4.360 4.800 ? ? ? ? ? ? 308 97.200 ? ? ? ? 0.053 ? ? ? ? ? ? ? ? 4.600 ? 1.609 ? ? 0.060 0.027 ? 17 1 0.995 ? 4.800 5.490 ? ? ? ? ? ? 328 99.400 ? ? ? ? 0.058 ? ? ? ? ? ? ? ? 4.900 ? 1.624 ? ? 0.065 0.028 ? 18 1 0.995 ? 5.490 6.920 ? ? ? ? ? ? 323 96.700 ? ? ? ? 0.066 ? ? ? ? ? ? ? ? 4.400 ? 1.918 ? ? 0.074 0.032 ? 19 1 0.995 ? 6.920 50.000 ? ? ? ? ? ? 351 91.600 ? ? ? ? 0.073 ? ? ? ? ? ? ? ? 4.300 ? 3.069 ? ? 0.082 0.037 ? 20 1 0.994 ? # _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 111.760 _refine.B_iso_mean 57.1748 _refine.B_iso_min 37.520 _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 6K2U _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 2.5540 _refine.ls_d_res_low 45.4030 _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 6153 _refine.ls_number_reflns_R_free 616 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.8100 _refine.ls_percent_reflns_R_free 10.0100 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2369 _refine.ls_R_factor_R_free 0.2468 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2358 _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 1.370 _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 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 4ZQS _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 1.1100 _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 26.7700 _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 0.3100 _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 2.5540 _refine_hist.d_res_low 45.4030 _refine_hist.number_atoms_solvent 20 _refine_hist.number_atoms_total 626 _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 73 _refine_hist.pdbx_B_iso_mean_ligand 73.73 _refine_hist.pdbx_B_iso_mean_solvent 52.96 _refine_hist.pdbx_number_atoms_protein 568 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 38 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # 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' 2.5541 2.8111 1499 . 150 1349 100.0000 . . . 0.3200 0.0000 0.2760 . . . . . . 4 . . . 'X-RAY DIFFRACTION' 2.8111 3.2178 1505 . 150 1355 99.0000 . . . 0.2963 0.0000 0.2540 . . . . . . 4 . . . 'X-RAY DIFFRACTION' 3.2178 4.0537 1539 . 154 1385 100.0000 . . . 0.2402 0.0000 0.2223 . . . . . . 4 . . . 'X-RAY DIFFRACTION' 4.0537 45.4105 1610 . 162 1448 97.0000 . . . 0.2260 0.0000 0.2318 . . . . . . 4 . . . # _struct.entry_id 6K2U _struct.title 'Crystal structure of Thr66 ADP-ribosylated ubiquitin' _struct.pdbx_descriptor Polyubiquitin-C _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 6K2U _struct_keywords.text 'Ubiquitination, SIGNALING PROTEIN' _struct_keywords.pdbx_keywords 'SIGNALING 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 3 ? D N N 4 ? E N N 4 ? F N N 5 ? # 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 THR A 23 ? GLY A 36 ? THR B 22 GLY B 35 1 ? 14 HELX_P HELX_P2 AA2 PRO A 38 ? ASP A 40 ? PRO B 37 ASP B 39 5 ? 3 HELX_P HELX_P3 AA3 LEU A 57 ? ASN A 61 ? LEU B 56 ASN B 60 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 metalc1 metalc ? ? A GLU 19 OE1 ? ? ? 1_555 D MG . MG ? ? B GLU 18 B MG 103 1_555 ? ? ? ? ? ? ? 2.268 ? metalc2 metalc ? ? A GLU 19 OE2 ? ? ? 1_555 D MG . MG ? ? B GLU 18 B MG 103 1_555 ? ? ? ? ? ? ? 2.006 ? metalc3 metalc ? ? A GLU 25 OE1 ? ? ? 1_555 C ZN . ZN ? ? B GLU 24 B ZN 102 1_555 ? ? ? ? ? ? ? 2.008 ? metalc4 metalc ? ? A ASP 53 OD2 ? ? ? 1_555 C ZN . ZN ? ? B ASP 52 B ZN 102 1_555 ? ? ? ? ? ? ? 1.953 ? covale1 covale one ? A THR 67 OG1 ? ? ? 1_555 B AR6 . C1D ? ? B THR 66 B AR6 101 1_555 ? ? ? ? ? ? ? 1.374 ? metalc5 metalc ? ? A ASP 40 OD1 ? ? ? 1_555 C ZN . ZN ? ? B ASP 39 B ZN 102 14_445 ? ? ? ? ? ? ? 2.522 ? metalc6 metalc ? ? A ASP 40 OD2 ? ? ? 1_555 C ZN . ZN ? ? B ASP 39 B ZN 102 14_445 ? ? ? ? ? ? ? 2.142 ? metalc7 metalc ? ? B AR6 . O2A ? ? ? 1_555 E MG . MG ? ? B AR6 101 B MG 104 21_455 ? ? ? ? ? ? ? 2.965 ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? covale ? ? # _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 ? 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 THR A 13 ? VAL A 18 ? THR B 12 VAL B 17 AA1 2 MET A 2 ? LYS A 7 ? MET B 1 LYS B 6 AA1 3 THR A 67 ? LEU A 72 ? THR B 66 LEU B 71 AA1 4 GLN A 42 ? PHE A 46 ? GLN B 41 PHE B 45 AA1 5 LYS A 49 ? GLN A 50 ? LYS B 48 GLN B 49 # 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 ILE A 14 ? O ILE B 13 N VAL A 6 ? N VAL B 5 AA1 2 3 N PHE A 5 ? N PHE B 4 O LEU A 68 ? O LEU B 67 AA1 3 4 O VAL A 71 ? O VAL B 70 N ARG A 43 ? N ARG B 42 AA1 4 5 N PHE A 46 ? N PHE B 45 O LYS A 49 ? O LYS B 48 # 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 B AR6 101 ? 12 'binding site for residue AR6 B 101' AC2 Software B ZN 102 ? 5 'binding site for residue ZN B 102' AC3 Software B MG 103 ? 4 'binding site for residue MG B 103' AC4 Software B MG 104 ? 4 'binding site for residue MG B 104' # 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 12 PHE A 5 ? PHE B 4 . ? 1_555 ? 2 AC1 12 LYS A 7 ? LYS B 6 . ? 18_545 ? 3 AC1 12 LYS A 7 ? LYS B 6 . ? 1_555 ? 4 AC1 12 GLY A 11 ? GLY B 10 . ? 18_545 ? 5 AC1 12 ASN A 26 ? ASN B 25 . ? 21_455 ? 6 AC1 12 ALA A 29 ? ALA B 28 . ? 21_455 ? 7 AC1 12 LYS A 30 ? LYS B 29 . ? 21_455 ? 8 AC1 12 GLN A 32 ? GLN B 31 . ? 21_455 ? 9 AC1 12 ASP A 33 ? ASP B 32 . ? 21_455 ? 10 AC1 12 GLU A 65 ? GLU B 64 . ? 1_555 ? 11 AC1 12 THR A 67 ? THR B 66 . ? 1_555 ? 12 AC1 12 MG E . ? MG B 104 . ? 21_455 ? 13 AC2 5 GLU A 25 ? GLU B 24 . ? 1_555 ? 14 AC2 5 ASP A 40 ? ASP B 39 . ? 14_445 ? 15 AC2 5 ASP A 53 ? ASP B 52 . ? 1_555 ? 16 AC2 5 HOH F . ? HOH B 204 . ? 1_555 ? 17 AC2 5 HOH F . ? HOH B 211 . ? 1_555 ? 18 AC3 4 GLU A 19 ? GLU B 18 . ? 1_555 ? 19 AC3 4 HIS A 69 ? HIS B 68 . ? 23_545 ? 20 AC3 4 HOH F . ? HOH B 203 . ? 1_555 ? 21 AC3 4 HOH F . ? HOH B 208 . ? 1_555 ? 22 AC4 4 ASP A 22 ? ASP B 21 . ? 1_555 ? 23 AC4 4 LYS A 30 ? LYS B 29 . ? 1_555 ? 24 AC4 4 AR6 B . ? AR6 B 101 . ? 23_545 ? 25 AC4 4 HOH F . ? HOH B 220 . ? 1_555 ? # _atom_sites.entry_id 6K2U _atom_sites.fract_transf_matrix[1][1] 0.009850 _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] 0.009850 _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] 0.009850 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C MG N O P S ZN # 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 0 0 SER SER B . n A 1 2 MET 2 1 1 MET MET B . n A 1 3 GLN 3 2 2 GLN GLN B . n A 1 4 ILE 4 3 3 ILE ILE B . n A 1 5 PHE 5 4 4 PHE PHE B . n A 1 6 VAL 6 5 5 VAL VAL B . n A 1 7 LYS 7 6 6 LYS LYS B . n A 1 8 THR 8 7 7 THR THR B . n A 1 9 LEU 9 8 8 LEU LEU B . n A 1 10 THR 10 9 9 THR THR B . n A 1 11 GLY 11 10 10 GLY GLY B . n A 1 12 LYS 12 11 11 LYS LYS B . n A 1 13 THR 13 12 12 THR THR B . n A 1 14 ILE 14 13 13 ILE ILE B . n A 1 15 THR 15 14 14 THR THR B . n A 1 16 LEU 16 15 15 LEU LEU B . n A 1 17 GLU 17 16 16 GLU GLU B . n A 1 18 VAL 18 17 17 VAL VAL B . n A 1 19 GLU 19 18 18 GLU GLU B . n A 1 20 PRO 20 19 19 PRO PRO B . n A 1 21 SER 21 20 20 SER SER B . n A 1 22 ASP 22 21 21 ASP ASP B . n A 1 23 THR 23 22 22 THR THR B . n A 1 24 ILE 24 23 23 ILE ILE B . n A 1 25 GLU 25 24 24 GLU GLU B . n A 1 26 ASN 26 25 25 ASN ASN B . n A 1 27 VAL 27 26 26 VAL VAL B . n A 1 28 LYS 28 27 27 LYS LYS B . n A 1 29 ALA 29 28 28 ALA ALA B . n A 1 30 LYS 30 29 29 LYS LYS B . n A 1 31 ILE 31 30 30 ILE ILE B . n A 1 32 GLN 32 31 31 GLN GLN B . n A 1 33 ASP 33 32 32 ASP ASP B . n A 1 34 LYS 34 33 33 LYS LYS B . n A 1 35 GLU 35 34 34 GLU GLU B . n A 1 36 GLY 36 35 35 GLY GLY B . n A 1 37 ILE 37 36 36 ILE ILE B . n A 1 38 PRO 38 37 37 PRO PRO B . n A 1 39 PRO 39 38 38 PRO PRO B . n A 1 40 ASP 40 39 39 ASP ASP B . n A 1 41 GLN 41 40 40 GLN GLN B . n A 1 42 GLN 42 41 41 GLN GLN B . n A 1 43 ARG 43 42 42 ARG ARG B . n A 1 44 LEU 44 43 43 LEU LEU B . n A 1 45 ILE 45 44 44 ILE ILE B . n A 1 46 PHE 46 45 45 PHE PHE B . n A 1 47 ALA 47 46 46 ALA ALA B . n A 1 48 GLY 48 47 47 GLY GLY B . n A 1 49 LYS 49 48 48 LYS LYS B . n A 1 50 GLN 50 49 49 GLN GLN B . n A 1 51 LEU 51 50 50 LEU LEU B . n A 1 52 GLU 52 51 51 GLU GLU B . n A 1 53 ASP 53 52 52 ASP ASP B . n A 1 54 GLY 54 53 53 GLY GLY B . n A 1 55 ARG 55 54 54 ARG ARG B . n A 1 56 THR 56 55 55 THR THR B . n A 1 57 LEU 57 56 56 LEU LEU B . n A 1 58 SER 58 57 57 SER SER B . n A 1 59 ASP 59 58 58 ASP ASP B . n A 1 60 TYR 60 59 59 TYR TYR B . n A 1 61 ASN 61 60 60 ASN ASN B . n A 1 62 ILE 62 61 61 ILE ILE B . n A 1 63 GLN 63 62 62 GLN GLN B . n A 1 64 LYS 64 63 63 LYS LYS B . n A 1 65 GLU 65 64 64 GLU GLU B . n A 1 66 SER 66 65 65 SER SER B . n A 1 67 THR 67 66 66 THR THR B . n A 1 68 LEU 68 67 67 LEU LEU B . n A 1 69 HIS 69 68 68 HIS HIS B . n A 1 70 LEU 70 69 69 LEU LEU B . n A 1 71 VAL 71 70 70 VAL VAL B . n A 1 72 LEU 72 71 71 LEU LEU B . n A 1 73 ARG 73 72 72 ARG ARG B . n A 1 74 LEU 74 73 ? ? ? B . n A 1 75 ARG 75 74 ? ? ? B . n A 1 76 GLY 76 75 ? ? ? B . n A 1 77 GLY 77 76 ? ? ? B . 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 AR6 1 101 81 AR6 AR6 B . C 3 ZN 1 102 1 ZN ZN B . D 4 MG 1 103 2 MG MG B . E 4 MG 1 104 3 MG MG B . F 5 HOH 1 201 1 HOH HOH B . F 5 HOH 2 202 14 HOH HOH B . F 5 HOH 3 203 7 HOH HOH B . F 5 HOH 4 204 3 HOH HOH B . F 5 HOH 5 205 4 HOH HOH B . F 5 HOH 6 206 12 HOH HOH B . F 5 HOH 7 207 13 HOH HOH B . F 5 HOH 8 208 2 HOH HOH B . F 5 HOH 9 209 20 HOH HOH B . F 5 HOH 10 210 9 HOH HOH B . F 5 HOH 11 211 11 HOH HOH B . F 5 HOH 12 212 17 HOH HOH B . F 5 HOH 13 213 19 HOH HOH B . F 5 HOH 14 214 10 HOH HOH B . F 5 HOH 15 215 5 HOH HOH B . F 5 HOH 16 216 16 HOH HOH B . F 5 HOH 17 217 15 HOH HOH B . F 5 HOH 18 218 8 HOH HOH B . F 5 HOH 19 219 18 HOH HOH B . F 5 HOH 20 220 6 HOH HOH B . # _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,E,F # 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)' 90 ? 1 MORE -24 ? 1 'SSA (A^2)' 4700 ? # _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_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 OE1 ? A GLU 19 ? B GLU 18 ? 1_555 MG ? D MG . ? B MG 103 ? 1_555 OE2 ? A GLU 19 ? B GLU 18 ? 1_555 61.7 ? 2 OE1 ? A GLU 25 ? B GLU 24 ? 1_555 ZN ? C ZN . ? B ZN 102 ? 1_555 OD2 ? A ASP 53 ? B ASP 52 ? 1_555 96.1 ? 3 OE1 ? A GLU 25 ? B GLU 24 ? 1_555 ZN ? C ZN . ? B ZN 102 ? 1_555 OD1 ? A ASP 40 ? B ASP 39 ? 1_555 125.7 ? 4 OD2 ? A ASP 53 ? B ASP 52 ? 1_555 ZN ? C ZN . ? B ZN 102 ? 1_555 OD1 ? A ASP 40 ? B ASP 39 ? 1_555 118.9 ? 5 OE1 ? A GLU 25 ? B GLU 24 ? 1_555 ZN ? C ZN . ? B ZN 102 ? 1_555 OD2 ? A ASP 40 ? B ASP 39 ? 1_555 126.8 ? 6 OD2 ? A ASP 53 ? B ASP 52 ? 1_555 ZN ? C ZN . ? B ZN 102 ? 1_555 OD2 ? A ASP 40 ? B ASP 39 ? 1_555 126.4 ? 7 OD1 ? A ASP 40 ? B ASP 39 ? 1_555 ZN ? C ZN . ? B ZN 102 ? 1_555 OD2 ? A ASP 40 ? B ASP 39 ? 1_555 10.7 ? # 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 2020-03-18 2 'Structure model' 1 1 2020-06-10 # _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.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' # 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' ? ? ? ? ? ? ? ? ? ? ? SCALEPACK ? ? ? 715.5 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.14_3228 2 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.24 3 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? 715.5 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.14_3228 5 # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 CB _pdbx_validate_rmsd_angle.auth_asym_id_1 B _pdbx_validate_rmsd_angle.auth_comp_id_1 ASP _pdbx_validate_rmsd_angle.auth_seq_id_1 32 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 CG _pdbx_validate_rmsd_angle.auth_asym_id_2 B _pdbx_validate_rmsd_angle.auth_comp_id_2 ASP _pdbx_validate_rmsd_angle.auth_seq_id_2 32 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 OD1 _pdbx_validate_rmsd_angle.auth_asym_id_3 B _pdbx_validate_rmsd_angle.auth_comp_id_3 ASP _pdbx_validate_rmsd_angle.auth_seq_id_3 32 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 112.81 _pdbx_validate_rmsd_angle.angle_target_value 118.30 _pdbx_validate_rmsd_angle.angle_deviation -5.49 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.90 _pdbx_validate_rmsd_angle.linker_flag N # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id ASP _pdbx_validate_torsion.auth_asym_id B _pdbx_validate_torsion.auth_seq_id 58 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -52.76 _pdbx_validate_torsion.psi -9.91 # 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 B LYS 48 ? CG ? A LYS 49 CG 2 1 Y 1 B LYS 48 ? CD ? A LYS 49 CD 3 1 Y 1 B LYS 48 ? CE ? A LYS 49 CE 4 1 Y 1 B LYS 48 ? NZ ? A LYS 49 NZ 5 1 Y 1 B ARG 54 ? NE ? A ARG 55 NE 6 1 Y 1 B ARG 54 ? CZ ? A ARG 55 CZ 7 1 Y 1 B ARG 54 ? NH1 ? A ARG 55 NH1 8 1 Y 1 B ARG 54 ? NH2 ? A ARG 55 NH2 9 1 Y 1 B LYS 63 ? CG ? A LYS 64 CG 10 1 Y 1 B LYS 63 ? CD ? A LYS 64 CD 11 1 Y 1 B LYS 63 ? CE ? A LYS 64 CE 12 1 Y 1 B LYS 63 ? NZ ? A LYS 64 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 B LEU 73 ? A LEU 74 2 1 Y 1 B ARG 74 ? A ARG 75 3 1 Y 1 B GLY 75 ? A GLY 76 4 1 Y 1 B GLY 76 ? A GLY 77 # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'National Natural Science Foundation of China' China 81530068 1 'National Natural Science Foundation of China' China 81322024 2 'National Natural Science Foundation of China' China 31370722 3 'National Natural Science Foundation of China' China 81561130162 4 'National Natural Science Foundation of China' China 81501717 5 'Ministry of Science and Technology (China)' China 2017YFA0503900 6 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id AR6 _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id AR6 _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 ;[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE ; AR6 3 'ZINC ION' ZN 4 'MAGNESIUM ION' MG 5 water HOH # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? #