data_5QXM # _entry.id 5QXM # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.370 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 5QXM pdb_00005qxm 10.2210/pdb5qxm/pdb WWPDB D_1001402443 ? ? # _pdbx_database_status.entry_id 5QXM _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.recvd_initial_deposition_date 2020-02-11 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Snee, M.' 1 'Talon, R.' 2 'Fowley, D.' 3 'Collins, P.' 4 'Nelson, A.' 5 'Arrowsmith, C.H.' 6 'Bountra, C.' 7 'Edwards, A.' 8 'Von-Delft, F.' 9 # _citation.id primary _citation.title 'PanDDA analysis group deposition - Bromodomain of human ATAD2 fragment screening' _citation.journal_abbrev 'To Be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.identifier_ORCID _citation_author.ordinal primary 'Snee, M.' ? 1 primary 'Talon, R.' ? 2 primary 'Fowley, D.' ? 3 primary 'Collins, P.' ? 4 primary 'Nelson, A.' ? 5 primary 'Arrowsmith, C.H.' ? 6 primary 'Bountra, C.' ? 7 primary 'Edwards, A.' ? 8 primary 'Von-Delft, F.' ? 9 # _cell.entry_id 5QXM _cell.length_a 80.769 _cell.length_b 80.769 _cell.length_c 140.797 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 120.000 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5QXM _symmetry.space_group_name_H-M 'P 65 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 # 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 'ATPase family AAA domain-containing protein 2' 15512.562 1 3.6.1.3 ? ? ? 2 non-polymer syn 'SULFATE ION' 96.063 2 ? ? ? ? 3 non-polymer syn 1,2-ETHANEDIOL 62.068 6 ? ? ? ? 4 non-polymer syn 'cyclobutyl[(3aS,4R,5R,7S,8aS)-4,5-dihydroxyhexahydro-1H-3a,7-epoxycyclohepta[c]pyrrol-2(3H)-yl]methanone' 267.321 1 ? ? ? ? 5 water nat water 18.015 221 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'AAA nuclear coregulator cancer-associated protein,ANCCA' # _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 ;SMQEEDTFRELRIFLRNVTHRLAIDKRFRVFTKPVDPDEVPDYRTVIKEPMDLSSVISKIDLHKYLTVKDYLRDIDLICS NALEYNPDRDPGDRLIRHRACALRDTAYAIIKEELDEDFEQLCEEIQESR ; _entity_poly.pdbx_seq_one_letter_code_can ;SMQEEDTFRELRIFLRNVTHRLAIDKRFRVFTKPVDPDEVPDYRTVIKEPMDLSSVISKIDLHKYLTVKDYLRDIDLICS NALEYNPDRDPGDRLIRHRACALRDTAYAIIKEELDEDFEQLCEEIQESR ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 SER n 1 2 MET n 1 3 GLN n 1 4 GLU n 1 5 GLU n 1 6 ASP n 1 7 THR n 1 8 PHE n 1 9 ARG n 1 10 GLU n 1 11 LEU n 1 12 ARG n 1 13 ILE n 1 14 PHE n 1 15 LEU n 1 16 ARG n 1 17 ASN n 1 18 VAL n 1 19 THR n 1 20 HIS n 1 21 ARG n 1 22 LEU n 1 23 ALA n 1 24 ILE n 1 25 ASP n 1 26 LYS n 1 27 ARG n 1 28 PHE n 1 29 ARG n 1 30 VAL n 1 31 PHE n 1 32 THR n 1 33 LYS n 1 34 PRO n 1 35 VAL n 1 36 ASP n 1 37 PRO n 1 38 ASP n 1 39 GLU n 1 40 VAL n 1 41 PRO n 1 42 ASP n 1 43 TYR n 1 44 ARG n 1 45 THR n 1 46 VAL n 1 47 ILE n 1 48 LYS n 1 49 GLU n 1 50 PRO n 1 51 MET n 1 52 ASP n 1 53 LEU n 1 54 SER n 1 55 SER n 1 56 VAL n 1 57 ILE n 1 58 SER n 1 59 LYS n 1 60 ILE n 1 61 ASP n 1 62 LEU n 1 63 HIS n 1 64 LYS n 1 65 TYR n 1 66 LEU n 1 67 THR n 1 68 VAL n 1 69 LYS n 1 70 ASP n 1 71 TYR n 1 72 LEU n 1 73 ARG n 1 74 ASP n 1 75 ILE n 1 76 ASP n 1 77 LEU n 1 78 ILE n 1 79 CYS n 1 80 SER n 1 81 ASN n 1 82 ALA n 1 83 LEU n 1 84 GLU n 1 85 TYR n 1 86 ASN n 1 87 PRO n 1 88 ASP n 1 89 ARG n 1 90 ASP n 1 91 PRO n 1 92 GLY n 1 93 ASP n 1 94 ARG n 1 95 LEU n 1 96 ILE n 1 97 ARG n 1 98 HIS n 1 99 ARG n 1 100 ALA n 1 101 CYS n 1 102 ALA n 1 103 LEU n 1 104 ARG n 1 105 ASP n 1 106 THR n 1 107 ALA n 1 108 TYR n 1 109 ALA n 1 110 ILE n 1 111 ILE n 1 112 LYS n 1 113 GLU n 1 114 GLU n 1 115 LEU n 1 116 ASP n 1 117 GLU n 1 118 ASP n 1 119 PHE n 1 120 GLU n 1 121 GLN n 1 122 LEU n 1 123 CYS n 1 124 GLU n 1 125 GLU n 1 126 ILE n 1 127 GLN n 1 128 GLU n 1 129 SER n 1 130 ARG 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 130 _entity_src_gen.gene_src_common_name Human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'ATAD2, L16, PRO2000' _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 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code ATAD2_HUMAN _struct_ref.pdbx_db_accession Q6PL18 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;QEEDTFRELRIFLRNVTHRLAIDKRFRVFTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNA LEYNPDRDPGDRLIRHRACALRDTAYAIIKEELDEDFEQLCEEIQESR ; _struct_ref.pdbx_align_begin 981 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 5QXM _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 3 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 130 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q6PL18 _struct_ref_seq.db_align_beg 981 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 1108 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 981 _struct_ref_seq.pdbx_auth_seq_align_end 1108 # 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 5QXM SER A 1 ? UNP Q6PL18 ? ? 'expression tag' 979 1 1 5QXM MET A 2 ? UNP Q6PL18 ? ? 'expression tag' 980 2 1 5QXM ARG A 44 ? UNP Q6PL18 VAL 1022 conflict 1022 3 1 5QXM GLU A 49 ? UNP Q6PL18 GLN 1027 conflict 1027 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 EDO non-polymer . 1,2-ETHANEDIOL 'ETHYLENE GLYCOL' 'C2 H6 O2' 62.068 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 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 RHJ non-polymer . 'cyclobutyl[(3aS,4R,5R,7S,8aS)-4,5-dihydroxyhexahydro-1H-3a,7-epoxycyclohepta[c]pyrrol-2(3H)-yl]methanone' ? 'C14 H21 N O4' 267.321 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 SO4 non-polymer . 'SULFATE ION' ? 'O4 S -2' 96.063 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.crystals_number 1 _exptl.entry_id 5QXM _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.pdbx_mosaicity 0.050 _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.density_Matthews 4.2 _exptl_crystal.density_diffrn ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_percent_sol 70.7 _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pH 5.5 _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details '1.6M Ammonium Sulfate, 0.1M bis-tris pH 5.5' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.crystal_id 1 _diffrn.ambient_temp_details ? # _diffrn_detector.detector PIXEL _diffrn_detector.type 'DECTRIS PILATUS 6M' _diffrn_detector.pdbx_collection_date 2016-04-23 _diffrn_detector.diffrn_id 1 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_monochromatic_or_laue_m_l ? _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.92819 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'DIAMOND BEAMLINE I04-1' _diffrn_source.pdbx_wavelength_list 0.92819 _diffrn_source.pdbx_synchrotron_site Diamond _diffrn_source.pdbx_synchrotron_beamline I04-1 _diffrn_source.pdbx_wavelength ? # _reflns.entry_id 5QXM _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 28.160 _reflns.d_resolution_high 1.500 _reflns.number_obs 44064 _reflns.number_all ? _reflns.percent_possible_obs 99.700 _reflns.pdbx_Rmerge_I_obs 0.074 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 26.000 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 19.400 _reflns.pdbx_Rrim_I_all 0.076 _reflns.pdbx_Rpim_I_all 0.017 _reflns.pdbx_CC_half 1.000 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_number_measured_all 853799 _reflns.pdbx_scaling_rejects 0 _reflns.pdbx_chi_squared ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.details ? # loop_ _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_ordinal _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.pdbx_rejects _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.pdbx_netI_over_sigmaI_obs _reflns_shell.number_possible _reflns_shell.number_unique_all _reflns_shell.Rmerge_F_all _reflns_shell.Rmerge_F_obs _reflns_shell.Rmerge_I_all _reflns_shell.meanI_over_sigI_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_Rrim_I_all _reflns_shell.pdbx_Rpim_I_all _reflns_shell.pdbx_CC_half 1 1 1.500 1.540 ? 58566 ? ? 0.810 ? ? ? 19.000 ? 4.000 ? 3079 ? ? ? ? 96.400 0.832 0.187 0.912 1 2 6.710 28.160 ? 10483 ? ? 0.032 ? ? ? 17.400 ? 81.600 ? 601 ? ? ? ? 98.700 0.033 0.008 1.000 # _refine.entry_id 5QXM _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_d_res_high 1.5000 _refine.ls_d_res_low 28.0600 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.6900 _refine.ls_number_reflns_obs 41753 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.ls_matrix_type ? _refine.pdbx_R_Free_selection_details RANDOM _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : REFINED INDIVIDUALLY' _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1648 _refine.ls_R_factor_R_work 0.1641 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.1786 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 5.1000 _refine.ls_number_reflns_R_free 2240 _refine.ls_number_reflns_R_work ? _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 23.7640 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] 0.2000 _refine.aniso_B[2][2] 0.2000 _refine.aniso_B[3][3] -0.6300 _refine.aniso_B[1][2] 0.1000 _refine.aniso_B[1][3] -0.0000 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc 0.9690 _refine.correlation_coeff_Fo_to_Fc_free 0.9660 _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.overall_SU_R_free ? _refine.pdbx_overall_ESU_R 0.0650 _refine.pdbx_overall_ESU_R_Free 0.0630 _refine.overall_SU_ML 0.0410 _refine.overall_SU_B 1.1000 _refine.solvent_model_details MASK _refine.pdbx_solvent_vdw_probe_radii 1.2000 _refine.pdbx_solvent_ion_probe_radii 0.8000 _refine.pdbx_solvent_shrinkage_radii 0.8000 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model 3DAI _refine.pdbx_method_to_determine_struct 'FOURIER SYNTHESIS' _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 94.740 _refine.B_iso_min 9.840 _refine.pdbx_overall_phase_error ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_R_factor_R_free_error_details ? # _refine_hist.cycle_id final _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.d_res_high 1.5000 _refine_hist.d_res_low 28.0600 _refine_hist.pdbx_number_atoms_ligand 53 _refine_hist.number_atoms_solvent 221 _refine_hist.number_atoms_total 1358 _refine_hist.pdbx_number_residues_total 130 _refine_hist.pdbx_B_iso_mean_ligand 36.06 _refine_hist.pdbx_B_iso_mean_solvent 35.31 _refine_hist.pdbx_number_atoms_protein 1084 _refine_hist.pdbx_number_atoms_nucleic_acid 0 # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' r_bond_refined_d 3088 0.014 0.016 ? ? 'X-RAY DIFFRACTION' r_bond_other_d 1819 0.001 0.017 ? ? 'X-RAY DIFFRACTION' r_angle_refined_deg 2825 1.991 1.716 ? ? 'X-RAY DIFFRACTION' r_angle_other_deg 4294 1.402 1.636 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg 274 5.164 5.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_2_deg 121 29.420 22.231 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg 346 14.289 15.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_4_deg 19 14.216 15.000 ? ? 'X-RAY DIFFRACTION' r_chiral_restr 264 0.097 0.200 ? ? 'X-RAY DIFFRACTION' r_gen_planes_refined 2467 0.010 0.020 ? ? 'X-RAY DIFFRACTION' r_gen_planes_other 424 0.004 0.020 ? ? 'X-RAY DIFFRACTION' r_mcbond_it 1412 1.612 2.101 ? ? 'X-RAY DIFFRACTION' r_mcbond_other 1342 1.636 2.053 ? ? 'X-RAY DIFFRACTION' r_mcangle_it 1252 3.226 2.980 ? ? # _refine_ls_shell.d_res_high 1.5000 _refine_ls_shell.d_res_low 1.5390 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 96.2800 _refine_ls_shell.number_reflns_R_work 2892 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.2200 _refine_ls_shell.R_factor_R_free 0.2350 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 184 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 3076 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 5QXM _struct.title 'PanDDA analysis group deposition -- Crystal Structure of ATAD2 in complex with DF789' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 5QXM _struct_keywords.text 'SGC - Diamond I04-1 fragment screening, PanDDA, XChemExplorer, HYDROLASE-HYDROLASE INHIBITOR complex' _struct_keywords.pdbx_keywords 'HYDROLASE/HYDROLASE INHIBITOR' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 2 ? D N N 3 ? E N N 3 ? F N N 3 ? G N N 4 ? H N N 3 ? I N N 3 ? J N N 3 ? K 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 SER A 1 ? ILE A 24 ? SER A 979 ILE A 1002 1 ? 24 HELX_P HELX_P2 AA2 ASP A 25 ? THR A 32 ? ASP A 1003 THR A 1010 5 ? 8 HELX_P HELX_P3 AA3 ASP A 42 ? ILE A 47 ? ASP A 1020 ILE A 1025 1 ? 6 HELX_P HELX_P4 AA4 ASP A 52 ? LEU A 62 ? ASP A 1030 LEU A 1040 1 ? 11 HELX_P HELX_P5 AA5 THR A 67 ? ASN A 86 ? THR A 1045 ASN A 1064 1 ? 20 HELX_P HELX_P6 AA6 ASP A 90 ? LEU A 115 ? ASP A 1068 LEU A 1093 1 ? 26 HELX_P HELX_P7 AA7 ASP A 116 ? SER A 129 ? ASP A 1094 SER A 1107 1 ? 14 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A SO4 1201 ? 8 'binding site for residue SO4 A 1201' AC2 Software A SO4 1202 ? 8 'binding site for residue SO4 A 1202' AC3 Software A EDO 1203 ? 4 'binding site for residue EDO A 1203' AC4 Software A EDO 1204 ? 4 'binding site for residue EDO A 1204' AC5 Software A EDO 1205 ? 5 'binding site for residue EDO A 1205' AC6 Software A RHJ 1206 ? 7 'binding site for residue RHJ A 1206' AC7 Software A EDO 1207 ? 6 'binding site for residue EDO A 1207' AC8 Software A EDO 1208 ? 2 'binding site for residue EDO A 1208' AC9 Software A EDO 1209 ? 6 'binding site for residue EDO A 1209' # 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 8 ARG A 9 ? ARG A 987 . ? 6_654 ? 2 AC1 8 ARG A 12 ? ARG A 990 . ? 6_654 ? 3 AC1 8 ARG A 16 ? ARG A 994 . ? 6_654 ? 4 AC1 8 ARG A 89 ? ARG A 1067 . ? 1_555 ? 5 AC1 8 ARG A 94 ? ARG A 1072 . ? 1_555 ? 6 AC1 8 HOH K . ? HOH A 1304 . ? 1_555 ? 7 AC1 8 HOH K . ? HOH A 1351 . ? 1_555 ? 8 AC1 8 HOH K . ? HOH A 1419 . ? 1_555 ? 9 AC2 8 LYS A 64 ? LYS A 1042 . ? 12_564 ? 10 AC2 8 LYS A 64 ? LYS A 1042 . ? 1_555 ? 11 AC2 8 HOH K . ? HOH A 1340 . ? 1_555 ? 12 AC2 8 HOH K . ? HOH A 1340 . ? 12_564 ? 13 AC2 8 HOH K . ? HOH A 1360 . ? 1_555 ? 14 AC2 8 HOH K . ? HOH A 1360 . ? 12_564 ? 15 AC2 8 HOH K . ? HOH A 1365 . ? 12_564 ? 16 AC2 8 HOH K . ? HOH A 1365 . ? 1_555 ? 17 AC3 4 GLU A 10 ? GLU A 988 . ? 1_555 ? 18 AC3 4 ASP A 116 ? ASP A 1094 . ? 1_555 ? 19 AC3 4 PHE A 119 ? PHE A 1097 . ? 1_555 ? 20 AC3 4 HOH K . ? HOH A 1361 . ? 1_555 ? 21 AC4 4 HIS A 20 ? HIS A 998 . ? 10_665 ? 22 AC4 4 GLU A 113 ? GLU A 1091 . ? 1_555 ? 23 AC4 4 GLU A 114 ? GLU A 1092 . ? 1_555 ? 24 AC4 4 ASP A 116 ? ASP A 1094 . ? 1_555 ? 25 AC5 5 PRO A 50 ? PRO A 1028 . ? 12_564 ? 26 AC5 5 SER A 58 ? SER A 1036 . ? 1_555 ? 27 AC5 5 HOH K . ? HOH A 1326 . ? 1_555 ? 28 AC5 5 HOH K . ? HOH A 1383 . ? 1_555 ? 29 AC5 5 HOH K . ? HOH A 1442 . ? 1_555 ? 30 AC6 7 VAL A 30 ? VAL A 1008 . ? 1_555 ? 31 AC6 7 PHE A 31 ? PHE A 1009 . ? 1_555 ? 32 AC6 7 VAL A 40 ? VAL A 1018 . ? 1_555 ? 33 AC6 7 ASN A 86 ? ASN A 1064 . ? 1_555 ? 34 AC6 7 EDO H . ? EDO A 1207 . ? 1_555 ? 35 AC6 7 EDO J . ? EDO A 1209 . ? 1_555 ? 36 AC6 7 HOH K . ? HOH A 1328 . ? 1_555 ? 37 AC7 6 ASN A 86 ? ASN A 1064 . ? 1_555 ? 38 AC7 6 ASP A 93 ? ASP A 1071 . ? 1_555 ? 39 AC7 6 ILE A 96 ? ILE A 1074 . ? 1_555 ? 40 AC7 6 RHJ G . ? RHJ A 1206 . ? 1_555 ? 41 AC7 6 HOH K . ? HOH A 1331 . ? 1_555 ? 42 AC7 6 HOH K . ? HOH A 1355 . ? 1_555 ? 43 AC8 2 EDO J . ? EDO A 1209 . ? 1_555 ? 44 AC8 2 HOH K . ? HOH A 1330 . ? 1_555 ? 45 AC9 6 VAL A 30 ? VAL A 1008 . ? 1_555 ? 46 AC9 6 ILE A 96 ? ILE A 1074 . ? 1_555 ? 47 AC9 6 ARG A 99 ? ARG A 1077 . ? 1_555 ? 48 AC9 6 RHJ G . ? RHJ A 1206 . ? 1_555 ? 49 AC9 6 EDO I . ? EDO A 1208 . ? 1_555 ? 50 AC9 6 HOH K . ? HOH A 1393 . ? 1_555 ? # _atom_sites.entry_id 5QXM _atom_sites.fract_transf_matrix[1][1] 0.012381 _atom_sites.fract_transf_matrix[1][2] 0.007148 _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] 0.014296 _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] 0.007102 _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 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 SER 1 979 979 SER SER A . n A 1 2 MET 2 980 980 MET MET A . n A 1 3 GLN 3 981 981 GLN GLN A . n A 1 4 GLU 4 982 982 GLU GLU A . n A 1 5 GLU 5 983 983 GLU GLU A . n A 1 6 ASP 6 984 984 ASP ASP A . n A 1 7 THR 7 985 985 THR THR A . n A 1 8 PHE 8 986 986 PHE PHE A . n A 1 9 ARG 9 987 987 ARG ARG A . n A 1 10 GLU 10 988 988 GLU GLU A . n A 1 11 LEU 11 989 989 LEU LEU A . n A 1 12 ARG 12 990 990 ARG ARG A . n A 1 13 ILE 13 991 991 ILE ILE A . n A 1 14 PHE 14 992 992 PHE PHE A . n A 1 15 LEU 15 993 993 LEU LEU A . n A 1 16 ARG 16 994 994 ARG ARG A . n A 1 17 ASN 17 995 995 ASN ASN A . n A 1 18 VAL 18 996 996 VAL VAL A . n A 1 19 THR 19 997 997 THR THR A . n A 1 20 HIS 20 998 998 HIS HIS A . n A 1 21 ARG 21 999 999 ARG ARG A . n A 1 22 LEU 22 1000 1000 LEU LEU A . n A 1 23 ALA 23 1001 1001 ALA ALA A . n A 1 24 ILE 24 1002 1002 ILE ILE A . n A 1 25 ASP 25 1003 1003 ASP ASP A . n A 1 26 LYS 26 1004 1004 LYS LYS A . n A 1 27 ARG 27 1005 1005 ARG ARG A . n A 1 28 PHE 28 1006 1006 PHE PHE A . n A 1 29 ARG 29 1007 1007 ARG ARG A . n A 1 30 VAL 30 1008 1008 VAL VAL A . n A 1 31 PHE 31 1009 1009 PHE PHE A . n A 1 32 THR 32 1010 1010 THR THR A . n A 1 33 LYS 33 1011 1011 LYS LYS A . n A 1 34 PRO 34 1012 1012 PRO PRO A . n A 1 35 VAL 35 1013 1013 VAL VAL A . n A 1 36 ASP 36 1014 1014 ASP ASP A . n A 1 37 PRO 37 1015 1015 PRO PRO A . n A 1 38 ASP 38 1016 1016 ASP ASP A . n A 1 39 GLU 39 1017 1017 GLU GLU A . n A 1 40 VAL 40 1018 1018 VAL VAL A . n A 1 41 PRO 41 1019 1019 PRO PRO A . n A 1 42 ASP 42 1020 1020 ASP ASP A . n A 1 43 TYR 43 1021 1021 TYR TYR A . n A 1 44 ARG 44 1022 1022 ARG ARG A . n A 1 45 THR 45 1023 1023 THR THR A . n A 1 46 VAL 46 1024 1024 VAL VAL A . n A 1 47 ILE 47 1025 1025 ILE ILE A . n A 1 48 LYS 48 1026 1026 LYS LYS A . n A 1 49 GLU 49 1027 1027 GLU GLU A . n A 1 50 PRO 50 1028 1028 PRO PRO A . n A 1 51 MET 51 1029 1029 MET MET A . n A 1 52 ASP 52 1030 1030 ASP ASP A . n A 1 53 LEU 53 1031 1031 LEU LEU A . n A 1 54 SER 54 1032 1032 SER SER A . n A 1 55 SER 55 1033 1033 SER SER A . n A 1 56 VAL 56 1034 1034 VAL VAL A . n A 1 57 ILE 57 1035 1035 ILE ILE A . n A 1 58 SER 58 1036 1036 SER SER A . n A 1 59 LYS 59 1037 1037 LYS LYS A . n A 1 60 ILE 60 1038 1038 ILE ILE A . n A 1 61 ASP 61 1039 1039 ASP ASP A . n A 1 62 LEU 62 1040 1040 LEU LEU A . n A 1 63 HIS 63 1041 1041 HIS HIS A . n A 1 64 LYS 64 1042 1042 LYS LYS A . n A 1 65 TYR 65 1043 1043 TYR TYR A . n A 1 66 LEU 66 1044 1044 LEU LEU A . n A 1 67 THR 67 1045 1045 THR THR A . n A 1 68 VAL 68 1046 1046 VAL VAL A . n A 1 69 LYS 69 1047 1047 LYS LYS A . n A 1 70 ASP 70 1048 1048 ASP ASP A . n A 1 71 TYR 71 1049 1049 TYR TYR A . n A 1 72 LEU 72 1050 1050 LEU LEU A . n A 1 73 ARG 73 1051 1051 ARG ARG A . n A 1 74 ASP 74 1052 1052 ASP ASP A . n A 1 75 ILE 75 1053 1053 ILE ILE A . n A 1 76 ASP 76 1054 1054 ASP ASP A . n A 1 77 LEU 77 1055 1055 LEU LEU A . n A 1 78 ILE 78 1056 1056 ILE ILE A . n A 1 79 CYS 79 1057 1057 CYS CYS A . n A 1 80 SER 80 1058 1058 SER SER A . n A 1 81 ASN 81 1059 1059 ASN ASN A . n A 1 82 ALA 82 1060 1060 ALA ALA A . n A 1 83 LEU 83 1061 1061 LEU LEU A . n A 1 84 GLU 84 1062 1062 GLU GLU A . n A 1 85 TYR 85 1063 1063 TYR TYR A . n A 1 86 ASN 86 1064 1064 ASN ASN A . n A 1 87 PRO 87 1065 1065 PRO PRO A . n A 1 88 ASP 88 1066 1066 ASP ASP A . n A 1 89 ARG 89 1067 1067 ARG ARG A . n A 1 90 ASP 90 1068 1068 ASP ASP A . n A 1 91 PRO 91 1069 1069 PRO PRO A . n A 1 92 GLY 92 1070 1070 GLY GLY A . n A 1 93 ASP 93 1071 1071 ASP ASP A . n A 1 94 ARG 94 1072 1072 ARG ARG A . n A 1 95 LEU 95 1073 1073 LEU LEU A . n A 1 96 ILE 96 1074 1074 ILE ILE A . n A 1 97 ARG 97 1075 1075 ARG ARG A . n A 1 98 HIS 98 1076 1076 HIS HIS A . n A 1 99 ARG 99 1077 1077 ARG ARG A . n A 1 100 ALA 100 1078 1078 ALA ALA A . n A 1 101 CYS 101 1079 1079 CYS CYS A . n A 1 102 ALA 102 1080 1080 ALA ALA A . n A 1 103 LEU 103 1081 1081 LEU LEU A . n A 1 104 ARG 104 1082 1082 ARG ARG A . n A 1 105 ASP 105 1083 1083 ASP ASP A . n A 1 106 THR 106 1084 1084 THR THR A . n A 1 107 ALA 107 1085 1085 ALA ALA A . n A 1 108 TYR 108 1086 1086 TYR TYR A . n A 1 109 ALA 109 1087 1087 ALA ALA A . n A 1 110 ILE 110 1088 1088 ILE ILE A . n A 1 111 ILE 111 1089 1089 ILE ILE A . n A 1 112 LYS 112 1090 1090 LYS LYS A . n A 1 113 GLU 113 1091 1091 GLU GLU A . n A 1 114 GLU 114 1092 1092 GLU GLU A . n A 1 115 LEU 115 1093 1093 LEU LEU A . n A 1 116 ASP 116 1094 1094 ASP ASP A . n A 1 117 GLU 117 1095 1095 GLU GLU A . n A 1 118 ASP 118 1096 1096 ASP ASP A . n A 1 119 PHE 119 1097 1097 PHE PHE A . n A 1 120 GLU 120 1098 1098 GLU GLU A . n A 1 121 GLN 121 1099 1099 GLN GLN A . n A 1 122 LEU 122 1100 1100 LEU LEU A . n A 1 123 CYS 123 1101 1101 CYS CYS A . n A 1 124 GLU 124 1102 1102 GLU GLU A . n A 1 125 GLU 125 1103 1103 GLU GLU A . n A 1 126 ILE 126 1104 1104 ILE ILE A . n A 1 127 GLN 127 1105 1105 GLN GLN A . n A 1 128 GLU 128 1106 1106 GLU GLU A . n A 1 129 SER 129 1107 1107 SER SER A . n A 1 130 ARG 130 1108 1108 ARG ARG A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 SO4 1 1201 1 SO4 SO4 A . C 2 SO4 1 1202 2 SO4 SO4 A . D 3 EDO 1 1203 3 EDO EDO A . E 3 EDO 1 1204 5 EDO EDO A . F 3 EDO 1 1205 6 EDO EDO A . G 4 RHJ 1 1206 1 RHJ LIG A . H 3 EDO 1 1207 101 EDO EDO A . I 3 EDO 1 1208 101 EDO EDO A . J 3 EDO 1 1209 101 EDO EDO A . K 5 HOH 1 1301 158 HOH HOH A . K 5 HOH 2 1302 184 HOH HOH A . K 5 HOH 3 1303 128 HOH HOH A . K 5 HOH 4 1304 256 HOH HOH A . K 5 HOH 5 1305 134 HOH HOH A . K 5 HOH 6 1306 200 HOH HOH A . K 5 HOH 7 1307 144 HOH HOH A . K 5 HOH 8 1308 111 HOH HOH A . K 5 HOH 9 1309 79 HOH HOH A . K 5 HOH 10 1310 161 HOH HOH A . K 5 HOH 11 1311 87 HOH HOH A . K 5 HOH 12 1312 59 HOH HOH A . K 5 HOH 13 1313 129 HOH HOH A . K 5 HOH 14 1314 118 HOH HOH A . K 5 HOH 15 1315 191 HOH HOH A . K 5 HOH 16 1316 27 HOH HOH A . K 5 HOH 17 1317 88 HOH HOH A . K 5 HOH 18 1318 68 HOH HOH A . K 5 HOH 19 1319 113 HOH HOH A . K 5 HOH 20 1320 106 HOH HOH A . K 5 HOH 21 1321 221 HOH HOH A . K 5 HOH 22 1322 98 HOH HOH A . K 5 HOH 23 1323 194 HOH HOH A . K 5 HOH 24 1324 50 HOH HOH A . K 5 HOH 25 1325 201 HOH HOH A . K 5 HOH 26 1326 23 HOH HOH A . K 5 HOH 27 1327 203 HOH HOH A . K 5 HOH 28 1328 5 HOH HOH A . K 5 HOH 29 1329 28 HOH HOH A . K 5 HOH 30 1330 257 HOH HOH A . K 5 HOH 31 1331 116 HOH HOH A . K 5 HOH 32 1332 109 HOH HOH A . K 5 HOH 33 1333 171 HOH HOH A . K 5 HOH 34 1334 32 HOH HOH A . K 5 HOH 35 1335 56 HOH HOH A . K 5 HOH 36 1336 29 HOH HOH A . K 5 HOH 37 1337 13 HOH HOH A . K 5 HOH 38 1338 9 HOH HOH A . K 5 HOH 39 1339 236 HOH HOH A . K 5 HOH 40 1340 142 HOH HOH A . K 5 HOH 41 1341 25 HOH HOH A . K 5 HOH 42 1342 75 HOH HOH A . K 5 HOH 43 1343 16 HOH HOH A . K 5 HOH 44 1344 80 HOH HOH A . K 5 HOH 45 1345 64 HOH HOH A . K 5 HOH 46 1346 99 HOH HOH A . K 5 HOH 47 1347 77 HOH HOH A . K 5 HOH 48 1348 165 HOH HOH A . K 5 HOH 49 1349 163 HOH HOH A . K 5 HOH 50 1350 17 HOH HOH A . K 5 HOH 51 1351 206 HOH HOH A . K 5 HOH 52 1352 197 HOH HOH A . K 5 HOH 53 1353 189 HOH HOH A . K 5 HOH 54 1354 162 HOH HOH A . K 5 HOH 55 1355 140 HOH HOH A . K 5 HOH 56 1356 31 HOH HOH A . K 5 HOH 57 1357 19 HOH HOH A . K 5 HOH 58 1358 14 HOH HOH A . K 5 HOH 59 1359 61 HOH HOH A . K 5 HOH 60 1360 34 HOH HOH A . K 5 HOH 61 1361 2 HOH HOH A . K 5 HOH 62 1362 172 HOH HOH A . K 5 HOH 63 1363 47 HOH HOH A . K 5 HOH 64 1364 20 HOH HOH A . K 5 HOH 65 1365 132 HOH HOH A . K 5 HOH 66 1366 21 HOH HOH A . K 5 HOH 67 1367 104 HOH HOH A . K 5 HOH 68 1368 33 HOH HOH A . K 5 HOH 69 1369 22 HOH HOH A . K 5 HOH 70 1370 192 HOH HOH A . K 5 HOH 71 1371 24 HOH HOH A . K 5 HOH 72 1372 42 HOH HOH A . K 5 HOH 73 1373 46 HOH HOH A . K 5 HOH 74 1374 131 HOH HOH A . K 5 HOH 75 1375 1 HOH HOH A . K 5 HOH 76 1376 160 HOH HOH A . K 5 HOH 77 1377 141 HOH HOH A . K 5 HOH 78 1378 7 HOH HOH A . K 5 HOH 79 1379 139 HOH HOH A . K 5 HOH 80 1380 43 HOH HOH A . K 5 HOH 81 1381 73 HOH HOH A . K 5 HOH 82 1382 45 HOH HOH A . K 5 HOH 83 1383 76 HOH HOH A . K 5 HOH 84 1384 92 HOH HOH A . K 5 HOH 85 1385 120 HOH HOH A . K 5 HOH 86 1386 89 HOH HOH A . K 5 HOH 87 1387 40 HOH HOH A . K 5 HOH 88 1388 67 HOH HOH A . K 5 HOH 89 1389 107 HOH HOH A . K 5 HOH 90 1390 187 HOH HOH A . K 5 HOH 91 1391 176 HOH HOH A . K 5 HOH 92 1392 70 HOH HOH A . K 5 HOH 93 1393 52 HOH HOH A . K 5 HOH 94 1394 48 HOH HOH A . K 5 HOH 95 1395 54 HOH HOH A . K 5 HOH 96 1396 4 HOH HOH A . K 5 HOH 97 1397 36 HOH HOH A . K 5 HOH 98 1398 105 HOH HOH A . K 5 HOH 99 1399 155 HOH HOH A . K 5 HOH 100 1400 58 HOH HOH A . K 5 HOH 101 1401 154 HOH HOH A . K 5 HOH 102 1402 124 HOH HOH A . K 5 HOH 103 1403 15 HOH HOH A . K 5 HOH 104 1404 85 HOH HOH A . K 5 HOH 105 1405 62 HOH HOH A . K 5 HOH 106 1406 6 HOH HOH A . K 5 HOH 107 1407 12 HOH HOH A . K 5 HOH 108 1408 83 HOH HOH A . K 5 HOH 109 1409 49 HOH HOH A . K 5 HOH 110 1410 30 HOH HOH A . K 5 HOH 111 1411 86 HOH HOH A . K 5 HOH 112 1412 216 HOH HOH A . K 5 HOH 113 1413 102 HOH HOH A . K 5 HOH 114 1414 90 HOH HOH A . K 5 HOH 115 1415 95 HOH HOH A . K 5 HOH 116 1416 101 HOH HOH A . K 5 HOH 117 1417 3 HOH HOH A . K 5 HOH 118 1418 237 HOH HOH A . K 5 HOH 119 1419 130 HOH HOH A . K 5 HOH 120 1420 18 HOH HOH A . K 5 HOH 121 1421 147 HOH HOH A . K 5 HOH 122 1422 100 HOH HOH A . K 5 HOH 123 1423 39 HOH HOH A . K 5 HOH 124 1424 72 HOH HOH A . K 5 HOH 125 1425 246 HOH HOH A . K 5 HOH 126 1426 82 HOH HOH A . K 5 HOH 127 1427 196 HOH HOH A . K 5 HOH 128 1428 26 HOH HOH A . K 5 HOH 129 1429 78 HOH HOH A . K 5 HOH 130 1430 53 HOH HOH A . K 5 HOH 131 1431 207 HOH HOH A . K 5 HOH 132 1432 209 HOH HOH A . K 5 HOH 133 1433 10 HOH HOH A . K 5 HOH 134 1434 190 HOH HOH A . K 5 HOH 135 1435 123 HOH HOH A . K 5 HOH 136 1436 97 HOH HOH A . K 5 HOH 137 1437 11 HOH HOH A . K 5 HOH 138 1438 122 HOH HOH A . K 5 HOH 139 1439 115 HOH HOH A . K 5 HOH 140 1440 234 HOH HOH A . K 5 HOH 141 1441 254 HOH HOH A . K 5 HOH 142 1442 145 HOH HOH A . K 5 HOH 143 1443 243 HOH HOH A . K 5 HOH 144 1444 177 HOH HOH A . K 5 HOH 145 1445 247 HOH HOH A . K 5 HOH 146 1446 240 HOH HOH A . K 5 HOH 147 1447 57 HOH HOH A . K 5 HOH 148 1448 180 HOH HOH A . K 5 HOH 149 1449 230 HOH HOH A . K 5 HOH 150 1450 175 HOH HOH A . K 5 HOH 151 1451 94 HOH HOH A . K 5 HOH 152 1452 93 HOH HOH A . K 5 HOH 153 1453 178 HOH HOH A . K 5 HOH 154 1454 179 HOH HOH A . K 5 HOH 155 1455 38 HOH HOH A . K 5 HOH 156 1456 258 HOH HOH A . K 5 HOH 157 1457 96 HOH HOH A . K 5 HOH 158 1458 199 HOH HOH A . K 5 HOH 159 1459 215 HOH HOH A . K 5 HOH 160 1460 181 HOH HOH A . K 5 HOH 161 1461 188 HOH HOH A . K 5 HOH 162 1462 244 HOH HOH A . K 5 HOH 163 1463 69 HOH HOH A . K 5 HOH 164 1464 164 HOH HOH A . K 5 HOH 165 1465 81 HOH HOH A . K 5 HOH 166 1466 41 HOH HOH A . K 5 HOH 167 1467 167 HOH HOH A . K 5 HOH 168 1468 186 HOH HOH A . K 5 HOH 169 1469 114 HOH HOH A . K 5 HOH 170 1470 152 HOH HOH A . K 5 HOH 171 1471 91 HOH HOH A . K 5 HOH 172 1472 60 HOH HOH A . K 5 HOH 173 1473 150 HOH HOH A . K 5 HOH 174 1474 159 HOH HOH A . K 5 HOH 175 1475 110 HOH HOH A . K 5 HOH 176 1476 217 HOH HOH A . K 5 HOH 177 1477 225 HOH HOH A . K 5 HOH 178 1478 224 HOH HOH A . K 5 HOH 179 1479 220 HOH HOH A . K 5 HOH 180 1480 37 HOH HOH A . K 5 HOH 181 1481 250 HOH HOH A . K 5 HOH 182 1482 135 HOH HOH A . K 5 HOH 183 1483 151 HOH HOH A . K 5 HOH 184 1484 210 HOH HOH A . K 5 HOH 185 1485 205 HOH HOH A . K 5 HOH 186 1486 103 HOH HOH A . K 5 HOH 187 1487 8 HOH HOH A . K 5 HOH 188 1488 112 HOH HOH A . K 5 HOH 189 1489 146 HOH HOH A . K 5 HOH 190 1490 157 HOH HOH A . K 5 HOH 191 1491 84 HOH HOH A . K 5 HOH 192 1492 143 HOH HOH A . K 5 HOH 193 1493 233 HOH HOH A . K 5 HOH 194 1494 125 HOH HOH A . K 5 HOH 195 1495 119 HOH HOH A . K 5 HOH 196 1496 174 HOH HOH A . K 5 HOH 197 1497 66 HOH HOH A . K 5 HOH 198 1498 74 HOH HOH A . K 5 HOH 199 1499 44 HOH HOH A . K 5 HOH 200 1500 71 HOH HOH A . K 5 HOH 201 1501 185 HOH HOH A . K 5 HOH 202 1502 127 HOH HOH A . K 5 HOH 203 1503 149 HOH HOH A . K 5 HOH 204 1504 63 HOH HOH A . K 5 HOH 205 1505 251 HOH HOH A . K 5 HOH 206 1506 35 HOH HOH A . K 5 HOH 207 1507 117 HOH HOH A . K 5 HOH 208 1508 148 HOH HOH A . K 5 HOH 209 1509 137 HOH HOH A . K 5 HOH 210 1510 168 HOH HOH A . K 5 HOH 211 1511 245 HOH HOH A . K 5 HOH 212 1512 211 HOH HOH A . K 5 HOH 213 1513 183 HOH HOH A . K 5 HOH 214 1514 255 HOH HOH A . K 5 HOH 215 1515 249 HOH HOH A . K 5 HOH 216 1516 219 HOH HOH A . K 5 HOH 217 1517 213 HOH HOH A . K 5 HOH 218 1518 121 HOH HOH A . K 5 HOH 219 1519 136 HOH HOH A . K 5 HOH 220 1520 214 HOH HOH A . K 5 HOH 221 1521 204 HOH HOH A . # _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,G,H,I,J,K # _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_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A SO4 1202 ? C SO4 . 2 1 A HOH 1345 ? K HOH . # 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 2020-04-08 2 'Structure model' 2 0 2023-05-31 # _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' 'Database references' 2 2 'Structure model' 'Derived calculations' 3 2 'Structure model' 'Non-polymer description' 4 2 'Structure model' 'Structure summary' # 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' chem_comp 2 2 'Structure model' database_2 3 2 'Structure model' entity 4 2 'Structure model' pdbx_entity_nonpoly # 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' '_chem_comp.formula' 2 2 'Structure model' '_chem_comp.formula_weight' 3 2 'Structure model' '_chem_comp.name' 4 2 'Structure model' '_database_2.pdbx_DOI' 5 2 'Structure model' '_database_2.pdbx_database_accession' 6 2 'Structure model' '_entity.formula_weight' 7 2 'Structure model' '_entity.pdbx_description' 8 2 'Structure model' '_pdbx_entity_nonpoly.name' # _phasing.method MR # loop_ _software.pdbx_ordinal _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id 1 REFMAC 5.8.0238 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 2 Aimless 0.5.23 02/02/16 program 'Phil Evans' ? 'data scaling' http://www.mrc-lmb.cam.ac.uk/harry/pre/aimless.html ? ? 3 PDB_EXTRACT 3.23 'SEP. 23, 2016' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 4 XDS . ? program ? ? 'data reduction' ? ? ? 5 REFMAC . ? program ? ? phasing ? ? ? # _pdbx_entry_details.entry_id 5QXM _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 ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 CD1 _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 ILE _pdbx_validate_close_contact.auth_seq_id_1 1035 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 B _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 1449 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.17 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 CD A GLU 982 ? ? OE2 A GLU 982 ? ? 1.319 1.252 0.067 0.011 N 2 1 CD A GLU 1027 ? ? OE2 A GLU 1027 ? ? 1.322 1.252 0.070 0.011 N 3 1 CD A GLU 1102 ? ? OE2 A GLU 1102 ? ? 1.356 1.252 0.104 0.011 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 NE A ARG 987 ? B CZ A ARG 987 ? B NH1 A ARG 987 ? B 115.24 120.30 -5.06 0.50 N 2 1 NE A ARG 987 ? C CZ A ARG 987 ? C NH1 A ARG 987 ? C 116.65 120.30 -3.65 0.50 N 3 1 NE A ARG 987 ? B CZ A ARG 987 ? B NH2 A ARG 987 ? B 124.70 120.30 4.40 0.50 N 4 1 NE A ARG 987 ? C CZ A ARG 987 ? C NH2 A ARG 987 ? C 123.60 120.30 3.30 0.50 N 5 1 NE A ARG 994 ? ? CZ A ARG 994 ? ? NH1 A ARG 994 ? ? 123.61 120.30 3.31 0.50 N 6 1 NE A ARG 994 ? ? CZ A ARG 994 ? ? NH2 A ARG 994 ? ? 116.53 120.30 -3.77 0.50 N 7 1 NE A ARG 1067 ? ? CZ A ARG 1067 ? ? NH2 A ARG 1067 ? ? 114.65 120.30 -5.65 0.50 N # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id ASN _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 1064 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -114.70 _pdbx_validate_torsion.psi 64.71 # loop_ _pdbx_distant_solvent_atoms.id _pdbx_distant_solvent_atoms.PDB_model_num _pdbx_distant_solvent_atoms.auth_atom_id _pdbx_distant_solvent_atoms.label_alt_id _pdbx_distant_solvent_atoms.auth_asym_id _pdbx_distant_solvent_atoms.auth_comp_id _pdbx_distant_solvent_atoms.auth_seq_id _pdbx_distant_solvent_atoms.PDB_ins_code _pdbx_distant_solvent_atoms.neighbor_macromolecule_distance _pdbx_distant_solvent_atoms.neighbor_ligand_distance 1 1 O ? A HOH 1520 ? 5.87 . 2 1 O ? A HOH 1521 ? 6.52 . # 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 1004 ? CG ? A LYS 26 CG 2 1 Y 1 A LYS 1004 ? CD ? A LYS 26 CD 3 1 Y 1 A LYS 1004 ? CE ? A LYS 26 CE 4 1 Y 1 A LYS 1004 ? NZ ? A LYS 26 NZ # _pdbx_deposit_group.group_id G_1002118 _pdbx_deposit_group.group_description ;Bromodomain of human ATAD2 screened against the Leeds 3D Fragment Library by X-ray Crystallography at the XChem facility of Diamond Light Source beamline I04-1 ; _pdbx_deposit_group.group_title 'PanDDA analysis group deposition - Bromodomain of human ATAD2 fragment screening' _pdbx_deposit_group.group_type 'changed state' # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id RHJ _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id RHJ _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 'SULFATE ION' SO4 3 1,2-ETHANEDIOL EDO 4 'cyclobutyl[(3aS,4R,5R,7S,8aS)-4,5-dihydroxyhexahydro-1H-3a,7-epoxycyclohepta[c]pyrrol-2(3H)-yl]methanone' RHJ 5 water HOH #