data_5S9F # _entry.id 5S9F # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.364 _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 5S9F pdb_00005s9f 10.2210/pdb5s9f/pdb WWPDB D_1001404224 ? ? # _pdbx_database_PDB_obs_spr.id OBSLTE _pdbx_database_PDB_obs_spr.date 2022-12-21 _pdbx_database_PDB_obs_spr.pdb_id 8BW2 _pdbx_database_PDB_obs_spr.replace_pdb_id 5S9F _pdbx_database_PDB_obs_spr.details ? # _pdbx_database_status.entry_id 5S9F _pdbx_database_status.status_code OBS _pdbx_database_status.status_code_sf OBS _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.recvd_initial_deposition_date 2021-01-22 _pdbx_database_status.status_code_nmr_data ? _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 ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Grosjean, H.' 1 ? 'Aimon, A.' 2 ? 'Hassel-Hart , S.' 3 ? 'Krojer, T.' 4 ? 'Talon, R.' 5 ? 'Douangamath, A.' 6 ? 'Koekemoer, L.' 7 ? 'Biggin, P.C.' 8 ? 'Spencer, J.' 9 ? 'von Delft, F.' 10 ? # _citation.id primary _citation.title ;Crystal Structures of the second bromodomain of Pleckstrin homology domain interacting protein (PHIP) in space group C2 soaked with crude reaction mixtures ; _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 'Grosjean, H.' ? 1 primary 'Aimon, A.' ? 2 primary 'Hart , S.' ? 3 primary 'Krojer, T.' ? 4 primary 'Talon, R.' ? 5 primary 'Douangamath, A.' ? 6 primary 'Koekemoer, L.' ? 7 primary 'Biggin, P.C.' ? 8 primary 'Spencer, J.' ? 9 primary 'von Delft, F.' ? 10 # _cell.entry_id 5S9F _cell.length_a 81.552 _cell.length_b 26.886 _cell.length_c 55.610 _cell.angle_alpha 90.000 _cell.angle_beta 100.260 _cell.angle_gamma 90.000 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5S9F _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 # 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 'PH-interacting protein' 17627.859 1 ? ? ? ? 2 non-polymer syn '(2R)-N-(2-methoxyethyl)-2-methyl-4-thiophen-2-ylcarbonyl-piperazine-1-carboxamide' 311.400 1 ? ? ? ? 3 water nat water 18.015 186 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'PHIP,DDB1- and CUL4-associated factor 14,IRS-1 PH domain-binding protein,WD repeat-containing protein 11' # _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 ;MHHHHHHSSGVDLGTENLYFQSMSYDIQAWKKQCEELLNLIFQCEDSEPFRQPVDLLEYPDYRDIIDTPMDFATVRETLE AGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISSVLSDYKSALRFHKRNTITKR ; _entity_poly.pdbx_seq_one_letter_code_can ;MHHHHHHSSGVDLGTENLYFQSMSYDIQAWKKQCEELLNLIFQCEDSEPFRQPVDLLEYPDYRDIIDTPMDFATVRETLE AGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISSVLSDYKSALRFHKRNTITKR ; _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 MET n 1 2 HIS n 1 3 HIS n 1 4 HIS n 1 5 HIS n 1 6 HIS n 1 7 HIS n 1 8 SER n 1 9 SER n 1 10 GLY n 1 11 VAL n 1 12 ASP n 1 13 LEU n 1 14 GLY n 1 15 THR n 1 16 GLU n 1 17 ASN n 1 18 LEU n 1 19 TYR n 1 20 PHE n 1 21 GLN n 1 22 SER n 1 23 MET n 1 24 SER n 1 25 TYR n 1 26 ASP n 1 27 ILE n 1 28 GLN n 1 29 ALA n 1 30 TRP n 1 31 LYS n 1 32 LYS n 1 33 GLN n 1 34 CYS n 1 35 GLU n 1 36 GLU n 1 37 LEU n 1 38 LEU n 1 39 ASN n 1 40 LEU n 1 41 ILE n 1 42 PHE n 1 43 GLN n 1 44 CYS n 1 45 GLU n 1 46 ASP n 1 47 SER n 1 48 GLU n 1 49 PRO n 1 50 PHE n 1 51 ARG n 1 52 GLN n 1 53 PRO n 1 54 VAL n 1 55 ASP n 1 56 LEU n 1 57 LEU n 1 58 GLU n 1 59 TYR n 1 60 PRO n 1 61 ASP n 1 62 TYR n 1 63 ARG n 1 64 ASP n 1 65 ILE n 1 66 ILE n 1 67 ASP n 1 68 THR n 1 69 PRO n 1 70 MET n 1 71 ASP n 1 72 PHE n 1 73 ALA n 1 74 THR n 1 75 VAL n 1 76 ARG n 1 77 GLU n 1 78 THR n 1 79 LEU n 1 80 GLU n 1 81 ALA n 1 82 GLY n 1 83 ASN n 1 84 TYR n 1 85 GLU n 1 86 SER n 1 87 PRO n 1 88 MET n 1 89 GLU n 1 90 LEU n 1 91 CYS n 1 92 LYS n 1 93 ASP n 1 94 VAL n 1 95 ARG n 1 96 LEU n 1 97 ILE n 1 98 PHE n 1 99 SER n 1 100 ASN n 1 101 SER n 1 102 LYS n 1 103 ALA n 1 104 TYR n 1 105 THR n 1 106 PRO n 1 107 SER n 1 108 LYS n 1 109 ARG n 1 110 SER n 1 111 ARG n 1 112 ILE n 1 113 TYR n 1 114 SER n 1 115 MET n 1 116 SER n 1 117 LEU n 1 118 ARG n 1 119 LEU n 1 120 SER n 1 121 ALA n 1 122 PHE n 1 123 PHE n 1 124 GLU n 1 125 GLU n 1 126 HIS n 1 127 ILE n 1 128 SER n 1 129 SER n 1 130 VAL n 1 131 LEU n 1 132 SER n 1 133 ASP n 1 134 TYR n 1 135 LYS n 1 136 SER n 1 137 ALA n 1 138 LEU n 1 139 ARG n 1 140 PHE n 1 141 HIS n 1 142 LYS n 1 143 ARG n 1 144 ASN n 1 145 THR n 1 146 ILE n 1 147 THR n 1 148 LYS n 1 149 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 149 _entity_src_gen.gene_src_common_name Human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'PHIP, DCAF14, WDR11' _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 PHIP_HUMAN _struct_ref.pdbx_db_accession Q8WWQ0 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;SYDIQAWKKQCEELLNLIFQCEDSEPFRQPVDLLEYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKA YTPSKRSRIYSMSLRLSAFFEEHISSVLSDYKSALRFHKRNTITKR ; _struct_ref.pdbx_align_begin 1315 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 5S9F _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 24 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 149 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q8WWQ0 _struct_ref_seq.db_align_beg 1315 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 1440 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1315 _struct_ref_seq.pdbx_auth_seq_align_end 1440 # 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 5S9F MET A 1 ? UNP Q8WWQ0 ? ? 'initiating methionine' 1292 1 1 5S9F HIS A 2 ? UNP Q8WWQ0 ? ? 'expression tag' 1293 2 1 5S9F HIS A 3 ? UNP Q8WWQ0 ? ? 'expression tag' 1294 3 1 5S9F HIS A 4 ? UNP Q8WWQ0 ? ? 'expression tag' 1295 4 1 5S9F HIS A 5 ? UNP Q8WWQ0 ? ? 'expression tag' 1296 5 1 5S9F HIS A 6 ? UNP Q8WWQ0 ? ? 'expression tag' 1297 6 1 5S9F HIS A 7 ? UNP Q8WWQ0 ? ? 'expression tag' 1298 7 1 5S9F SER A 8 ? UNP Q8WWQ0 ? ? 'expression tag' 1299 8 1 5S9F SER A 9 ? UNP Q8WWQ0 ? ? 'expression tag' 1300 9 1 5S9F GLY A 10 ? UNP Q8WWQ0 ? ? 'expression tag' 1301 10 1 5S9F VAL A 11 ? UNP Q8WWQ0 ? ? 'expression tag' 1302 11 1 5S9F ASP A 12 ? UNP Q8WWQ0 ? ? 'expression tag' 1303 12 1 5S9F LEU A 13 ? UNP Q8WWQ0 ? ? 'expression tag' 1304 13 1 5S9F GLY A 14 ? UNP Q8WWQ0 ? ? 'expression tag' 1305 14 1 5S9F THR A 15 ? UNP Q8WWQ0 ? ? 'expression tag' 1306 15 1 5S9F GLU A 16 ? UNP Q8WWQ0 ? ? 'expression tag' 1307 16 1 5S9F ASN A 17 ? UNP Q8WWQ0 ? ? 'expression tag' 1308 17 1 5S9F LEU A 18 ? UNP Q8WWQ0 ? ? 'expression tag' 1309 18 1 5S9F TYR A 19 ? UNP Q8WWQ0 ? ? 'expression tag' 1310 19 1 5S9F PHE A 20 ? UNP Q8WWQ0 ? ? 'expression tag' 1311 20 1 5S9F GLN A 21 ? UNP Q8WWQ0 ? ? 'expression tag' 1312 21 1 5S9F SER A 22 ? UNP Q8WWQ0 ? ? 'expression tag' 1313 22 1 5S9F MET A 23 ? UNP Q8WWQ0 ? ? 'expression tag' 1314 23 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 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 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 Y3Y non-polymer . '(2R)-N-(2-methoxyethyl)-2-methyl-4-thiophen-2-ylcarbonyl-piperazine-1-carboxamide' ? 'C14 H21 N3 O3 S' 311.400 # _exptl.crystals_number 1 _exptl.entry_id 5S9F _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.pdbx_mosaicity 0.000 _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.density_Matthews 1.70 _exptl_crystal.density_diffrn ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_percent_sol 27.71 _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.description ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pH 5.6 _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details '20% PEG 8000, 0.04M POTASSIUM PHOSPHATE' _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.pdbx_serial_crystal_experiment ? # _diffrn_detector.detector PIXEL _diffrn_detector.type 'DECTRIS PILATUS 6M' _diffrn_detector.pdbx_collection_date 2020-09-16 _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 0.9127 _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 0.9127 _diffrn_source.pdbx_synchrotron_site Diamond _diffrn_source.pdbx_synchrotron_beamline I04-1 _diffrn_source.pdbx_wavelength ? # _reflns.entry_id 5S9F _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 54.740 _reflns.d_resolution_high 1.350 _reflns.number_obs 26112 _reflns.number_all ? _reflns.percent_possible_obs 98.300 _reflns.pdbx_Rmerge_I_obs 0.054 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 7.700 _reflns.B_iso_Wilson_estimate 21.290 _reflns.pdbx_redundancy 2.800 _reflns.pdbx_Rrim_I_all 0.066 _reflns.pdbx_Rpim_I_all 0.037 _reflns.pdbx_CC_half 0.998 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_number_measured_all 73367 _reflns.pdbx_scaling_rejects 238 _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 ? _reflns.pdbx_CC_star ? # 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 _reflns_shell.pdbx_CC_star 1 1 1.350 1.370 ? 2393 ? ? 1.116 ? ? ? 2.000 ? 0.400 ? 1190 ? ? ? ? 93.100 1.444 0.905 0.395 ? 1 2 7.390 54.740 ? 581 ? ? 0.023 ? ? ? 3.000 ? 34.700 ? 192 ? ? ? ? 99.700 0.028 0.016 0.999 ? # _refine.entry_id 5S9F _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_d_res_high 1.3530 _refine.ls_d_res_low 54.7200 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 95.3000 _refine.ls_number_reflns_obs 25091 _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 ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2114 _refine.ls_R_factor_R_work 0.2096 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2446 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 5.0300 _refine.ls_number_reflns_R_free 1263 _refine.ls_number_reflns_R_work ? _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 26.5600 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] -0.8408 _refine.aniso_B[2][2] -0.9384 _refine.aniso_B[3][3] 1.7793 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] -2.7807 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc 0.9580 _refine.correlation_coeff_Fo_to_Fc_free 0.9400 _refine.overall_SU_R_Cruickshank_DPI 0.0710 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI 0.0740 _refine.pdbx_overall_SU_R_Blow_DPI 0.0780 _refine.pdbx_overall_SU_R_free_Blow_DPI 0.0800 _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.solvent_model_details ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model 5RJI _refine.pdbx_method_to_determine_struct 'FOURIER SYNTHESIS' _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 147.750 _refine.B_iso_min 14.170 _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_analyze.entry_id 5S9F _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_analyze.Luzzati_coordinate_error_obs 0.240 _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? # _refine_hist.cycle_id final _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.d_res_high 1.3530 _refine_hist.d_res_low 54.7200 _refine_hist.pdbx_number_atoms_ligand 21 _refine_hist.number_atoms_solvent 186 _refine_hist.number_atoms_total 1197 _refine_hist.pdbx_number_residues_total 119 _refine_hist.pdbx_B_iso_mean_ligand 31.57 _refine_hist.pdbx_B_iso_mean_solvent 37.95 _refine_hist.pdbx_number_atoms_protein 990 _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' t_dihedral_angle_d 399 ? ? 2.000 SINUSOIDAL 'X-RAY DIFFRACTION' t_trig_c_planes ? ? ? ? ? 'X-RAY DIFFRACTION' t_gen_planes 188 ? ? 5.000 HARMONIC 'X-RAY DIFFRACTION' t_it 1081 ? ? 10.000 HARMONIC 'X-RAY DIFFRACTION' t_nbd ? ? ? ? ? 'X-RAY DIFFRACTION' t_improper_torsion ? ? ? ? ? 'X-RAY DIFFRACTION' t_pseud_angle ? ? ? ? ? 'X-RAY DIFFRACTION' t_chiral_improper_torsion 136 ? ? 5.000 SEMIHARMONIC 'X-RAY DIFFRACTION' t_sum_occupancies ? ? ? ? ? 'X-RAY DIFFRACTION' t_utility_distance ? ? ? ? ? 'X-RAY DIFFRACTION' t_utility_angle ? ? ? ? ? 'X-RAY DIFFRACTION' t_utility_torsion ? ? ? ? ? 'X-RAY DIFFRACTION' t_ideal_dist_contact 1402 ? ? 4.000 SEMIHARMONIC 'X-RAY DIFFRACTION' t_bond_d 1081 0.008 ? 2.000 HARMONIC 'X-RAY DIFFRACTION' t_angle_deg 1468 0.880 ? 2.000 HARMONIC 'X-RAY DIFFRACTION' t_omega_torsion ? 2.820 ? ? ? 'X-RAY DIFFRACTION' t_other_torsion ? 15.990 ? ? ? # _refine_ls_shell.d_res_high 1.3500 _refine_ls_shell.d_res_low 1.3700 _refine_ls_shell.pdbx_total_number_of_bins_used 51 _refine_ls_shell.percent_reflns_obs 71.7600 _refine_ls_shell.number_reflns_R_work 474 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.2284 _refine_ls_shell.R_factor_R_free 0.2263 _refine_ls_shell.percent_reflns_R_free 5.5800 _refine_ls_shell.number_reflns_R_free 28 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 502 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.R_factor_obs ? # _struct.entry_id 5S9F _struct.title 'PanDDA analysis group deposition -- Crystal Structure of PHIP in complex with Z198194396 synthetic derivative' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 5S9F _struct_keywords.text ;SGC - Diamond I04-1 fragment screening, PanDDA, XChemExplorer, Robotic chemistry, Crystal soaking, Reaction crudes, 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 ? # 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 ALA A 29 ? CYS A 44 ? ALA A 1320 CYS A 1335 1 ? 16 HELX_P HELX_P2 AA2 GLU A 45 ? ARG A 51 ? GLU A 1336 ARG A 1342 5 ? 7 HELX_P HELX_P3 AA3 ASP A 61 ? ILE A 66 ? ASP A 1352 ILE A 1357 1 ? 6 HELX_P HELX_P4 AA4 ASP A 71 ? ALA A 81 ? ASP A 1362 ALA A 1372 1 ? 11 HELX_P HELX_P5 AA5 SER A 86 ? THR A 105 ? SER A 1377 THR A 1396 1 ? 20 HELX_P HELX_P6 AA6 SER A 110 ? LYS A 142 ? SER A 1401 LYS A 1433 1 ? 33 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id Y3Y _struct_site.pdbx_auth_seq_id 1501 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 15 _struct_site.details 'binding site for residue Y3Y A 1501' # 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 15 PRO A 49 ? PRO A 1340 . ? 1_555 ? 2 AC1 15 PHE A 50 ? PHE A 1341 . ? 1_555 ? 3 AC1 15 GLN A 52 ? GLN A 1343 . ? 1_555 ? 4 AC1 15 VAL A 54 ? VAL A 1345 . ? 1_555 ? 5 AC1 15 TYR A 59 ? TYR A 1350 . ? 1_555 ? 6 AC1 15 TYR A 62 ? TYR A 1353 . ? 1_555 ? 7 AC1 15 MET A 70 ? MET A 1361 . ? 1_555 ? 8 AC1 15 SER A 101 ? SER A 1392 . ? 1_555 ? 9 AC1 15 LYS A 102 ? LYS A 1393 . ? 4_456 ? 10 AC1 15 TYR A 104 ? TYR A 1395 . ? 1_555 ? 11 AC1 15 THR A 105 ? THR A 1396 . ? 4_456 ? 12 AC1 15 PRO A 106 ? PRO A 1397 . ? 4_456 ? 13 AC1 15 SER A 107 ? SER A 1398 . ? 4_456 ? 14 AC1 15 ILE A 112 ? ILE A 1403 . ? 1_555 ? 15 AC1 15 HOH C . ? HOH A 1612 . ? 4_456 ? # _atom_sites.entry_id 5S9F _atom_sites.fract_transf_matrix[1][1] 0.012262 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.002220 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.037194 _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] 0.018275 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O S # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 MET 1 1292 ? ? ? A . n A 1 2 HIS 2 1293 ? ? ? A . n A 1 3 HIS 3 1294 ? ? ? A . n A 1 4 HIS 4 1295 ? ? ? A . n A 1 5 HIS 5 1296 ? ? ? A . n A 1 6 HIS 6 1297 ? ? ? A . n A 1 7 HIS 7 1298 ? ? ? A . n A 1 8 SER 8 1299 ? ? ? A . n A 1 9 SER 9 1300 ? ? ? A . n A 1 10 GLY 10 1301 ? ? ? A . n A 1 11 VAL 11 1302 ? ? ? A . n A 1 12 ASP 12 1303 ? ? ? A . n A 1 13 LEU 13 1304 ? ? ? A . n A 1 14 GLY 14 1305 ? ? ? A . n A 1 15 THR 15 1306 ? ? ? A . n A 1 16 GLU 16 1307 ? ? ? A . n A 1 17 ASN 17 1308 ? ? ? A . n A 1 18 LEU 18 1309 ? ? ? A . n A 1 19 TYR 19 1310 ? ? ? A . n A 1 20 PHE 20 1311 ? ? ? A . n A 1 21 GLN 21 1312 ? ? ? A . n A 1 22 SER 22 1313 ? ? ? A . n A 1 23 MET 23 1314 ? ? ? A . n A 1 24 SER 24 1315 ? ? ? A . n A 1 25 TYR 25 1316 1316 TYR TYR A . n A 1 26 ASP 26 1317 1317 ASP ASP A . n A 1 27 ILE 27 1318 1318 ILE ILE A . n A 1 28 GLN 28 1319 1319 GLN GLN A . n A 1 29 ALA 29 1320 1320 ALA ALA A . n A 1 30 TRP 30 1321 1321 TRP TRP A . n A 1 31 LYS 31 1322 1322 LYS LYS A . n A 1 32 LYS 32 1323 1323 LYS LYS A . n A 1 33 GLN 33 1324 1324 GLN GLN A . n A 1 34 CYS 34 1325 1325 CYS CYS A . n A 1 35 GLU 35 1326 1326 GLU GLU A . n A 1 36 GLU 36 1327 1327 GLU GLU A . n A 1 37 LEU 37 1328 1328 LEU LEU A . n A 1 38 LEU 38 1329 1329 LEU LEU A . n A 1 39 ASN 39 1330 1330 ASN ASN A . n A 1 40 LEU 40 1331 1331 LEU LEU A . n A 1 41 ILE 41 1332 1332 ILE ILE A . n A 1 42 PHE 42 1333 1333 PHE PHE A . n A 1 43 GLN 43 1334 1334 GLN GLN A . n A 1 44 CYS 44 1335 1335 CYS CYS A . n A 1 45 GLU 45 1336 1336 GLU GLU A . n A 1 46 ASP 46 1337 1337 ASP ASP A . n A 1 47 SER 47 1338 1338 SER SER A . n A 1 48 GLU 48 1339 1339 GLU GLU A . n A 1 49 PRO 49 1340 1340 PRO PRO A . n A 1 50 PHE 50 1341 1341 PHE PHE A . n A 1 51 ARG 51 1342 1342 ARG ARG A . n A 1 52 GLN 52 1343 1343 GLN GLN A . n A 1 53 PRO 53 1344 1344 PRO PRO A . n A 1 54 VAL 54 1345 1345 VAL VAL A . n A 1 55 ASP 55 1346 1346 ASP ASP A . n A 1 56 LEU 56 1347 1347 LEU LEU A . n A 1 57 LEU 57 1348 1348 LEU LEU A . n A 1 58 GLU 58 1349 1349 GLU GLU A . n A 1 59 TYR 59 1350 1350 TYR TYR A . n A 1 60 PRO 60 1351 1351 PRO PRO A . n A 1 61 ASP 61 1352 1352 ASP ASP A . n A 1 62 TYR 62 1353 1353 TYR TYR A . n A 1 63 ARG 63 1354 1354 ARG ARG A . n A 1 64 ASP 64 1355 1355 ASP ASP A . n A 1 65 ILE 65 1356 1356 ILE ILE A . n A 1 66 ILE 66 1357 1357 ILE ILE A . n A 1 67 ASP 67 1358 1358 ASP ASP A . n A 1 68 THR 68 1359 1359 THR THR A . n A 1 69 PRO 69 1360 1360 PRO PRO A . n A 1 70 MET 70 1361 1361 MET MET A . n A 1 71 ASP 71 1362 1362 ASP ASP A . n A 1 72 PHE 72 1363 1363 PHE PHE A . n A 1 73 ALA 73 1364 1364 ALA ALA A . n A 1 74 THR 74 1365 1365 THR THR A . n A 1 75 VAL 75 1366 1366 VAL VAL A . n A 1 76 ARG 76 1367 1367 ARG ARG A . n A 1 77 GLU 77 1368 1368 GLU GLU A . n A 1 78 THR 78 1369 1369 THR THR A . n A 1 79 LEU 79 1370 1370 LEU LEU A . n A 1 80 GLU 80 1371 1371 GLU GLU A . n A 1 81 ALA 81 1372 1372 ALA ALA A . n A 1 82 GLY 82 1373 1373 GLY GLY A . n A 1 83 ASN 83 1374 1374 ASN ASN A . n A 1 84 TYR 84 1375 1375 TYR TYR A . n A 1 85 GLU 85 1376 1376 GLU GLU A . n A 1 86 SER 86 1377 1377 SER SER A . n A 1 87 PRO 87 1378 1378 PRO PRO A . n A 1 88 MET 88 1379 1379 MET MET A . n A 1 89 GLU 89 1380 1380 GLU GLU A . n A 1 90 LEU 90 1381 1381 LEU LEU A . n A 1 91 CYS 91 1382 1382 CYS CYS A . n A 1 92 LYS 92 1383 1383 LYS LYS A . n A 1 93 ASP 93 1384 1384 ASP ASP A . n A 1 94 VAL 94 1385 1385 VAL VAL A . n A 1 95 ARG 95 1386 1386 ARG ARG A . n A 1 96 LEU 96 1387 1387 LEU LEU A . n A 1 97 ILE 97 1388 1388 ILE ILE A . n A 1 98 PHE 98 1389 1389 PHE PHE A . n A 1 99 SER 99 1390 1390 SER SER A . n A 1 100 ASN 100 1391 1391 ASN ASN A . n A 1 101 SER 101 1392 1392 SER SER A . n A 1 102 LYS 102 1393 1393 LYS LYS A . n A 1 103 ALA 103 1394 1394 ALA ALA A . n A 1 104 TYR 104 1395 1395 TYR TYR A . n A 1 105 THR 105 1396 1396 THR THR A . n A 1 106 PRO 106 1397 1397 PRO PRO A . n A 1 107 SER 107 1398 1398 SER SER A . n A 1 108 LYS 108 1399 1399 LYS LYS A . n A 1 109 ARG 109 1400 1400 ARG ARG A . n A 1 110 SER 110 1401 1401 SER SER A . n A 1 111 ARG 111 1402 1402 ARG ARG A . n A 1 112 ILE 112 1403 1403 ILE ILE A . n A 1 113 TYR 113 1404 1404 TYR TYR A . n A 1 114 SER 114 1405 1405 SER SER A . n A 1 115 MET 115 1406 1406 MET MET A . n A 1 116 SER 116 1407 1407 SER SER A . n A 1 117 LEU 117 1408 1408 LEU LEU A . n A 1 118 ARG 118 1409 1409 ARG ARG A . n A 1 119 LEU 119 1410 1410 LEU LEU A . n A 1 120 SER 120 1411 1411 SER SER A . n A 1 121 ALA 121 1412 1412 ALA ALA A . n A 1 122 PHE 122 1413 1413 PHE PHE A . n A 1 123 PHE 123 1414 1414 PHE PHE A . n A 1 124 GLU 124 1415 1415 GLU GLU A . n A 1 125 GLU 125 1416 1416 GLU GLU A . n A 1 126 HIS 126 1417 1417 HIS HIS A . n A 1 127 ILE 127 1418 1418 ILE ILE A . n A 1 128 SER 128 1419 1419 SER SER A . n A 1 129 SER 129 1420 1420 SER SER A . n A 1 130 VAL 130 1421 1421 VAL VAL A . n A 1 131 LEU 131 1422 1422 LEU LEU A . n A 1 132 SER 132 1423 1423 SER SER A . n A 1 133 ASP 133 1424 1424 ASP ASP A . n A 1 134 TYR 134 1425 1425 TYR TYR A . n A 1 135 LYS 135 1426 1426 LYS LYS A . n A 1 136 SER 136 1427 1427 SER SER A . n A 1 137 ALA 137 1428 1428 ALA ALA A . n A 1 138 LEU 138 1429 1429 LEU LEU A . n A 1 139 ARG 139 1430 1430 ARG ARG A . n A 1 140 PHE 140 1431 1431 PHE PHE A . n A 1 141 HIS 141 1432 1432 HIS HIS A . n A 1 142 LYS 142 1433 1433 LYS LYS A . n A 1 143 ARG 143 1434 1434 ARG ARG A . n A 1 144 ASN 144 1435 ? ? ? A . n A 1 145 THR 145 1436 ? ? ? A . n A 1 146 ILE 146 1437 ? ? ? A . n A 1 147 THR 147 1438 ? ? ? A . n A 1 148 LYS 148 1439 ? ? ? A . n A 1 149 ARG 149 1440 ? ? ? 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 Y3Y 1 1501 1501 Y3Y LIG A . C 3 HOH 1 1601 195 HOH HOH A . C 3 HOH 2 1602 155 HOH HOH A . C 3 HOH 3 1603 183 HOH HOH A . C 3 HOH 4 1604 25 HOH HOH A . C 3 HOH 5 1605 141 HOH HOH A . C 3 HOH 6 1606 55 HOH HOH A . C 3 HOH 7 1607 7 HOH HOH A . C 3 HOH 8 1608 176 HOH HOH A . C 3 HOH 9 1609 85 HOH HOH A . C 3 HOH 10 1610 140 HOH HOH A . C 3 HOH 11 1611 89 HOH HOH A . C 3 HOH 12 1612 21 HOH HOH A . C 3 HOH 13 1613 151 HOH HOH A . C 3 HOH 14 1614 62 HOH HOH A . C 3 HOH 15 1615 124 HOH HOH A . C 3 HOH 16 1616 76 HOH HOH A . C 3 HOH 17 1617 9 HOH HOH A . C 3 HOH 18 1618 101 HOH HOH A . C 3 HOH 19 1619 128 HOH HOH A . C 3 HOH 20 1620 10 HOH HOH A . C 3 HOH 21 1621 105 HOH HOH A . C 3 HOH 22 1622 31 HOH HOH A . C 3 HOH 23 1623 3 HOH HOH A . C 3 HOH 24 1624 162 HOH HOH A . C 3 HOH 25 1625 33 HOH HOH A . C 3 HOH 26 1626 1 HOH HOH A . C 3 HOH 27 1627 187 HOH HOH A . C 3 HOH 28 1628 197 HOH HOH A . C 3 HOH 29 1629 16 HOH HOH A . C 3 HOH 30 1630 26 HOH HOH A . C 3 HOH 31 1631 116 HOH HOH A . C 3 HOH 32 1632 121 HOH HOH A . C 3 HOH 33 1633 171 HOH HOH A . C 3 HOH 34 1634 144 HOH HOH A . C 3 HOH 35 1635 39 HOH HOH A . C 3 HOH 36 1636 108 HOH HOH A . C 3 HOH 37 1637 70 HOH HOH A . C 3 HOH 38 1638 59 HOH HOH A . C 3 HOH 39 1639 28 HOH HOH A . C 3 HOH 40 1640 100 HOH HOH A . C 3 HOH 41 1641 12 HOH HOH A . C 3 HOH 42 1642 174 HOH HOH A . C 3 HOH 43 1643 191 HOH HOH A . C 3 HOH 44 1644 154 HOH HOH A . C 3 HOH 45 1645 77 HOH HOH A . C 3 HOH 46 1646 98 HOH HOH A . C 3 HOH 47 1647 52 HOH HOH A . C 3 HOH 48 1648 35 HOH HOH A . C 3 HOH 49 1649 67 HOH HOH A . C 3 HOH 50 1650 14 HOH HOH A . C 3 HOH 51 1651 64 HOH HOH A . C 3 HOH 52 1652 45 HOH HOH A . C 3 HOH 53 1653 65 HOH HOH A . C 3 HOH 54 1654 209 HOH HOH A . C 3 HOH 55 1655 48 HOH HOH A . C 3 HOH 56 1656 29 HOH HOH A . C 3 HOH 57 1657 157 HOH HOH A . C 3 HOH 58 1658 182 HOH HOH A . C 3 HOH 59 1659 27 HOH HOH A . C 3 HOH 60 1660 92 HOH HOH A . C 3 HOH 61 1661 130 HOH HOH A . C 3 HOH 62 1662 42 HOH HOH A . C 3 HOH 63 1663 180 HOH HOH A . C 3 HOH 64 1664 63 HOH HOH A . C 3 HOH 65 1665 60 HOH HOH A . C 3 HOH 66 1666 113 HOH HOH A . C 3 HOH 67 1667 160 HOH HOH A . C 3 HOH 68 1668 23 HOH HOH A . C 3 HOH 69 1669 127 HOH HOH A . C 3 HOH 70 1670 119 HOH HOH A . C 3 HOH 71 1671 58 HOH HOH A . C 3 HOH 72 1672 56 HOH HOH A . C 3 HOH 73 1673 6 HOH HOH A . C 3 HOH 74 1674 15 HOH HOH A . C 3 HOH 75 1675 82 HOH HOH A . C 3 HOH 76 1676 159 HOH HOH A . C 3 HOH 77 1677 80 HOH HOH A . C 3 HOH 78 1678 40 HOH HOH A . C 3 HOH 79 1679 94 HOH HOH A . C 3 HOH 80 1680 75 HOH HOH A . C 3 HOH 81 1681 5 HOH HOH A . C 3 HOH 82 1682 138 HOH HOH A . C 3 HOH 83 1683 139 HOH HOH A . C 3 HOH 84 1684 175 HOH HOH A . C 3 HOH 85 1685 19 HOH HOH A . C 3 HOH 86 1686 72 HOH HOH A . C 3 HOH 87 1687 178 HOH HOH A . C 3 HOH 88 1688 37 HOH HOH A . C 3 HOH 89 1689 41 HOH HOH A . C 3 HOH 90 1690 86 HOH HOH A . C 3 HOH 91 1691 142 HOH HOH A . C 3 HOH 92 1692 83 HOH HOH A . C 3 HOH 93 1693 149 HOH HOH A . C 3 HOH 94 1694 184 HOH HOH A . C 3 HOH 95 1695 49 HOH HOH A . C 3 HOH 96 1696 22 HOH HOH A . C 3 HOH 97 1697 132 HOH HOH A . C 3 HOH 98 1698 161 HOH HOH A . C 3 HOH 99 1699 71 HOH HOH A . C 3 HOH 100 1700 90 HOH HOH A . C 3 HOH 101 1701 4 HOH HOH A . C 3 HOH 102 1702 18 HOH HOH A . C 3 HOH 103 1703 44 HOH HOH A . C 3 HOH 104 1704 106 HOH HOH A . C 3 HOH 105 1705 137 HOH HOH A . C 3 HOH 106 1706 109 HOH HOH A . C 3 HOH 107 1707 69 HOH HOH A . C 3 HOH 108 1708 74 HOH HOH A . C 3 HOH 109 1709 152 HOH HOH A . C 3 HOH 110 1710 129 HOH HOH A . C 3 HOH 111 1711 38 HOH HOH A . C 3 HOH 112 1712 88 HOH HOH A . C 3 HOH 113 1713 136 HOH HOH A . C 3 HOH 114 1714 13 HOH HOH A . C 3 HOH 115 1715 81 HOH HOH A . C 3 HOH 116 1716 120 HOH HOH A . C 3 HOH 117 1717 118 HOH HOH A . C 3 HOH 118 1718 34 HOH HOH A . C 3 HOH 119 1719 53 HOH HOH A . C 3 HOH 120 1720 125 HOH HOH A . C 3 HOH 121 1721 57 HOH HOH A . C 3 HOH 122 1722 134 HOH HOH A . C 3 HOH 123 1723 166 HOH HOH A . C 3 HOH 124 1724 95 HOH HOH A . C 3 HOH 125 1725 123 HOH HOH A . C 3 HOH 126 1726 96 HOH HOH A . C 3 HOH 127 1727 117 HOH HOH A . C 3 HOH 128 1728 107 HOH HOH A . C 3 HOH 129 1729 135 HOH HOH A . C 3 HOH 130 1730 54 HOH HOH A . C 3 HOH 131 1731 91 HOH HOH A . C 3 HOH 132 1732 202 HOH HOH A . C 3 HOH 133 1733 66 HOH HOH A . C 3 HOH 134 1734 131 HOH HOH A . C 3 HOH 135 1735 181 HOH HOH A . C 3 HOH 136 1736 145 HOH HOH A . C 3 HOH 137 1737 84 HOH HOH A . C 3 HOH 138 1738 164 HOH HOH A . C 3 HOH 139 1739 126 HOH HOH A . C 3 HOH 140 1740 143 HOH HOH A . C 3 HOH 141 1741 122 HOH HOH A . C 3 HOH 142 1742 177 HOH HOH A . C 3 HOH 143 1743 179 HOH HOH A . C 3 HOH 144 1744 172 HOH HOH A . C 3 HOH 145 1745 133 HOH HOH A . C 3 HOH 146 1746 199 HOH HOH A . C 3 HOH 147 1747 112 HOH HOH A . C 3 HOH 148 1748 30 HOH HOH A . C 3 HOH 149 1749 114 HOH HOH A . C 3 HOH 150 1750 158 HOH HOH A . C 3 HOH 151 1751 173 HOH HOH A . C 3 HOH 152 1752 61 HOH HOH A . C 3 HOH 153 1753 156 HOH HOH A . C 3 HOH 154 1754 8 HOH HOH A . C 3 HOH 155 1755 115 HOH HOH A . C 3 HOH 156 1756 150 HOH HOH A . C 3 HOH 157 1757 163 HOH HOH A . C 3 HOH 158 1758 51 HOH HOH A . C 3 HOH 159 1759 185 HOH HOH A . C 3 HOH 160 1760 104 HOH HOH A . C 3 HOH 161 1761 190 HOH HOH A . C 3 HOH 162 1762 110 HOH HOH A . C 3 HOH 163 1763 198 HOH HOH A . C 3 HOH 164 1764 186 HOH HOH A . C 3 HOH 165 1765 99 HOH HOH A . C 3 HOH 166 1766 193 HOH HOH A . C 3 HOH 167 1767 188 HOH HOH A . C 3 HOH 168 1768 102 HOH HOH A . C 3 HOH 169 1769 78 HOH HOH A . C 3 HOH 170 1770 103 HOH HOH A . C 3 HOH 171 1771 68 HOH HOH A . C 3 HOH 172 1772 170 HOH HOH A . C 3 HOH 173 1773 73 HOH HOH A . C 3 HOH 174 1774 46 HOH HOH A . C 3 HOH 175 1775 168 HOH HOH A . C 3 HOH 176 1776 200 HOH HOH A . C 3 HOH 177 1777 111 HOH HOH A . C 3 HOH 178 1778 201 HOH HOH A . C 3 HOH 179 1779 196 HOH HOH A . C 3 HOH 180 1780 189 HOH HOH A . C 3 HOH 181 1781 192 HOH HOH A . C 3 HOH 182 1782 79 HOH HOH A . C 3 HOH 183 1783 148 HOH HOH A . C 3 HOH 184 1784 203 HOH HOH A . C 3 HOH 185 1785 97 HOH HOH A . C 3 HOH 186 1786 87 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 # _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 HOH 1704 ? C HOH . 2 1 A HOH 1777 ? C 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 2021-02-17 2 'Structure model' 1 1 2022-12-21 # loop_ _pdbx_audit_revision_details.ordinal _pdbx_audit_revision_details.revision_ordinal _pdbx_audit_revision_details.data_content_type _pdbx_audit_revision_details.provider _pdbx_audit_revision_details.type _pdbx_audit_revision_details.description _pdbx_audit_revision_details.details 1 1 'Structure model' repository 'Initial release' ? ? 2 2 'Structure model' repository Obsolete ? ? # 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' Advisory 2 2 'Structure model' 'Data collection' 3 2 'Structure model' 'Database references' 4 2 'Structure model' 'Derived calculations' 5 2 'Structure model' Other 6 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_database_PDB_obs_spr 5 2 'Structure model' pdbx_database_status 6 2 'Structure model' pdbx_entity_nonpoly 7 2 'Structure model' pdbx_validate_chiral # 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.name' 2 2 'Structure model' '_database_2.pdbx_DOI' 3 2 'Structure model' '_database_2.pdbx_database_accession' 4 2 'Structure model' '_entity.pdbx_description' 5 2 'Structure model' '_pdbx_database_status.status_code' 6 2 'Structure model' '_pdbx_database_status.status_code_sf' 7 2 'Structure model' '_pdbx_entity_nonpoly.name' # _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x -14.1489 _pdbx_refine_tls.origin_y 12.3037 _pdbx_refine_tls.origin_z 12.7074 _pdbx_refine_tls.T[1][1] -0.0294 _pdbx_refine_tls.T[2][2] 0.0184 _pdbx_refine_tls.T[3][3] -0.0452 _pdbx_refine_tls.T[1][2] 0.0157 _pdbx_refine_tls.T[1][3] 0.0063 _pdbx_refine_tls.T[2][3] 0.0094 _pdbx_refine_tls.L[1][1] 0.9181 _pdbx_refine_tls.L[2][2] 0.4250 _pdbx_refine_tls.L[3][3] 1.5034 _pdbx_refine_tls.L[1][2] 0.0365 _pdbx_refine_tls.L[1][3] -0.8951 _pdbx_refine_tls.L[2][3] 0.2510 _pdbx_refine_tls.S[1][1] 0.0170 _pdbx_refine_tls.S[2][2] 0.0401 _pdbx_refine_tls.S[3][3] -0.0571 _pdbx_refine_tls.S[1][2] 0.0968 _pdbx_refine_tls.S[1][3] 0.0509 _pdbx_refine_tls.S[2][3] 0.0137 _pdbx_refine_tls.S[2][1] 0.1193 _pdbx_refine_tls.S[3][1] -0.0419 _pdbx_refine_tls.S[3][2] 0.0498 # _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id 1316 _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 1434 _pdbx_refine_tls_group.selection_details '{ A|* }' _pdbx_refine_tls_group.beg_label_asym_id ? _pdbx_refine_tls_group.beg_label_seq_id ? _pdbx_refine_tls_group.end_label_asym_id ? _pdbx_refine_tls_group.end_label_seq_id ? _pdbx_refine_tls_group.selection ? # _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 BUSTER '2.10.3 (18-SEP-2020)' ? program 'Gerard Bricogne' buster-develop@GlobalPhasing.com refinement http://www.globalphasing.com/buster/ ? ? 2 Aimless 0.7.4 13/12/18 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_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id LEU _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 1347 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -74.74 _pdbx_validate_torsion.psi 25.95 # _pdbx_validate_chiral.id 1 _pdbx_validate_chiral.PDB_model_num 1 _pdbx_validate_chiral.auth_atom_id C13 _pdbx_validate_chiral.label_alt_id ? _pdbx_validate_chiral.auth_asym_id A _pdbx_validate_chiral.auth_comp_id Y3Y _pdbx_validate_chiral.auth_seq_id 1501 _pdbx_validate_chiral.PDB_ins_code ? _pdbx_validate_chiral.details 'WRONG HAND' _pdbx_validate_chiral.omega . # 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 1323 ? CE ? A LYS 32 CE 2 1 Y 1 A LYS 1323 ? NZ ? A LYS 32 NZ # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A MET 1292 ? A MET 1 2 1 Y 1 A HIS 1293 ? A HIS 2 3 1 Y 1 A HIS 1294 ? A HIS 3 4 1 Y 1 A HIS 1295 ? A HIS 4 5 1 Y 1 A HIS 1296 ? A HIS 5 6 1 Y 1 A HIS 1297 ? A HIS 6 7 1 Y 1 A HIS 1298 ? A HIS 7 8 1 Y 1 A SER 1299 ? A SER 8 9 1 Y 1 A SER 1300 ? A SER 9 10 1 Y 1 A GLY 1301 ? A GLY 10 11 1 Y 1 A VAL 1302 ? A VAL 11 12 1 Y 1 A ASP 1303 ? A ASP 12 13 1 Y 1 A LEU 1304 ? A LEU 13 14 1 Y 1 A GLY 1305 ? A GLY 14 15 1 Y 1 A THR 1306 ? A THR 15 16 1 Y 1 A GLU 1307 ? A GLU 16 17 1 Y 1 A ASN 1308 ? A ASN 17 18 1 Y 1 A LEU 1309 ? A LEU 18 19 1 Y 1 A TYR 1310 ? A TYR 19 20 1 Y 1 A PHE 1311 ? A PHE 20 21 1 Y 1 A GLN 1312 ? A GLN 21 22 1 Y 1 A SER 1313 ? A SER 22 23 1 Y 1 A MET 1314 ? A MET 23 24 1 Y 1 A SER 1315 ? A SER 24 25 1 Y 1 A ASN 1435 ? A ASN 144 26 1 Y 1 A THR 1436 ? A THR 145 27 1 Y 1 A ILE 1437 ? A ILE 146 28 1 Y 1 A THR 1438 ? A THR 147 29 1 Y 1 A LYS 1439 ? A LYS 148 30 1 Y 1 A ARG 1440 ? A ARG 149 # _pdbx_deposit_group.group_id G_1002190 _pdbx_deposit_group.group_description ;XDomainX of XOrganismX PHIP screened against crude reaction mixtures by X-ray Crystallography at the XChem facility of Diamond Light Source beamline I04-1 ; _pdbx_deposit_group.group_title 'PanDDA analysis group deposition' _pdbx_deposit_group.group_type 'changed state' # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 '(2R)-N-(2-methoxyethyl)-2-methyl-4-thiophen-2-ylcarbonyl-piperazine-1-carboxamide' Y3Y 3 water HOH #