data_5Q0M # _entry.id 5Q0M # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.352 _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 5Q0M pdb_00005q0m 10.2210/pdb5q0m/pdb WWPDB D_1001401348 ? ? # _pdbx_database_status.entry_id 5Q0M _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 2017-05-31 _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.pdbx_ordinal _audit_author.name _audit_author.identifier_ORCID 1 'Rudolph, M.G.' ? 2 'Benz, J.' ? 3 'Burger, D.' ? 4 'Thoma, R.' ? 5 'Ruf, A.' ? 6 'Joseph, C.' ? 7 'Kuhn, B.' ? 8 'Shao, C.' 0000-0001-6817-7476 9 'Yang, H.' ? 10 'Burley, S.K.' 0000-0002-2487-9713 # _citation.id primary _citation.journal_abbrev 'J. Comput. Aided Mol. Des.' _citation.title 'D3R Grand Challenge 2: blind prediction of protein-ligand poses, affinity rankings, and relative binding free energies.' _citation.year 2018 _citation.journal_volume 32 _citation.page_first 1 _citation.page_last 20 _citation.journal_id_ASTM ? _citation.country NE _citation.journal_id_ISSN 1573-4951 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 29204945 _citation.pdbx_database_id_DOI 10.1007/s10822-017-0088-4 # loop_ _citation_author.citation_id _citation_author.ordinal _citation_author.name _citation_author.identifier_ORCID primary 1 'Gaieb, Z.' ? primary 2 'Liu, S.' ? primary 3 'Gathiaka, S.' ? primary 4 'Chiu, M.' ? primary 5 'Yang, H.' ? primary 6 'Shao, C.' 0000-0001-6817-7476 primary 7 'Feher, V.A.' ? primary 8 'Walters, W.P.' ? primary 9 'Kuhn, B.' ? primary 10 'Rudolph, M.G.' ? primary 11 'Burley, S.K.' 0000-0002-2487-9713 primary 12 'Gilson, M.K.' ? primary 13 'Amaro, R.E.' ? # _cell.entry_id 5Q0M _cell.length_a 93.562 _cell.length_b 93.562 _cell.length_c 45.590 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 120.000 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5Q0M _symmetry.space_group_name_H-M 'P 65' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 # 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 'Bile acid receptor' 27100.191 1 ? ? ? ? 2 polymer syn 'COACTIVATOR PEPTIDE SRC-1 HD3' 1790.026 1 ? ? 'UNP residues 744-757' ? 3 non-polymer syn '5-{[(3beta,5beta,14beta,17alpha)-3-hydroxy-24-oxocholan-24-yl]amino}benzene-1,3-dicarboxylic acid' 539.703 1 ? ? ? ? 4 water nat water 18.015 39 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name ;Farnesoid X-activated receptor,Farnesol receptor HRR-1,Nuclear receptor subfamily 1 group H member 4,Retinoid X receptor-interacting protein 14,RXR-interacting protein 14 ; # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 'polypeptide(L)' no no ;GSHMELTPDQQTLLHFIMDSYNKQRMPQEITNKILKEAFSAEENFLILTEMATNHVQVLVEFTKKLPGFQTLDHEDQIAL LKGSAVEAMFLRSAEIFNKKLPSGHSDLLEARIRNSGISDEYITPMFSFYKSIGELKMTQEEYALLTAIVILSPDRQYIK DREAVEKLQEPLLDVLQKLCKIHQPENPQHFACLLGRLTELRTFNHHHAEMLMSWRVNDHKFTPLLCEIWDVQ ; ;GSHMELTPDQQTLLHFIMDSYNKQRMPQEITNKILKEAFSAEENFLILTEMATNHVQVLVEFTKKLPGFQTLDHEDQIAL LKGSAVEAMFLRSAEIFNKKLPSGHSDLLEARIRNSGISDEYITPMFSFYKSIGELKMTQEEYALLTAIVILSPDRQYIK DREAVEKLQEPLLDVLQKLCKIHQPENPQHFACLLGRLTELRTFNHHHAEMLMSWRVNDHKFTPLLCEIWDVQ ; A ? 2 'polypeptide(L)' no no KDHQLLRYLLDKDE KDHQLLRYLLDKDE B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 GLY n 1 2 SER n 1 3 HIS n 1 4 MET n 1 5 GLU n 1 6 LEU n 1 7 THR n 1 8 PRO n 1 9 ASP n 1 10 GLN n 1 11 GLN n 1 12 THR n 1 13 LEU n 1 14 LEU n 1 15 HIS n 1 16 PHE n 1 17 ILE n 1 18 MET n 1 19 ASP n 1 20 SER n 1 21 TYR n 1 22 ASN n 1 23 LYS n 1 24 GLN n 1 25 ARG n 1 26 MET n 1 27 PRO n 1 28 GLN n 1 29 GLU n 1 30 ILE n 1 31 THR n 1 32 ASN n 1 33 LYS n 1 34 ILE n 1 35 LEU n 1 36 LYS n 1 37 GLU n 1 38 ALA n 1 39 PHE n 1 40 SER n 1 41 ALA n 1 42 GLU n 1 43 GLU n 1 44 ASN n 1 45 PHE n 1 46 LEU n 1 47 ILE n 1 48 LEU n 1 49 THR n 1 50 GLU n 1 51 MET n 1 52 ALA n 1 53 THR n 1 54 ASN n 1 55 HIS n 1 56 VAL n 1 57 GLN n 1 58 VAL n 1 59 LEU n 1 60 VAL n 1 61 GLU n 1 62 PHE n 1 63 THR n 1 64 LYS n 1 65 LYS n 1 66 LEU n 1 67 PRO n 1 68 GLY n 1 69 PHE n 1 70 GLN n 1 71 THR n 1 72 LEU n 1 73 ASP n 1 74 HIS n 1 75 GLU n 1 76 ASP n 1 77 GLN n 1 78 ILE n 1 79 ALA n 1 80 LEU n 1 81 LEU n 1 82 LYS n 1 83 GLY n 1 84 SER n 1 85 ALA n 1 86 VAL n 1 87 GLU n 1 88 ALA n 1 89 MET n 1 90 PHE n 1 91 LEU n 1 92 ARG n 1 93 SER n 1 94 ALA n 1 95 GLU n 1 96 ILE n 1 97 PHE n 1 98 ASN n 1 99 LYS n 1 100 LYS n 1 101 LEU n 1 102 PRO n 1 103 SER n 1 104 GLY n 1 105 HIS n 1 106 SER n 1 107 ASP n 1 108 LEU n 1 109 LEU n 1 110 GLU n 1 111 ALA n 1 112 ARG n 1 113 ILE n 1 114 ARG n 1 115 ASN n 1 116 SER n 1 117 GLY n 1 118 ILE n 1 119 SER n 1 120 ASP n 1 121 GLU n 1 122 TYR n 1 123 ILE n 1 124 THR n 1 125 PRO n 1 126 MET n 1 127 PHE n 1 128 SER n 1 129 PHE n 1 130 TYR n 1 131 LYS n 1 132 SER n 1 133 ILE n 1 134 GLY n 1 135 GLU n 1 136 LEU n 1 137 LYS n 1 138 MET n 1 139 THR n 1 140 GLN n 1 141 GLU n 1 142 GLU n 1 143 TYR n 1 144 ALA n 1 145 LEU n 1 146 LEU n 1 147 THR n 1 148 ALA n 1 149 ILE n 1 150 VAL n 1 151 ILE n 1 152 LEU n 1 153 SER n 1 154 PRO n 1 155 ASP n 1 156 ARG n 1 157 GLN n 1 158 TYR n 1 159 ILE n 1 160 LYS n 1 161 ASP n 1 162 ARG n 1 163 GLU n 1 164 ALA n 1 165 VAL n 1 166 GLU n 1 167 LYS n 1 168 LEU n 1 169 GLN n 1 170 GLU n 1 171 PRO n 1 172 LEU n 1 173 LEU n 1 174 ASP n 1 175 VAL n 1 176 LEU n 1 177 GLN n 1 178 LYS n 1 179 LEU n 1 180 CYS n 1 181 LYS n 1 182 ILE n 1 183 HIS n 1 184 GLN n 1 185 PRO n 1 186 GLU n 1 187 ASN n 1 188 PRO n 1 189 GLN n 1 190 HIS n 1 191 PHE n 1 192 ALA n 1 193 CYS n 1 194 LEU n 1 195 LEU n 1 196 GLY n 1 197 ARG n 1 198 LEU n 1 199 THR n 1 200 GLU n 1 201 LEU n 1 202 ARG n 1 203 THR n 1 204 PHE n 1 205 ASN n 1 206 HIS n 1 207 HIS n 1 208 HIS n 1 209 ALA n 1 210 GLU n 1 211 MET n 1 212 LEU n 1 213 MET n 1 214 SER n 1 215 TRP n 1 216 ARG n 1 217 VAL n 1 218 ASN n 1 219 ASP n 1 220 HIS n 1 221 LYS n 1 222 PHE n 1 223 THR n 1 224 PRO n 1 225 LEU n 1 226 LEU n 1 227 CYS n 1 228 GLU n 1 229 ILE n 1 230 TRP n 1 231 ASP n 1 232 VAL n 1 233 GLN n 2 1 LYS n 2 2 ASP n 2 3 HIS n 2 4 GLN n 2 5 LEU n 2 6 LEU n 2 7 ARG n 2 8 TYR n 2 9 LEU n 2 10 LEU n 2 11 ASP n 2 12 LYS n 2 13 ASP n 2 14 GLU 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 233 _entity_src_gen.gene_src_common_name Human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'NR1H4, BAR, FXR, HRR1, RIP14' _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 PLASMID _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name PET28A _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _pdbx_entity_src_syn.entity_id 2 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 14 _pdbx_entity_src_syn.organism_scientific 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name Human _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _pdbx_entity_src_syn.details ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 UNP NR1H4_HUMAN Q96RI1 ? 1 ;ELTPDQQTLLHFIMDSYNKQRMPQEITNKILKEEFSAEENFLILTEMATNHVQVLVEFTKKLPGFQTLDHEDQIALLKGS AVEAMFLRSAEIFNKKLPSGHSDLLEERIRNSGISDEYITPMFSFYKSIGELKMTQEEYALLTAIVILSPDRQYIKDREA VEKLQEPLLDVLQKLCKIHQPENPQHFACLLGRLTELRTFNHHHAEMLMSWRVNDHKFTPLLCEIWDVQ ; 258 2 UNP A8K1V4_HUMAN A8K1V4 ? 2 KDHQLLRYLLDKDE 744 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 5Q0M A 5 ? 233 ? Q96RI1 258 ? 486 ? 248 476 2 2 5Q0M B 1 ? 14 ? A8K1V4 744 ? 757 ? 744 757 # 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 5Q0M GLY A 1 ? UNP Q96RI1 ? ? 'expression tag' 244 1 1 5Q0M SER A 2 ? UNP Q96RI1 ? ? 'expression tag' 245 2 1 5Q0M HIS A 3 ? UNP Q96RI1 ? ? 'expression tag' 246 3 1 5Q0M MET A 4 ? UNP Q96RI1 ? ? 'expression tag' 247 4 1 5Q0M ALA A 38 ? UNP Q96RI1 GLU 291 conflict 281 5 1 5Q0M ALA A 111 ? UNP Q96RI1 GLU 364 conflict 354 6 # 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 9L1 non-polymer . '5-{[(3beta,5beta,14beta,17alpha)-3-hydroxy-24-oxocholan-24-yl]amino}benzene-1,3-dicarboxylic acid' ? 'C32 H45 N O6' 539.703 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 # _exptl.crystals_number 1 _exptl.entry_id 5Q0M _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.03 _exptl_crystal.density_percent_sol 39.47 _exptl_crystal.description ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'evaporation, hanging drop' _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.temp 298 _exptl_crystal_grow.pdbx_details '0.1 M HEPES pH 7.5, 1.4 M Sodium Citrate' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.crystal_id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'MARMOSAIC 225 mm CCD' _diffrn_detector.pdbx_collection_date 2008-09-04 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.0 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SLS BEAMLINE X10SA' _diffrn_source.pdbx_wavelength_list 1.0 _diffrn_source.pdbx_synchrotron_site SLS _diffrn_source.pdbx_synchrotron_beamline X10SA _diffrn_source.pdbx_wavelength ? # _reflns.entry_id 5Q0M _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.d_resolution_low 46.8 _reflns.d_resolution_high 2.20 _reflns.number_obs 11752 _reflns.number_all 11768 _reflns.percent_possible_obs 99.9 _reflns.pdbx_redundancy 4.14 _reflns.pdbx_netI_over_sigmaI 12.61 _reflns.pdbx_Rmerge_I_obs 0.0620 _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.pdbx_Rsym_value ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_CC_half ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_Rrim_I_all ? # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_low 2.30 _reflns_shell.d_res_high 2.20 _reflns_shell.number_unique_obs 1454 _reflns_shell.number_possible 1462 _reflns_shell.percent_possible_all 99.5 _reflns_shell.pdbx_redundancy 3.59 _reflns_shell.pdbx_netI_over_sigmaI_obs 1.86 _reflns_shell.Rmerge_I_obs 0.5434 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_all ? _reflns_shell.pdbx_CC_half ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_Rrim_I_all ? # _refine.entry_id 5Q0M _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_d_res_high 2.2000 _refine.ls_d_res_low 40.5140 _refine.pdbx_ls_sigma_F 0.060 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.8800 _refine.ls_number_reflns_obs 11735 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.ls_matrix_type ? _refine.pdbx_R_Free_selection_details ? _refine.details ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1869 _refine.ls_R_factor_R_work 0.1831 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2615 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 4.9800 _refine.ls_number_reflns_R_free 584 _refine.ls_number_reflns_R_work 11151 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 55.6740 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _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 ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.3500 _refine.overall_SU_B ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.pdbx_solvent_vdw_probe_radii 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 125.310 _refine.B_iso_min 17.560 _refine.pdbx_overall_phase_error 31.7800 _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 2.2000 _refine_hist.d_res_low 40.5140 _refine_hist.pdbx_number_atoms_ligand 39 _refine_hist.number_atoms_solvent 39 _refine_hist.number_atoms_total 1989 _refine_hist.pdbx_number_residues_total 233 _refine_hist.pdbx_B_iso_mean_ligand 59.51 _refine_hist.pdbx_B_iso_mean_solvent 52.86 _refine_hist.pdbx_number_atoms_protein 1911 _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' f_bond_d 2002 0.009 ? ? ? 'X-RAY DIFFRACTION' f_angle_d 2710 1.024 ? ? ? 'X-RAY DIFFRACTION' f_chiral_restr 307 0.300 ? ? ? 'X-RAY DIFFRACTION' f_plane_restr 340 0.006 ? ? ? 'X-RAY DIFFRACTION' f_dihedral_angle_d 1681 10.546 ? ? ? # loop_ _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.percent_reflns_obs _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_R_work _refine_ls_shell.R_factor_R_free _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.pdbx_refine_id _refine_ls_shell.R_factor_obs 2.2000 2.4214 4 100.0000 2762 . 0.2751 0.4153 . 154 0.0000 2916 . 'X-RAY DIFFRACTION' . 2.4214 2.7717 4 100.0000 2756 . 0.2215 0.2727 . 142 0.0000 2898 . 'X-RAY DIFFRACTION' . 2.7717 3.4918 4 100.0000 2780 . 0.1997 0.2687 . 152 0.0000 2932 . 'X-RAY DIFFRACTION' . 3.4918 40.5204 4 100.0000 2853 . 0.1514 0.2266 . 136 0.0000 2989 . 'X-RAY DIFFRACTION' . # _struct.entry_id 5Q0M _struct.title 'Ligand binding to FARNESOID-X-RECEPTOR' _struct.pdbx_model_details 'Structures re-refined for D3R docking challenge' _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 5Q0M _struct_keywords.text 'D3R, FXR, Docking, TRANSCRIPTION' _struct_keywords.pdbx_keywords TRANSCRIPTION # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 4 ? E N N 4 ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 AA1 THR A 7 ? LYS A 23 ? THR A 250 LYS A 266 1 ? 17 HELX_P HELX_P2 AA2 PRO A 27 ? GLU A 37 ? PRO A 270 GLU A 280 1 ? 11 HELX_P HELX_P3 AA3 SER A 40 ? LYS A 65 ? SER A 283 LYS A 308 1 ? 26 HELX_P HELX_P4 AA4 GLY A 68 ? LEU A 72 ? GLY A 311 LEU A 315 5 ? 5 HELX_P HELX_P5 AA5 ASP A 73 ? LYS A 100 ? ASP A 316 LYS A 343 1 ? 28 HELX_P HELX_P6 AA6 PRO A 102 ? ASN A 115 ? PRO A 345 ASN A 358 1 ? 14 HELX_P HELX_P7 AA7 SER A 119 ? LYS A 137 ? SER A 362 LYS A 380 1 ? 19 HELX_P HELX_P8 AA8 THR A 139 ? LEU A 152 ? THR A 382 LEU A 395 1 ? 14 HELX_P HELX_P9 AA9 ASP A 161 ? GLN A 184 ? ASP A 404 GLN A 427 1 ? 24 HELX_P HELX_P10 AB1 GLN A 189 ? SER A 214 ? GLN A 432 SER A 457 1 ? 26 HELX_P HELX_P11 AB2 THR A 223 ? ASP A 231 ? THR A 466 ASP A 474 1 ? 9 HELX_P HELX_P12 AB3 GLN B 4 ? LYS B 12 ? GLN B 747 LYS B 755 1 ? 9 # _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 9L1 _struct_site.pdbx_auth_seq_id 501 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 14 _struct_site.details 'binding site for residue 9L1 A 501' # 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 14 MET A 26 ? MET A 269 . ? 1_555 ? 2 AC1 14 THR A 31 ? THR A 274 . ? 1_555 ? 3 AC1 14 PHE A 45 ? PHE A 288 . ? 1_555 ? 4 AC1 14 LEU A 48 ? LEU A 291 . ? 1_555 ? 5 AC1 14 THR A 49 ? THR A 292 . ? 1_555 ? 6 AC1 14 MET A 51 ? MET A 294 . ? 1_555 ? 7 AC1 14 HIS A 55 ? HIS A 298 . ? 1_555 ? 8 AC1 14 MET A 89 ? MET A 332 . ? 1_555 ? 9 AC1 14 ARG A 92 ? ARG A 335 . ? 1_555 ? 10 AC1 14 ILE A 96 ? ILE A 339 . ? 1_555 ? 11 AC1 14 ILE A 118 ? ILE A 361 . ? 1_555 ? 12 AC1 14 TYR A 122 ? TYR A 365 . ? 1_555 ? 13 AC1 14 TYR A 130 ? TYR A 373 . ? 1_555 ? 14 AC1 14 HIS A 208 ? HIS A 451 . ? 1_555 ? # _atom_sites.entry_id 5Q0M _atom_sites.fract_transf_matrix[1][1] 0.010688 _atom_sites.fract_transf_matrix[1][2] 0.006171 _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] 0.012342 _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] 0.021935 _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 GLY 1 244 ? ? ? A . n A 1 2 SER 2 245 ? ? ? A . n A 1 3 HIS 3 246 ? ? ? A . n A 1 4 MET 4 247 247 MET MET A . n A 1 5 GLU 5 248 248 GLU GLU A . n A 1 6 LEU 6 249 249 LEU LEU A . n A 1 7 THR 7 250 250 THR THR A . n A 1 8 PRO 8 251 251 PRO PRO A . n A 1 9 ASP 9 252 252 ASP ASP A . n A 1 10 GLN 10 253 253 GLN GLN A . n A 1 11 GLN 11 254 254 GLN GLN A . n A 1 12 THR 12 255 255 THR THR A . n A 1 13 LEU 13 256 256 LEU LEU A . n A 1 14 LEU 14 257 257 LEU LEU A . n A 1 15 HIS 15 258 258 HIS HIS A . n A 1 16 PHE 16 259 259 PHE PHE A . n A 1 17 ILE 17 260 260 ILE ILE A . n A 1 18 MET 18 261 261 MET MET A . n A 1 19 ASP 19 262 262 ASP ASP A . n A 1 20 SER 20 263 263 SER SER A . n A 1 21 TYR 21 264 264 TYR TYR A . n A 1 22 ASN 22 265 265 ASN ASN A . n A 1 23 LYS 23 266 266 LYS LYS A . n A 1 24 GLN 24 267 267 GLN GLN A . n A 1 25 ARG 25 268 268 ARG ARG A . n A 1 26 MET 26 269 269 MET MET A . n A 1 27 PRO 27 270 270 PRO PRO A . n A 1 28 GLN 28 271 271 GLN GLN A . n A 1 29 GLU 29 272 272 GLU GLU A . n A 1 30 ILE 30 273 273 ILE ILE A . n A 1 31 THR 31 274 274 THR THR A . n A 1 32 ASN 32 275 275 ASN ASN A . n A 1 33 LYS 33 276 276 LYS LYS A . n A 1 34 ILE 34 277 277 ILE ILE A . n A 1 35 LEU 35 278 278 LEU LEU A . n A 1 36 LYS 36 279 279 LYS LYS A . n A 1 37 GLU 37 280 280 GLU GLU A . n A 1 38 ALA 38 281 281 ALA ALA A . n A 1 39 PHE 39 282 282 PHE PHE A . n A 1 40 SER 40 283 283 SER SER A . n A 1 41 ALA 41 284 284 ALA ALA A . n A 1 42 GLU 42 285 285 GLU GLU A . n A 1 43 GLU 43 286 286 GLU GLU A . n A 1 44 ASN 44 287 287 ASN ASN A . n A 1 45 PHE 45 288 288 PHE PHE A . n A 1 46 LEU 46 289 289 LEU LEU A . n A 1 47 ILE 47 290 290 ILE ILE A . n A 1 48 LEU 48 291 291 LEU LEU A . n A 1 49 THR 49 292 292 THR THR A . n A 1 50 GLU 50 293 293 GLU GLU A . n A 1 51 MET 51 294 294 MET MET A . n A 1 52 ALA 52 295 295 ALA ALA A . n A 1 53 THR 53 296 296 THR THR A . n A 1 54 ASN 54 297 297 ASN ASN A . n A 1 55 HIS 55 298 298 HIS HIS A . n A 1 56 VAL 56 299 299 VAL VAL A . n A 1 57 GLN 57 300 300 GLN GLN A . n A 1 58 VAL 58 301 301 VAL VAL A . n A 1 59 LEU 59 302 302 LEU LEU A . n A 1 60 VAL 60 303 303 VAL VAL A . n A 1 61 GLU 61 304 304 GLU GLU A . n A 1 62 PHE 62 305 305 PHE PHE A . n A 1 63 THR 63 306 306 THR THR A . n A 1 64 LYS 64 307 307 LYS LYS A . n A 1 65 LYS 65 308 308 LYS LYS A . n A 1 66 LEU 66 309 309 LEU LEU A . n A 1 67 PRO 67 310 310 PRO PRO A . n A 1 68 GLY 68 311 311 GLY GLY A . n A 1 69 PHE 69 312 312 PHE PHE A . n A 1 70 GLN 70 313 313 GLN GLN A . n A 1 71 THR 71 314 314 THR THR A . n A 1 72 LEU 72 315 315 LEU LEU A . n A 1 73 ASP 73 316 316 ASP ASP A . n A 1 74 HIS 74 317 317 HIS HIS A . n A 1 75 GLU 75 318 318 GLU GLU A . n A 1 76 ASP 76 319 319 ASP ASP A . n A 1 77 GLN 77 320 320 GLN GLN A . n A 1 78 ILE 78 321 321 ILE ILE A . n A 1 79 ALA 79 322 322 ALA ALA A . n A 1 80 LEU 80 323 323 LEU LEU A . n A 1 81 LEU 81 324 324 LEU LEU A . n A 1 82 LYS 82 325 325 LYS LYS A . n A 1 83 GLY 83 326 326 GLY GLY A . n A 1 84 SER 84 327 327 SER SER A . n A 1 85 ALA 85 328 328 ALA ALA A . n A 1 86 VAL 86 329 329 VAL VAL A . n A 1 87 GLU 87 330 330 GLU GLU A . n A 1 88 ALA 88 331 331 ALA ALA A . n A 1 89 MET 89 332 332 MET MET A . n A 1 90 PHE 90 333 333 PHE PHE A . n A 1 91 LEU 91 334 334 LEU LEU A . n A 1 92 ARG 92 335 335 ARG ARG A . n A 1 93 SER 93 336 336 SER SER A . n A 1 94 ALA 94 337 337 ALA ALA A . n A 1 95 GLU 95 338 338 GLU GLU A . n A 1 96 ILE 96 339 339 ILE ILE A . n A 1 97 PHE 97 340 340 PHE PHE A . n A 1 98 ASN 98 341 341 ASN ASN A . n A 1 99 LYS 99 342 342 LYS LYS A . n A 1 100 LYS 100 343 343 LYS LYS A . n A 1 101 LEU 101 344 344 LEU LEU A . n A 1 102 PRO 102 345 345 PRO PRO A . n A 1 103 SER 103 346 346 SER SER A . n A 1 104 GLY 104 347 347 GLY GLY A . n A 1 105 HIS 105 348 348 HIS HIS A . n A 1 106 SER 106 349 349 SER SER A . n A 1 107 ASP 107 350 350 ASP ASP A . n A 1 108 LEU 108 351 351 LEU LEU A . n A 1 109 LEU 109 352 352 LEU LEU A . n A 1 110 GLU 110 353 353 GLU GLU A . n A 1 111 ALA 111 354 354 ALA ALA A . n A 1 112 ARG 112 355 355 ARG ARG A . n A 1 113 ILE 113 356 356 ILE ILE A . n A 1 114 ARG 114 357 357 ARG ARG A . n A 1 115 ASN 115 358 358 ASN ASN A . n A 1 116 SER 116 359 359 SER SER A . n A 1 117 GLY 117 360 360 GLY GLY A . n A 1 118 ILE 118 361 361 ILE ILE A . n A 1 119 SER 119 362 362 SER SER A . n A 1 120 ASP 120 363 363 ASP ASP A . n A 1 121 GLU 121 364 364 GLU GLU A . n A 1 122 TYR 122 365 365 TYR TYR A . n A 1 123 ILE 123 366 366 ILE ILE A . n A 1 124 THR 124 367 367 THR THR A . n A 1 125 PRO 125 368 368 PRO PRO A . n A 1 126 MET 126 369 369 MET MET A . n A 1 127 PHE 127 370 370 PHE PHE A . n A 1 128 SER 128 371 371 SER SER A . n A 1 129 PHE 129 372 372 PHE PHE A . n A 1 130 TYR 130 373 373 TYR TYR A . n A 1 131 LYS 131 374 374 LYS LYS A . n A 1 132 SER 132 375 375 SER SER A . n A 1 133 ILE 133 376 376 ILE ILE A . n A 1 134 GLY 134 377 377 GLY GLY A . n A 1 135 GLU 135 378 378 GLU GLU A . n A 1 136 LEU 136 379 379 LEU LEU A . n A 1 137 LYS 137 380 380 LYS LYS A . n A 1 138 MET 138 381 381 MET MET A . n A 1 139 THR 139 382 382 THR THR A . n A 1 140 GLN 140 383 383 GLN GLN A . n A 1 141 GLU 141 384 384 GLU GLU A . n A 1 142 GLU 142 385 385 GLU GLU A . n A 1 143 TYR 143 386 386 TYR TYR A . n A 1 144 ALA 144 387 387 ALA ALA A . n A 1 145 LEU 145 388 388 LEU LEU A . n A 1 146 LEU 146 389 389 LEU LEU A . n A 1 147 THR 147 390 390 THR THR A . n A 1 148 ALA 148 391 391 ALA ALA A . n A 1 149 ILE 149 392 392 ILE ILE A . n A 1 150 VAL 150 393 393 VAL VAL A . n A 1 151 ILE 151 394 394 ILE ILE A . n A 1 152 LEU 152 395 395 LEU LEU A . n A 1 153 SER 153 396 396 SER SER A . n A 1 154 PRO 154 397 397 PRO PRO A . n A 1 155 ASP 155 398 398 ASP ASP A . n A 1 156 ARG 156 399 399 ARG ARG A . n A 1 157 GLN 157 400 400 GLN GLN A . n A 1 158 TYR 158 401 401 TYR TYR A . n A 1 159 ILE 159 402 402 ILE ILE A . n A 1 160 LYS 160 403 403 LYS LYS A . n A 1 161 ASP 161 404 404 ASP ASP A . n A 1 162 ARG 162 405 405 ARG ARG A . n A 1 163 GLU 163 406 406 GLU GLU A . n A 1 164 ALA 164 407 407 ALA ALA A . n A 1 165 VAL 165 408 408 VAL VAL A . n A 1 166 GLU 166 409 409 GLU GLU A . n A 1 167 LYS 167 410 410 LYS LYS A . n A 1 168 LEU 168 411 411 LEU LEU A . n A 1 169 GLN 169 412 412 GLN GLN A . n A 1 170 GLU 170 413 413 GLU GLU A . n A 1 171 PRO 171 414 414 PRO PRO A . n A 1 172 LEU 172 415 415 LEU LEU A . n A 1 173 LEU 173 416 416 LEU LEU A . n A 1 174 ASP 174 417 417 ASP ASP A . n A 1 175 VAL 175 418 418 VAL VAL A . n A 1 176 LEU 176 419 419 LEU LEU A . n A 1 177 GLN 177 420 420 GLN GLN A . n A 1 178 LYS 178 421 421 LYS LYS A . n A 1 179 LEU 179 422 422 LEU LEU A . n A 1 180 CYS 180 423 423 CYS CYS A . n A 1 181 LYS 181 424 424 LYS LYS A . n A 1 182 ILE 182 425 425 ILE ILE A . n A 1 183 HIS 183 426 426 HIS HIS A . n A 1 184 GLN 184 427 427 GLN GLN A . n A 1 185 PRO 185 428 428 PRO PRO A . n A 1 186 GLU 186 429 429 GLU GLU A . n A 1 187 ASN 187 430 430 ASN ASN A . n A 1 188 PRO 188 431 431 PRO PRO A . n A 1 189 GLN 189 432 432 GLN GLN A . n A 1 190 HIS 190 433 433 HIS HIS A . n A 1 191 PHE 191 434 434 PHE PHE A . n A 1 192 ALA 192 435 435 ALA ALA A . n A 1 193 CYS 193 436 436 CYS CYS A . n A 1 194 LEU 194 437 437 LEU LEU A . n A 1 195 LEU 195 438 438 LEU LEU A . n A 1 196 GLY 196 439 439 GLY GLY A . n A 1 197 ARG 197 440 440 ARG ARG A . n A 1 198 LEU 198 441 441 LEU LEU A . n A 1 199 THR 199 442 442 THR THR A . n A 1 200 GLU 200 443 443 GLU GLU A . n A 1 201 LEU 201 444 444 LEU LEU A . n A 1 202 ARG 202 445 445 ARG ARG A . n A 1 203 THR 203 446 446 THR THR A . n A 1 204 PHE 204 447 447 PHE PHE A . n A 1 205 ASN 205 448 448 ASN ASN A . n A 1 206 HIS 206 449 449 HIS HIS A . n A 1 207 HIS 207 450 450 HIS HIS A . n A 1 208 HIS 208 451 451 HIS HIS A . n A 1 209 ALA 209 452 452 ALA ALA A . n A 1 210 GLU 210 453 453 GLU GLU A . n A 1 211 MET 211 454 454 MET MET A . n A 1 212 LEU 212 455 455 LEU LEU A . n A 1 213 MET 213 456 456 MET MET A . n A 1 214 SER 214 457 457 SER SER A . n A 1 215 TRP 215 458 458 TRP TRP A . n A 1 216 ARG 216 459 ? ? ? A . n A 1 217 VAL 217 460 ? ? ? A . n A 1 218 ASN 218 461 ? ? ? A . n A 1 219 ASP 219 462 ? ? ? A . n A 1 220 HIS 220 463 ? ? ? A . n A 1 221 LYS 221 464 464 LYS LYS A . n A 1 222 PHE 222 465 465 PHE PHE A . n A 1 223 THR 223 466 466 THR THR A . n A 1 224 PRO 224 467 467 PRO PRO A . n A 1 225 LEU 225 468 468 LEU LEU A . n A 1 226 LEU 226 469 469 LEU LEU A . n A 1 227 CYS 227 470 470 CYS CYS A . n A 1 228 GLU 228 471 471 GLU GLU A . n A 1 229 ILE 229 472 472 ILE ILE A . n A 1 230 TRP 230 473 473 TRP TRP A . n A 1 231 ASP 231 474 474 ASP ASP A . n A 1 232 VAL 232 475 ? ? ? A . n A 1 233 GLN 233 476 ? ? ? A . n B 2 1 LYS 1 744 ? ? ? B . n B 2 2 ASP 2 745 ? ? ? B . n B 2 3 HIS 3 746 746 HIS HIS B . n B 2 4 GLN 4 747 747 GLN GLN B . n B 2 5 LEU 5 748 748 LEU LEU B . n B 2 6 LEU 6 749 749 LEU LEU B . n B 2 7 ARG 7 750 750 ARG ARG B . n B 2 8 TYR 8 751 751 TYR TYR B . n B 2 9 LEU 9 752 752 LEU LEU B . n B 2 10 LEU 10 753 753 LEU LEU B . n B 2 11 ASP 11 754 754 ASP ASP B . n B 2 12 LYS 12 755 755 LYS LYS B . n B 2 13 ASP 13 756 ? ? ? B . n B 2 14 GLU 14 757 ? ? ? B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 3 9L1 1 501 501 9L1 9L1 A . D 4 HOH 1 601 601 HOH HOH A . D 4 HOH 2 602 602 HOH HOH A . D 4 HOH 3 603 603 HOH HOH A . D 4 HOH 4 604 604 HOH HOH A . D 4 HOH 5 605 605 HOH HOH A . D 4 HOH 6 606 606 HOH HOH A . D 4 HOH 7 607 607 HOH HOH A . D 4 HOH 8 608 608 HOH HOH A . D 4 HOH 9 609 609 HOH HOH A . D 4 HOH 10 610 610 HOH HOH A . D 4 HOH 11 611 611 HOH HOH A . D 4 HOH 12 612 612 HOH HOH A . D 4 HOH 13 613 613 HOH HOH A . D 4 HOH 14 614 614 HOH HOH A . D 4 HOH 15 615 615 HOH HOH A . D 4 HOH 16 616 616 HOH HOH A . D 4 HOH 17 617 617 HOH HOH A . D 4 HOH 18 618 618 HOH HOH A . D 4 HOH 19 619 619 HOH HOH A . D 4 HOH 20 620 620 HOH HOH A . D 4 HOH 21 621 621 HOH HOH A . D 4 HOH 22 622 622 HOH HOH A . D 4 HOH 23 623 623 HOH HOH A . D 4 HOH 24 624 624 HOH HOH A . D 4 HOH 25 625 625 HOH HOH A . D 4 HOH 26 626 626 HOH HOH A . D 4 HOH 27 627 627 HOH HOH A . D 4 HOH 28 628 628 HOH HOH A . D 4 HOH 29 629 629 HOH HOH A . D 4 HOH 30 630 630 HOH HOH A . D 4 HOH 31 631 631 HOH HOH A . D 4 HOH 32 632 632 HOH HOH A . D 4 HOH 33 633 633 HOH HOH A . D 4 HOH 34 634 634 HOH HOH A . D 4 HOH 35 635 635 HOH HOH A . D 4 HOH 36 636 636 HOH HOH A . D 4 HOH 37 637 637 HOH HOH A . D 4 HOH 38 638 638 HOH HOH A . E 4 HOH 1 801 801 HOH HOH B . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 1080 ? 1 MORE -7 ? 1 'SSA (A^2)' 11510 ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2017-07-05 2 'Structure model' 1 1 2017-07-19 3 'Structure model' 1 2 2017-12-20 4 'Structure model' 1 3 2018-01-31 5 'Structure model' 1 4 2018-02-21 6 'Structure model' 1 5 2021-02-10 7 'Structure model' 1 6 2021-11-17 # _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' 'Structure summary' 3 3 'Structure model' 'Database references' 4 4 'Structure model' 'Database references' 5 5 'Structure model' 'Structure summary' 6 6 'Structure model' 'Database references' 7 6 'Structure model' 'Structure summary' 8 7 'Structure model' 'Database references' 9 7 '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' audit_author 2 2 'Structure model' citation_author 3 3 'Structure model' citation 4 3 'Structure model' citation_author 5 4 'Structure model' citation 6 5 'Structure model' pdbx_deposit_group 7 6 'Structure model' audit_author 8 6 'Structure model' citation 9 6 'Structure model' citation_author 10 7 'Structure model' database_2 11 7 'Structure model' pdbx_deposit_group # 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 3 'Structure model' '_citation.journal_abbrev' 2 3 'Structure model' '_citation.journal_id_CSD' 3 3 'Structure model' '_citation.journal_id_ISSN' 4 3 'Structure model' '_citation.pdbx_database_id_DOI' 5 3 'Structure model' '_citation.pdbx_database_id_PubMed' 6 3 'Structure model' '_citation.title' 7 3 'Structure model' '_citation.year' 8 4 'Structure model' '_citation.journal_volume' 9 4 'Structure model' '_citation.page_first' 10 4 'Structure model' '_citation.page_last' 11 4 'Structure model' '_citation.year' 12 5 'Structure model' '_pdbx_deposit_group.group_type' 13 6 'Structure model' '_audit_author.identifier_ORCID' 14 6 'Structure model' '_citation.country' 15 6 'Structure model' '_citation_author.identifier_ORCID' 16 7 'Structure model' '_database_2.pdbx_DOI' 17 7 'Structure model' '_database_2.pdbx_database_accession' 18 7 'Structure model' '_pdbx_deposit_group.group_description' # loop_ _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] 'X-RAY DIFFRACTION' 1 ? refined 4.2067 23.4853 12.4027 0.2600 0.4633 0.5667 0.0966 0.0361 -0.0194 0.7007 0.4614 0.6230 -0.0541 0.3367 0.1735 -0.4570 0.1052 0.0039 -0.0167 0.1002 -0.2631 0.1835 0.0293 0.2674 'X-RAY DIFFRACTION' 2 ? refined -2.1084 50.7497 -0.7235 0.6461 0.5180 0.7798 -0.0461 -0.0375 0.0003 0.0135 0.5402 0.3764 -0.1202 -0.0179 0.3417 -0.1837 -0.4173 -0.1022 -0.2890 1.0001 -1.3731 -0.0362 -0.2351 -0.4195 'X-RAY DIFFRACTION' 3 ? refined -1.0740 36.9654 -5.3171 0.2957 0.3058 0.3584 -0.0191 0.1167 -0.0209 0.8556 0.3938 2.9791 -0.3273 0.2214 0.0326 0.1298 -0.3936 -0.0201 0.1394 0.4208 -0.8974 -0.8083 0.1067 0.1328 'X-RAY DIFFRACTION' 4 ? refined -5.4994 32.1929 -2.4529 0.3035 0.2995 0.2588 -0.0412 0.0228 -0.0427 1.5364 2.3447 2.0103 0.3594 0.1705 -2.1439 0.0310 0.1896 0.0007 -0.0161 0.0670 -0.2014 -0.3787 -0.1536 0.2331 'X-RAY DIFFRACTION' 5 ? refined -16.4962 43.9637 2.6182 0.3899 0.5202 0.4830 0.1435 0.0640 -0.0514 0.1359 2.1547 0.9953 -0.4536 0.6504 -1.6297 -0.0883 0.2138 0.0009 -0.2153 0.0395 0.5593 0.1015 -0.3186 -0.6219 'X-RAY DIFFRACTION' 6 ? refined -5.9913 25.1916 1.2138 0.2434 0.2997 0.1989 -0.0839 0.0240 -0.0005 2.0637 1.3282 1.0646 -0.1719 -0.0139 -1.1762 -0.1694 -0.0044 -0.0002 0.0878 0.0751 0.0873 0.1128 0.9455 -0.3788 'X-RAY DIFFRACTION' 7 ? refined -4.3128 17.7761 7.1568 0.4417 0.3469 0.3719 0.0045 0.1122 -0.0114 2.7128 0.2622 3.3979 -0.4501 -0.4203 -0.5739 -0.3296 0.4115 0.0369 -0.6028 -0.5150 -0.2140 -0.1822 1.1146 -0.0110 'X-RAY DIFFRACTION' 8 ? refined -16.1014 28.8387 2.9674 0.2415 0.5146 0.3939 -0.1129 -0.0108 -0.0166 3.2047 2.7018 1.0226 -1.5716 -0.7773 -0.9446 -0.2578 0.4813 0.1903 -0.4022 -0.0532 0.8785 -0.3239 0.3876 -1.1435 'X-RAY DIFFRACTION' 9 ? refined -7.4742 39.1521 -15.4387 0.5952 0.3489 0.2829 0.0127 -0.0587 -0.0538 0.8522 2.0280 1.7681 0.6571 0.5119 -1.1348 -0.3631 -0.2885 -0.1633 0.9453 0.1174 -0.0186 -2.0076 -0.4925 0.6059 'X-RAY DIFFRACTION' 10 ? refined 6.4970 32.7678 -13.7324 0.7298 0.3356 0.4853 -0.0648 0.4722 0.0144 4.0814 4.7752 4.0507 -4.1305 3.2134 -2.3454 -1.2088 -0.6012 -1.7377 0.3507 0.0610 -1.7641 -0.9504 1.0423 0.6471 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.selection_details _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 'X-RAY DIFFRACTION' 1 1 A 247 A 265 ;chain 'A' and (resid 247 through 265 ) ; ? ? ? ? ? 'X-RAY DIFFRACTION' 2 2 A 266 A 283 ;chain 'A' and (resid 266 through 283 ) ; ? ? ? ? ? 'X-RAY DIFFRACTION' 3 3 A 284 A 316 ;chain 'A' and (resid 284 through 316 ) ; ? ? ? ? ? 'X-RAY DIFFRACTION' 4 4 A 317 A 342 ;chain 'A' and (resid 317 through 342 ) ; ? ? ? ? ? 'X-RAY DIFFRACTION' 5 5 A 343 A 379 ;chain 'A' and (resid 343 through 379 ) ; ? ? ? ? ? 'X-RAY DIFFRACTION' 6 6 A 380 A 404 ;chain 'A' and (resid 380 through 404 ) ; ? ? ? ? ? 'X-RAY DIFFRACTION' 7 7 A 405 A 426 ;chain 'A' and (resid 405 through 426 ) ; ? ? ? ? ? 'X-RAY DIFFRACTION' 8 8 A 427 A 456 ;chain 'A' and (resid 427 through 456 ) ; ? ? ? ? ? 'X-RAY DIFFRACTION' 9 9 A 457 A 474 ;chain 'A' and (resid 457 through 474 ) ; ? ? ? ? ? 'X-RAY DIFFRACTION' 10 10 B 746 B 755 ;chain 'B' and (resid 746 through 755 ) ; ? ? ? ? ? # _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 PHENIX . ? ? ? ? refinement ? ? ? 2 HKL-2000 . ? package 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data scaling' http://www.hkl-xray.com/ ? ? 3 PDB_EXTRACT 3.23 'Dec. 13, 2016' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 4 HKL-2000 . ? ? ? ? 'data reduction' ? ? ? # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 LYS A 342 ? ? -131.87 -39.33 2 1 TYR A 401 ? ? 80.94 20.39 3 1 LYS A 403 ? ? -81.10 -70.26 # _pdbx_unobs_or_zero_occ_atoms.id 1 _pdbx_unobs_or_zero_occ_atoms.PDB_model_num 1 _pdbx_unobs_or_zero_occ_atoms.polymer_flag Y _pdbx_unobs_or_zero_occ_atoms.occupancy_flag 1 _pdbx_unobs_or_zero_occ_atoms.auth_asym_id A _pdbx_unobs_or_zero_occ_atoms.auth_comp_id SER _pdbx_unobs_or_zero_occ_atoms.auth_seq_id 346 _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code ? _pdbx_unobs_or_zero_occ_atoms.auth_atom_id OG _pdbx_unobs_or_zero_occ_atoms.label_alt_id ? _pdbx_unobs_or_zero_occ_atoms.label_asym_id A _pdbx_unobs_or_zero_occ_atoms.label_comp_id SER _pdbx_unobs_or_zero_occ_atoms.label_seq_id 103 _pdbx_unobs_or_zero_occ_atoms.label_atom_id OG # 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 GLY 244 ? A GLY 1 2 1 Y 1 A SER 245 ? A SER 2 3 1 Y 1 A HIS 246 ? A HIS 3 4 1 Y 1 A ARG 459 ? A ARG 216 5 1 Y 1 A VAL 460 ? A VAL 217 6 1 Y 1 A ASN 461 ? A ASN 218 7 1 Y 1 A ASP 462 ? A ASP 219 8 1 Y 1 A HIS 463 ? A HIS 220 9 1 Y 1 A VAL 475 ? A VAL 232 10 1 Y 1 A GLN 476 ? A GLN 233 11 1 Y 1 B LYS 744 ? B LYS 1 12 1 Y 1 B ASP 745 ? B ASP 2 13 1 Y 1 B ASP 756 ? B ASP 13 14 1 Y 1 B GLU 757 ? B GLU 14 # _pdbx_deposit_group.group_id G_1002033 _pdbx_deposit_group.group_description 'Ligand binding to FARNESOID-X-RECEPTOR' _pdbx_deposit_group.group_title 'Ligand binding to FARNESOID-X-RECEPTOR' _pdbx_deposit_group.group_type undefined # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 '5-{[(3beta,5beta,14beta,17alpha)-3-hydroxy-24-oxocholan-24-yl]amino}benzene-1,3-dicarboxylic acid' 9L1 4 water HOH #