data_3C59 # _entry.id 3C59 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.294 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 3C59 RCSB RCSB046357 WWPDB D_1000046357 # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 3C5T _pdbx_database_related.details 'The same protein in complex with the native ligand Exendin-4(9-39)' _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3C59 _pdbx_database_status.recvd_initial_deposition_date 2008-01-31 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? # _audit_author.name 'Runge, S.' _audit_author.pdbx_ordinal 1 # _citation.id primary _citation.title 'Crystal Structure of the Ligand-bound Glucagon-like Peptide-1 Receptor Extracellular Domain' _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 283 _citation.page_first 11340 _citation.page_last 11347 _citation.year 2008 _citation.journal_id_ASTM JBCHA3 _citation.country US _citation.journal_id_ISSN 0021-9258 _citation.journal_id_CSD 0071 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 18287102 _citation.pdbx_database_id_DOI 10.1074/jbc.M708740200 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Runge, S.' 1 primary 'Thogersen, H.' 2 primary 'Madsen, K.' 3 primary 'Lau, J.' 4 primary 'Rudolph, R.' 5 # _cell.entry_id 3C59 _cell.length_a 75.850 _cell.length_b 75.850 _cell.length_c 87.550 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3C59 _symmetry.space_group_name_H-M 'P 31 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? # 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 'Glucagon-like peptide 1 receptor' 14325.841 1 ? ? 'N-terminal extracellular domain, UNP residues 24-145' ? 2 polymer syn Exendin-4 3485.593 1 ? ? 'UNP residues 56-86' ? 3 non-polymer man 'decyl 4-O-alpha-D-glucopyranosyl-1-thio-beta-D-glucopyranoside' 498.628 1 ? ? ? ? 4 water nat water 18.015 105 ? ? ? ? # loop_ _entity_name_com.entity_id _entity_name_com.name 1 'GLP-1 receptor, GLP-1-R, GLP-1R' 2 Exenatide # 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 ;RPQGATVSLWETVQKWREYRRQCQRSLTEDPPPATDLFCNRTFDEYACWPDGEPGSFVNVSCPWYLPWASSVPQGHVYRF CTAEGLWLQKDNSSLPWRDLSECEESKRGERSSPEEQLLFLY ; ;RPQGATVSLWETVQKWREYRRQCQRSLTEDPPPATDLFCNRTFDEYACWPDGEPGSFVNVSCPWYLPWASSVPQGHVYRF CTAEGLWLQKDNSSLPWRDLSECEESKRGERSSPEEQLLFLY ; A ? 2 'polypeptide(L)' no yes 'DLSKQ(MSE)EEEAVR(MSE)FIEWLKNGGPSSGAPPPS' DLSKQMEEEAVRMFIEWLKNGGPSSGAPPPS B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ARG n 1 2 PRO n 1 3 GLN n 1 4 GLY n 1 5 ALA n 1 6 THR n 1 7 VAL n 1 8 SER n 1 9 LEU n 1 10 TRP n 1 11 GLU n 1 12 THR n 1 13 VAL n 1 14 GLN n 1 15 LYS n 1 16 TRP n 1 17 ARG n 1 18 GLU n 1 19 TYR n 1 20 ARG n 1 21 ARG n 1 22 GLN n 1 23 CYS n 1 24 GLN n 1 25 ARG n 1 26 SER n 1 27 LEU n 1 28 THR n 1 29 GLU n 1 30 ASP n 1 31 PRO n 1 32 PRO n 1 33 PRO n 1 34 ALA n 1 35 THR n 1 36 ASP n 1 37 LEU n 1 38 PHE n 1 39 CYS n 1 40 ASN n 1 41 ARG n 1 42 THR n 1 43 PHE n 1 44 ASP n 1 45 GLU n 1 46 TYR n 1 47 ALA n 1 48 CYS n 1 49 TRP n 1 50 PRO n 1 51 ASP n 1 52 GLY n 1 53 GLU n 1 54 PRO n 1 55 GLY n 1 56 SER n 1 57 PHE n 1 58 VAL n 1 59 ASN n 1 60 VAL n 1 61 SER n 1 62 CYS n 1 63 PRO n 1 64 TRP n 1 65 TYR n 1 66 LEU n 1 67 PRO n 1 68 TRP n 1 69 ALA n 1 70 SER n 1 71 SER n 1 72 VAL n 1 73 PRO n 1 74 GLN n 1 75 GLY n 1 76 HIS n 1 77 VAL n 1 78 TYR n 1 79 ARG n 1 80 PHE n 1 81 CYS n 1 82 THR n 1 83 ALA n 1 84 GLU n 1 85 GLY n 1 86 LEU n 1 87 TRP n 1 88 LEU n 1 89 GLN n 1 90 LYS n 1 91 ASP n 1 92 ASN n 1 93 SER n 1 94 SER n 1 95 LEU n 1 96 PRO n 1 97 TRP n 1 98 ARG n 1 99 ASP n 1 100 LEU n 1 101 SER n 1 102 GLU n 1 103 CYS n 1 104 GLU n 1 105 GLU n 1 106 SER n 1 107 LYS n 1 108 ARG n 1 109 GLY n 1 110 GLU n 1 111 ARG n 1 112 SER n 1 113 SER n 1 114 PRO n 1 115 GLU n 1 116 GLU n 1 117 GLN n 1 118 LEU n 1 119 LEU n 1 120 PHE n 1 121 LEU n 1 122 TYR n 2 1 ASP n 2 2 LEU n 2 3 SER n 2 4 LYS n 2 5 GLN n 2 6 MSE n 2 7 GLU n 2 8 GLU n 2 9 GLU n 2 10 ALA n 2 11 VAL n 2 12 ARG n 2 13 MSE n 2 14 PHE n 2 15 ILE n 2 16 GLU n 2 17 TRP n 2 18 LEU n 2 19 LYS n 2 20 ASN n 2 21 GLY n 2 22 GLY n 2 23 PRO n 2 24 SER n 2 25 SER n 2 26 GLY n 2 27 ALA n 2 28 PRO n 2 29 PRO n 2 30 PRO n 2 31 SER 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 ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name human _entity_src_gen.gene_src_genus Homo _entity_src_gen.pdbx_gene_src_gene 'Glucagon-like peptide-1 receptor(GLP1R)' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli BL21(DE3)' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 469008 _entity_src_gen.host_org_genus Escherichia _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species 'Escherichia coli' _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain 'BL21(DE3)' _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type 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 pET15b _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 ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'This peptide has been chemically synthesized; this sequence occurs naturally in Heloderma suspectum.' # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin _struct_ref.pdbx_db_isoform 1 UNP GLP1R_HUMAN P43220 1 ;RPQGATVSLWETVQKWREYRRQCQRSLTEDPPPATDLFCNRTFDEYACWPDGEPGSFVNVSCPWYLPWASSVPQGHVYRF CTAEGLWLQKDNSSLPWRDLSECEESKRGERSSPEEQLLFLY ; 24 ? 2 UNP EXE4_HELSU P26349 2 DLSKQMEEEAVRLFIEWLKNGGPSSGAPPPS 56 ? # 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 3C59 A 1 ? 122 ? P43220 24 ? 145 ? 24 145 2 2 3C59 B 1 ? 31 ? P26349 56 ? 86 ? 9 39 # _struct_ref_seq_dif.align_id 2 _struct_ref_seq_dif.pdbx_pdb_id_code 3C59 _struct_ref_seq_dif.mon_id MSE _struct_ref_seq_dif.pdbx_pdb_strand_id B _struct_ref_seq_dif.seq_num 13 _struct_ref_seq_dif.pdbx_pdb_ins_code ? _struct_ref_seq_dif.pdbx_seq_db_name UNP _struct_ref_seq_dif.pdbx_seq_db_accession_code P26349 _struct_ref_seq_dif.db_mon_id LEU _struct_ref_seq_dif.pdbx_seq_db_seq_num 68 _struct_ref_seq_dif.details 'MODIFIED RESIDUE' _struct_ref_seq_dif.pdbx_auth_seq_num 21 _struct_ref_seq_dif.pdbx_ordinal 1 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight 10M D-saccharide . 'decyl 4-O-alpha-D-glucopyranosyl-1-thio-beta-D-glucopyranoside' ;(2R,3R,4S,5S,6R)-2-((2R,3S,4R,5R,6S)-6-Decylsulfanyl-4,5-dihydroxy-2-hydroxymethyl-tetrahydro-pyran-3-yloxy)-6-hydroxymethyl-tetrahydro-pyran-3,4,5-triol, n-Decyl-beta-D-thiomaltoside ; 'C22 H42 O10 S' 498.628 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 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 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.entry_id 3C59 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 4.08 _exptl_crystal.density_percent_sol 69.87 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 8.5 _exptl_crystal_grow.pdbx_details ;0.1M Tris-HCl pH 8.5, 0.1M MgCl2, 0.4M MgTartrate, 9mM n-Decyl-beta-D-thiomaltoside, VAPOR DIFFUSION, HANGING DROP, temperature 293K ; _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'MARMOSAIC 225 mm CCD' _diffrn_detector.pdbx_collection_date 2006-10-17 _diffrn_detector.details mirrors # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.9782 1.0 2 0.9790 1.0 3 0.96 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'MAX II BEAMLINE I911-3' _diffrn_source.pdbx_synchrotron_site 'MAX II' _diffrn_source.pdbx_synchrotron_beamline I911-3 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list '0.9782, 0.9790, 0.96' # _reflns.entry_id 3C59 _reflns.observed_criterion_sigma_F 0 _reflns.observed_criterion_sigma_I 0 _reflns.d_resolution_high 2.2 _reflns.d_resolution_low 40 _reflns.number_all 13359 _reflns.number_obs 13273 _reflns.percent_possible_obs 99.4 _reflns.pdbx_Rmerge_I_obs 0.074 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 19.0 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 5.8 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 2.2 _reflns_shell.d_res_low 2.3 _reflns_shell.percent_possible_all 98.9 _reflns_shell.Rmerge_I_obs 0.561 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 4.05 _reflns_shell.pdbx_redundancy 5.8 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 3574 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 3C59 _refine.ls_number_reflns_obs 12615 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 37.93 _refine.ls_d_res_high 2.30 _refine.ls_percent_reflns_obs 99.36 _refine.ls_R_factor_obs 0.19869 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.19647 _refine.ls_R_factor_R_free 0.24080 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.0 _refine.ls_number_reflns_R_free 658 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.933 _refine.correlation_coeff_Fo_to_Fc_free 0.904 _refine.B_iso_mean 54.746 _refine.aniso_B[1][1] 0.01 _refine.aniso_B[2][2] 0.01 _refine.aniso_B[3][3] -0.01 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct MAD _refine.pdbx_isotropic_thermal_model Isotropic _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.180 _refine.pdbx_overall_ESU_R_Free 0.174 _refine.overall_SU_ML 0.103 _refine.overall_SU_B 7.491 _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag 'LIKELY RESIDUAL' _refine.pdbx_diffrn_id 1 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1059 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 33 _refine_hist.number_atoms_solvent 105 _refine_hist.number_atoms_total 1197 _refine_hist.d_res_high 2.30 _refine_hist.d_res_low 37.93 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.019 0.022 ? 1130 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.994 1.962 ? 1539 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 19.764 5.000 ? 128 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 34.747 23.929 ? 56 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 17.264 15.000 ? 171 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 15.888 15.000 ? 8 'X-RAY DIFFRACTION' ? r_chiral_restr 0.136 0.200 ? 157 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.008 0.020 ? 865 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_refined 0.228 0.200 ? 479 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.307 0.200 ? 748 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.164 0.200 ? 98 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.206 0.200 ? 24 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.253 0.200 ? 12 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 1.398 1.500 ? 669 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 2.078 2.000 ? 1050 'X-RAY DIFFRACTION' ? r_scbond_it 2.960 3.000 ? 553 'X-RAY DIFFRACTION' ? r_scangle_it 4.576 4.500 ? 489 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.300 _refine_ls_shell.d_res_low 2.360 _refine_ls_shell.number_reflns_R_work 914 _refine_ls_shell.R_factor_R_work 0.183 _refine_ls_shell.percent_reflns_obs 99.28 _refine_ls_shell.R_factor_R_free 0.249 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 52 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3C59 _struct.title 'Crystal structure of the ligand-bound glucagon-like peptide-1 receptor extracellular domain' _struct.pdbx_descriptor 'Glucagon-like peptide 1 receptor, Exendin-4' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3C59 _struct_keywords.pdbx_keywords 'Signaling protein/Signaling protein' _struct_keywords.text ;ligand-bound G protein-coupled receptor, G-protein coupled receptor, Glycoprotein, Membrane, Transducer, Transmembrane, Amidation, Cleavage on pair of basic residues, Secreted, Signaling protein-Signaling protein COMPLEX ; # 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 1 SER A 8 ? ASP A 30 ? SER A 31 ASP A 53 1 ? 23 HELX_P HELX_P2 2 TRP A 68 ? VAL A 72 ? TRP A 91 VAL A 95 5 ? 5 HELX_P HELX_P3 3 LEU A 100 ? GLU A 104 ? LEU A 123 GLU A 127 5 ? 5 HELX_P HELX_P4 4 ASP B 1 ? ASN B 20 ? ASP B 9 ASN B 28 1 ? 20 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf1 disulf ? ? A CYS 23 SG ? ? ? 1_555 A CYS 48 SG ? ? A CYS 46 A CYS 71 1_555 ? ? ? ? ? ? ? 2.167 ? disulf2 disulf ? ? A CYS 39 SG ? ? ? 1_555 A CYS 81 SG ? ? A CYS 62 A CYS 104 1_555 ? ? ? ? ? ? ? 2.065 ? disulf3 disulf ? ? A CYS 62 SG ? ? ? 1_555 A CYS 103 SG ? ? A CYS 85 A CYS 126 1_555 ? ? ? ? ? ? ? 2.030 ? covale1 covale ? ? B GLN 5 C ? ? ? 1_555 B MSE 6 N ? ? B GLN 13 B MSE 14 1_555 ? ? ? ? ? ? ? 1.339 ? covale2 covale ? ? B MSE 6 C ? ? ? 1_555 B GLU 7 N ? ? B MSE 14 B GLU 15 1_555 ? ? ? ? ? ? ? 1.331 ? covale3 covale ? ? B ARG 12 C ? ? ? 1_555 B MSE 13 N ? ? B ARG 20 B MSE 21 1_555 ? ? ? ? ? ? ? 1.348 ? covale4 covale ? ? B MSE 13 C ? ? ? 1_555 B PHE 14 N ? ? B MSE 21 B PHE 22 1_555 ? ? ? ? ? ? ? 1.328 ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? covale ? ? # loop_ _struct_mon_prot_cis.pdbx_id _struct_mon_prot_cis.label_comp_id _struct_mon_prot_cis.label_seq_id _struct_mon_prot_cis.label_asym_id _struct_mon_prot_cis.label_alt_id _struct_mon_prot_cis.pdbx_PDB_ins_code _struct_mon_prot_cis.auth_comp_id _struct_mon_prot_cis.auth_seq_id _struct_mon_prot_cis.auth_asym_id _struct_mon_prot_cis.pdbx_label_comp_id_2 _struct_mon_prot_cis.pdbx_label_seq_id_2 _struct_mon_prot_cis.pdbx_label_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_ins_code_2 _struct_mon_prot_cis.pdbx_auth_comp_id_2 _struct_mon_prot_cis.pdbx_auth_seq_id_2 _struct_mon_prot_cis.pdbx_auth_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_model_num _struct_mon_prot_cis.pdbx_omega_angle 1 ALA 83 A . ? ALA 106 A GLU 84 A ? GLU 107 A 1 -18.16 2 LYS 90 A . ? LYS 113 A ASP 91 A ? ASP 114 A 1 -26.53 3 ASN 92 A . ? ASN 115 A SER 93 A ? SER 116 A 1 10.62 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 2 ? B ? 2 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel B 1 2 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 THR A 42 ? PHE A 43 ? THR A 65 PHE A 66 A 2 CYS A 48 ? TRP A 49 ? CYS A 71 TRP A 72 B 1 SER A 56 ? SER A 61 ? SER A 79 SER A 84 B 2 HIS A 76 ? CYS A 81 ? HIS A 99 CYS A 104 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 N THR A 42 ? N THR A 65 O TRP A 49 ? O TRP A 72 B 1 2 N SER A 56 ? N SER A 79 O CYS A 81 ? O CYS A 104 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _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 7 _struct_site.details 'BINDING SITE FOR RESIDUE 10M A 1' # 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 7 ARG A 20 ? ARG A 43 . ? 3_564 ? 2 AC1 7 PHE A 57 ? PHE A 80 . ? 1_555 ? 3 AC1 7 ASN A 59 ? ASN A 82 . ? 1_555 ? 4 AC1 7 HIS A 76 ? HIS A 99 . ? 1_555 ? 5 AC1 7 TYR A 78 ? TYR A 101 . ? 1_555 ? 6 AC1 7 HOH D . ? HOH A 155 . ? 1_555 ? 7 AC1 7 HOH D . ? HOH A 222 . ? 1_555 ? # _database_PDB_matrix.entry_id 3C59 _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 3C59 _atom_sites.fract_transf_matrix[1][1] 0.013184 _atom_sites.fract_transf_matrix[1][2] 0.007612 _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] 0.015223 _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] 0.011422 _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 SE # 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 ARG 1 24 ? ? ? A . n A 1 2 PRO 2 25 ? ? ? A . n A 1 3 GLN 3 26 ? ? ? A . n A 1 4 GLY 4 27 ? ? ? A . n A 1 5 ALA 5 28 ? ? ? A . n A 1 6 THR 6 29 29 THR THR A . n A 1 7 VAL 7 30 30 VAL VAL A . n A 1 8 SER 8 31 31 SER SER A . n A 1 9 LEU 9 32 32 LEU LEU A . n A 1 10 TRP 10 33 33 TRP TRP A . n A 1 11 GLU 11 34 34 GLU GLU A . n A 1 12 THR 12 35 35 THR THR A . n A 1 13 VAL 13 36 36 VAL VAL A . n A 1 14 GLN 14 37 37 GLN GLN A . n A 1 15 LYS 15 38 38 LYS LYS A . n A 1 16 TRP 16 39 39 TRP TRP A . n A 1 17 ARG 17 40 40 ARG ARG A . n A 1 18 GLU 18 41 41 GLU GLU A . n A 1 19 TYR 19 42 42 TYR TYR A . n A 1 20 ARG 20 43 43 ARG ARG A . n A 1 21 ARG 21 44 44 ARG ARG A . n A 1 22 GLN 22 45 45 GLN GLN A . n A 1 23 CYS 23 46 46 CYS CYS A . n A 1 24 GLN 24 47 47 GLN GLN A . n A 1 25 ARG 25 48 48 ARG ARG A . n A 1 26 SER 26 49 49 SER SER A . n A 1 27 LEU 27 50 50 LEU LEU A . n A 1 28 THR 28 51 51 THR THR A . n A 1 29 GLU 29 52 52 GLU GLU A . n A 1 30 ASP 30 53 53 ASP ASP A . n A 1 31 PRO 31 54 54 PRO PRO A . n A 1 32 PRO 32 55 55 PRO PRO A . n A 1 33 PRO 33 56 56 PRO PRO A . n A 1 34 ALA 34 57 57 ALA ALA A . n A 1 35 THR 35 58 58 THR THR A . n A 1 36 ASP 36 59 59 ASP ASP A . n A 1 37 LEU 37 60 60 LEU LEU A . n A 1 38 PHE 38 61 61 PHE PHE A . n A 1 39 CYS 39 62 62 CYS CYS A . n A 1 40 ASN 40 63 63 ASN ASN A . n A 1 41 ARG 41 64 64 ARG ARG A . n A 1 42 THR 42 65 65 THR THR A . n A 1 43 PHE 43 66 66 PHE PHE A . n A 1 44 ASP 44 67 67 ASP ASP A . n A 1 45 GLU 45 68 68 GLU GLU A . n A 1 46 TYR 46 69 69 TYR TYR A . n A 1 47 ALA 47 70 70 ALA ALA A . n A 1 48 CYS 48 71 71 CYS CYS A . n A 1 49 TRP 49 72 72 TRP TRP A . n A 1 50 PRO 50 73 73 PRO PRO A . n A 1 51 ASP 51 74 74 ASP ASP A . n A 1 52 GLY 52 75 75 GLY GLY A . n A 1 53 GLU 53 76 76 GLU GLU A . n A 1 54 PRO 54 77 77 PRO PRO A . n A 1 55 GLY 55 78 78 GLY GLY A . n A 1 56 SER 56 79 79 SER SER A . n A 1 57 PHE 57 80 80 PHE PHE A . n A 1 58 VAL 58 81 81 VAL VAL A . n A 1 59 ASN 59 82 82 ASN ASN A . n A 1 60 VAL 60 83 83 VAL VAL A . n A 1 61 SER 61 84 84 SER SER A . n A 1 62 CYS 62 85 85 CYS CYS A . n A 1 63 PRO 63 86 86 PRO PRO A . n A 1 64 TRP 64 87 87 TRP TRP A . n A 1 65 TYR 65 88 88 TYR TYR A . n A 1 66 LEU 66 89 89 LEU LEU A . n A 1 67 PRO 67 90 90 PRO PRO A . n A 1 68 TRP 68 91 91 TRP TRP A . n A 1 69 ALA 69 92 92 ALA ALA A . n A 1 70 SER 70 93 93 SER SER A . n A 1 71 SER 71 94 94 SER SER A . n A 1 72 VAL 72 95 95 VAL VAL A . n A 1 73 PRO 73 96 96 PRO PRO A . n A 1 74 GLN 74 97 97 GLN GLN A . n A 1 75 GLY 75 98 98 GLY GLY A . n A 1 76 HIS 76 99 99 HIS HIS A . n A 1 77 VAL 77 100 100 VAL VAL A . n A 1 78 TYR 78 101 101 TYR TYR A . n A 1 79 ARG 79 102 102 ARG ARG A . n A 1 80 PHE 80 103 103 PHE PHE A . n A 1 81 CYS 81 104 104 CYS CYS A . n A 1 82 THR 82 105 105 THR THR A . n A 1 83 ALA 83 106 106 ALA ALA A . n A 1 84 GLU 84 107 107 GLU GLU A . n A 1 85 GLY 85 108 108 GLY GLY A . n A 1 86 LEU 86 109 109 LEU LEU A . n A 1 87 TRP 87 110 110 TRP TRP A . n A 1 88 LEU 88 111 111 LEU LEU A . n A 1 89 GLN 89 112 112 GLN GLN A . n A 1 90 LYS 90 113 113 LYS LYS A . n A 1 91 ASP 91 114 114 ASP ASP A . n A 1 92 ASN 92 115 115 ASN ASN A . n A 1 93 SER 93 116 116 SER SER A . n A 1 94 SER 94 117 117 SER SER A . n A 1 95 LEU 95 118 118 LEU LEU A . n A 1 96 PRO 96 119 119 PRO PRO A . n A 1 97 TRP 97 120 120 TRP TRP A . n A 1 98 ARG 98 121 121 ARG ARG A . n A 1 99 ASP 99 122 122 ASP ASP A . n A 1 100 LEU 100 123 123 LEU LEU A . n A 1 101 SER 101 124 124 SER SER A . n A 1 102 GLU 102 125 125 GLU GLU A . n A 1 103 CYS 103 126 126 CYS CYS A . n A 1 104 GLU 104 127 127 GLU GLU A . n A 1 105 GLU 105 128 128 GLU GLU A . n A 1 106 SER 106 129 129 SER SER A . n A 1 107 LYS 107 130 130 LYS LYS A . n A 1 108 ARG 108 131 131 ARG ARG A . n A 1 109 GLY 109 132 ? ? ? A . n A 1 110 GLU 110 133 ? ? ? A . n A 1 111 ARG 111 134 ? ? ? A . n A 1 112 SER 112 135 ? ? ? A . n A 1 113 SER 113 136 ? ? ? A . n A 1 114 PRO 114 137 ? ? ? A . n A 1 115 GLU 115 138 ? ? ? A . n A 1 116 GLU 116 139 ? ? ? A . n A 1 117 GLN 117 140 ? ? ? A . n A 1 118 LEU 118 141 ? ? ? A . n A 1 119 LEU 119 142 ? ? ? A . n A 1 120 PHE 120 143 ? ? ? A . n A 1 121 LEU 121 144 ? ? ? A . n A 1 122 TYR 122 145 ? ? ? A . n B 2 1 ASP 1 9 9 ASP ASP B . n B 2 2 LEU 2 10 10 LEU LEU B . n B 2 3 SER 3 11 11 SER SER B . n B 2 4 LYS 4 12 12 LYS LYS B . n B 2 5 GLN 5 13 13 GLN GLN B . n B 2 6 MSE 6 14 14 MSE MSE B . n B 2 7 GLU 7 15 15 GLU GLU B . n B 2 8 GLU 8 16 16 GLU GLU B . n B 2 9 GLU 9 17 17 GLU GLU B . n B 2 10 ALA 10 18 18 ALA ALA B . n B 2 11 VAL 11 19 19 VAL VAL B . n B 2 12 ARG 12 20 20 ARG ARG B . n B 2 13 MSE 13 21 21 MSE MSE B . n B 2 14 PHE 14 22 22 PHE PHE B . n B 2 15 ILE 15 23 23 ILE ILE B . n B 2 16 GLU 16 24 24 GLU GLU B . n B 2 17 TRP 17 25 25 TRP TRP B . n B 2 18 LEU 18 26 26 LEU LEU B . n B 2 19 LYS 19 27 27 LYS LYS B . n B 2 20 ASN 20 28 28 ASN ASN B . n B 2 21 GLY 21 29 29 GLY GLY B . n B 2 22 GLY 22 30 30 GLY GLY B . n B 2 23 PRO 23 31 31 PRO PRO B . n B 2 24 SER 24 32 32 SER SER B . n B 2 25 SER 25 33 33 SER SER B . n B 2 26 GLY 26 34 34 GLY GLY B . n B 2 27 ALA 27 35 35 ALA ALA B . n B 2 28 PRO 28 36 ? ? ? B . n B 2 29 PRO 29 37 ? ? ? B . n B 2 30 PRO 30 38 ? ? ? B . n B 2 31 SER 31 39 ? ? ? 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 10M 1 1 1 10M 10M A . D 4 HOH 1 146 1 HOH HOH A . D 4 HOH 2 147 2 HOH HOH A . D 4 HOH 3 148 3 HOH HOH A . D 4 HOH 4 149 4 HOH HOH A . D 4 HOH 5 150 6 HOH HOH A . D 4 HOH 6 151 7 HOH HOH A . D 4 HOH 7 152 9 HOH HOH A . D 4 HOH 8 153 10 HOH HOH A . D 4 HOH 9 154 11 HOH HOH A . D 4 HOH 10 155 12 HOH HOH A . D 4 HOH 11 156 13 HOH HOH A . D 4 HOH 12 157 14 HOH HOH A . D 4 HOH 13 158 16 HOH HOH A . D 4 HOH 14 159 17 HOH HOH A . D 4 HOH 15 160 18 HOH HOH A . D 4 HOH 16 161 20 HOH HOH A . D 4 HOH 17 162 21 HOH HOH A . D 4 HOH 18 163 22 HOH HOH A . D 4 HOH 19 164 23 HOH HOH A . D 4 HOH 20 165 24 HOH HOH A . D 4 HOH 21 166 25 HOH HOH A . D 4 HOH 22 167 26 HOH HOH A . D 4 HOH 23 168 27 HOH HOH A . D 4 HOH 24 169 28 HOH HOH A . D 4 HOH 25 170 29 HOH HOH A . D 4 HOH 26 171 30 HOH HOH A . D 4 HOH 27 172 31 HOH HOH A . D 4 HOH 28 173 32 HOH HOH A . D 4 HOH 29 174 33 HOH HOH A . D 4 HOH 30 175 34 HOH HOH A . D 4 HOH 31 176 35 HOH HOH A . D 4 HOH 32 177 37 HOH HOH A . D 4 HOH 33 178 38 HOH HOH A . D 4 HOH 34 179 41 HOH HOH A . D 4 HOH 35 180 42 HOH HOH A . D 4 HOH 36 181 44 HOH HOH A . D 4 HOH 37 182 45 HOH HOH A . D 4 HOH 38 183 46 HOH HOH A . D 4 HOH 39 184 47 HOH HOH A . D 4 HOH 40 185 48 HOH HOH A . D 4 HOH 41 186 49 HOH HOH A . D 4 HOH 42 187 50 HOH HOH A . D 4 HOH 43 188 51 HOH HOH A . D 4 HOH 44 189 52 HOH HOH A . D 4 HOH 45 190 53 HOH HOH A . D 4 HOH 46 191 54 HOH HOH A . D 4 HOH 47 192 55 HOH HOH A . D 4 HOH 48 193 56 HOH HOH A . D 4 HOH 49 194 58 HOH HOH A . D 4 HOH 50 195 59 HOH HOH A . D 4 HOH 51 196 60 HOH HOH A . D 4 HOH 52 197 61 HOH HOH A . D 4 HOH 53 198 62 HOH HOH A . D 4 HOH 54 199 63 HOH HOH A . D 4 HOH 55 200 64 HOH HOH A . D 4 HOH 56 201 66 HOH HOH A . D 4 HOH 57 202 67 HOH HOH A . D 4 HOH 58 203 68 HOH HOH A . D 4 HOH 59 204 69 HOH HOH A . D 4 HOH 60 205 70 HOH HOH A . D 4 HOH 61 206 71 HOH HOH A . D 4 HOH 62 207 72 HOH HOH A . D 4 HOH 63 208 73 HOH HOH A . D 4 HOH 64 209 74 HOH HOH A . D 4 HOH 65 210 75 HOH HOH A . D 4 HOH 66 211 76 HOH HOH A . D 4 HOH 67 212 77 HOH HOH A . D 4 HOH 68 213 78 HOH HOH A . D 4 HOH 69 214 79 HOH HOH A . D 4 HOH 70 215 80 HOH HOH A . D 4 HOH 71 216 81 HOH HOH A . D 4 HOH 72 217 82 HOH HOH A . D 4 HOH 73 218 83 HOH HOH A . D 4 HOH 74 219 84 HOH HOH A . D 4 HOH 75 220 85 HOH HOH A . D 4 HOH 76 221 86 HOH HOH A . D 4 HOH 77 222 93 HOH HOH A . D 4 HOH 78 223 94 HOH HOH A . D 4 HOH 79 224 95 HOH HOH A . D 4 HOH 80 225 96 HOH HOH A . D 4 HOH 81 226 99 HOH HOH A . D 4 HOH 82 227 100 HOH HOH A . D 4 HOH 83 228 101 HOH HOH A . D 4 HOH 84 229 102 HOH HOH A . D 4 HOH 85 230 103 HOH HOH A . D 4 HOH 86 231 104 HOH HOH A . D 4 HOH 87 232 105 HOH HOH A . D 4 HOH 88 233 106 HOH HOH A . D 4 HOH 89 234 107 HOH HOH A . E 4 HOH 1 40 5 HOH HOH B . E 4 HOH 2 41 19 HOH HOH B . E 4 HOH 3 42 36 HOH HOH B . E 4 HOH 4 43 39 HOH HOH B . E 4 HOH 5 44 40 HOH HOH B . E 4 HOH 6 45 43 HOH HOH B . E 4 HOH 7 46 57 HOH HOH B . E 4 HOH 8 47 87 HOH HOH B . E 4 HOH 9 48 88 HOH HOH B . E 4 HOH 10 49 89 HOH HOH B . E 4 HOH 11 50 90 HOH HOH B . E 4 HOH 12 51 91 HOH HOH B . E 4 HOH 13 52 92 HOH HOH B . E 4 HOH 14 53 97 HOH HOH B . E 4 HOH 15 54 98 HOH HOH B . E 4 HOH 16 55 108 HOH HOH B . # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 B MSE 6 B MSE 14 ? MET SELENOMETHIONINE 2 B MSE 13 B MSE 21 ? MET SELENOMETHIONINE # _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)' 1350 ? 1 MORE -11 ? 1 'SSA (A^2)' 8830 ? # _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 2008-02-19 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2018-05-23 # _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 ? # 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' 'Version format compliance' 3 3 'Structure model' 'Data collection' # _pdbx_audit_revision_category.ordinal 1 _pdbx_audit_revision_category.revision_ordinal 3 _pdbx_audit_revision_category.data_content_type 'Structure model' _pdbx_audit_revision_category.category diffrn_source # _pdbx_audit_revision_item.ordinal 1 _pdbx_audit_revision_item.revision_ordinal 3 _pdbx_audit_revision_item.data_content_type 'Structure model' _pdbx_audit_revision_item.item '_diffrn_source.pdbx_synchrotron_site' # loop_ _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[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.pdbx_refine_id 1 ? refined -2.2190 49.0430 7.3580 -0.2040 -0.2406 -0.2602 0.0312 -0.0438 0.0088 1.6888 3.8775 5.0338 0.5820 1.0861 -1.3784 -0.3038 -0.0492 0.1225 -0.0338 0.1273 0.1824 -0.6874 -0.0872 0.1764 'X-RAY DIFFRACTION' 2 ? refined -13.0260 34.4990 7.1020 -0.3904 -0.1280 -0.1648 -0.1292 -0.0270 0.1154 3.5734 32.9234 6.8451 5.6583 3.5320 3.9685 -0.0318 -0.1565 0.1944 0.0295 0.4030 1.1760 0.2179 -0.9370 -0.3711 'X-RAY DIFFRACTION' # loop_ _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.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.selection_details 1 1 A 29 A 6 A 131 A 108 ? 'X-RAY DIFFRACTION' ? 2 2 B 9 B 1 B 35 B 27 ? 'X-RAY DIFFRACTION' ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal _software.date _software.type _software.location _software.language REFMAC refinement 5.3.0040 ? 1 ? ? ? ? XDS 'data scaling' . ? 2 ? ? ? ? XDS 'data reduction' . ? 3 ? ? ? ? XSCALE 'data scaling' . ? 4 ? ? ? ? autoSHARP phasing . ? 5 ? ? ? ? # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 O _pdbx_validate_symm_contact.auth_asym_id_1 A _pdbx_validate_symm_contact.auth_comp_id_1 HOH _pdbx_validate_symm_contact.auth_seq_id_1 222 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 O _pdbx_validate_symm_contact.auth_asym_id_2 A _pdbx_validate_symm_contact.auth_comp_id_2 HOH _pdbx_validate_symm_contact.auth_seq_id_2 223 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 3_564 _pdbx_validate_symm_contact.dist 2.16 # 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 N A GLN 97 ? ? CA A GLN 97 ? ? C A GLN 97 ? ? 131.63 111.00 20.63 2.70 N 2 1 N A ALA 106 ? ? CA A ALA 106 ? ? C A ALA 106 ? ? 128.72 111.00 17.72 2.70 N 3 1 C A ALA 106 ? ? N A GLU 107 ? ? CA A GLU 107 ? ? 137.04 121.70 15.34 2.50 Y 4 1 CA A LEU 123 ? ? CB A LEU 123 ? ? CG A LEU 123 ? ? 130.35 115.30 15.05 2.30 N # 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 PHE A 61 ? ? -171.90 149.09 2 1 ARG A 64 ? ? -48.14 153.80 3 1 GLU A 68 ? ? 90.54 -19.48 4 1 GLU A 107 ? ? 129.05 -51.50 5 1 GLN A 112 ? ? -115.94 -73.26 6 1 LYS A 113 ? ? 164.89 -73.60 7 1 ASN A 115 ? ? -148.52 47.86 8 1 SER A 116 ? ? -115.92 -164.47 9 1 SER A 117 ? ? -54.22 -173.29 10 1 LEU A 118 ? ? 89.61 125.29 11 1 LYS A 130 ? ? -66.93 -152.05 12 1 SER B 33 ? ? -126.95 -81.68 # _pdbx_validate_peptide_omega.id 1 _pdbx_validate_peptide_omega.PDB_model_num 1 _pdbx_validate_peptide_omega.auth_comp_id_1 PRO _pdbx_validate_peptide_omega.auth_asym_id_1 A _pdbx_validate_peptide_omega.auth_seq_id_1 96 _pdbx_validate_peptide_omega.PDB_ins_code_1 ? _pdbx_validate_peptide_omega.label_alt_id_1 ? _pdbx_validate_peptide_omega.auth_comp_id_2 GLN _pdbx_validate_peptide_omega.auth_asym_id_2 A _pdbx_validate_peptide_omega.auth_seq_id_2 97 _pdbx_validate_peptide_omega.PDB_ins_code_2 ? _pdbx_validate_peptide_omega.label_alt_id_2 ? _pdbx_validate_peptide_omega.omega 134.86 # 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 ARG 131 ? CG ? A ARG 108 CG 2 1 Y 1 A ARG 131 ? CD ? A ARG 108 CD 3 1 Y 1 A ARG 131 ? NE ? A ARG 108 NE 4 1 Y 1 A ARG 131 ? CZ ? A ARG 108 CZ 5 1 Y 1 A ARG 131 ? NH1 ? A ARG 108 NH1 6 1 Y 1 A ARG 131 ? NH2 ? A ARG 108 NH2 # 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 ARG 24 ? A ARG 1 2 1 Y 1 A PRO 25 ? A PRO 2 3 1 Y 1 A GLN 26 ? A GLN 3 4 1 Y 1 A GLY 27 ? A GLY 4 5 1 Y 1 A ALA 28 ? A ALA 5 6 1 Y 1 A GLY 132 ? A GLY 109 7 1 Y 1 A GLU 133 ? A GLU 110 8 1 Y 1 A ARG 134 ? A ARG 111 9 1 Y 1 A SER 135 ? A SER 112 10 1 Y 1 A SER 136 ? A SER 113 11 1 Y 1 A PRO 137 ? A PRO 114 12 1 Y 1 A GLU 138 ? A GLU 115 13 1 Y 1 A GLU 139 ? A GLU 116 14 1 Y 1 A GLN 140 ? A GLN 117 15 1 Y 1 A LEU 141 ? A LEU 118 16 1 Y 1 A LEU 142 ? A LEU 119 17 1 Y 1 A PHE 143 ? A PHE 120 18 1 Y 1 A LEU 144 ? A LEU 121 19 1 Y 1 A TYR 145 ? A TYR 122 20 1 Y 1 B PRO 36 ? B PRO 28 21 1 Y 1 B PRO 37 ? B PRO 29 22 1 Y 1 B PRO 38 ? B PRO 30 23 1 Y 1 B SER 39 ? B SER 31 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'decyl 4-O-alpha-D-glucopyranosyl-1-thio-beta-D-glucopyranoside' 10M 4 water HOH #