data_4W5M # _entry.id 4W5M # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.383 _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 4W5M pdb_00004w5m 10.2210/pdb4w5m/pdb WWPDB D_1000203192 ? ? # 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 2015-05-27 2 'Structure model' 1 1 2015-07-01 3 'Structure model' 1 2 2017-11-22 4 'Structure model' 1 3 2023-12-27 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 2 'Structure model' 'Derived calculations' 3 3 'Structure model' 'Derived calculations' 4 3 'Structure model' 'Refinement description' 5 3 'Structure model' 'Source and taxonomy' 6 4 'Structure model' 'Data collection' 7 4 'Structure model' 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' pdbx_entity_src_syn 2 3 'Structure model' pdbx_struct_assembly 3 3 'Structure model' pdbx_struct_assembly_gen 4 3 'Structure model' pdbx_struct_oper_list 5 3 'Structure model' software 6 4 'Structure model' chem_comp_atom 7 4 'Structure model' chem_comp_bond 8 4 'Structure model' database_2 9 4 'Structure model' diffrn_radiation_wavelength # 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' '_pdbx_entity_src_syn.pdbx_alt_source_flag' 2 3 'Structure model' '_pdbx_struct_assembly.oligomeric_details' 3 3 'Structure model' '_pdbx_struct_assembly_gen.asym_id_list' 4 3 'Structure model' '_pdbx_struct_oper_list.symmetry_operation' 5 4 'Structure model' '_database_2.pdbx_DOI' 6 4 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 4W5M _pdbx_database_status.recvd_initial_deposition_date 2014-08-18 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _pdbx_database_related.content_type _pdbx_database_related.db_id _pdbx_database_related.db_name _pdbx_database_related.details unspecified 4W5L PDB . unspecified 4W5P PDB . unspecified 4TUT PDB . unspecified 4W5Y PDB . unspecified 4W67 PDB . unspecified 4W71 PDB . unspecified 4WBU PDB . unspecified 4WBV PDB . unspecified 4UBZ PDB . unspecified 4UBY PDB . # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Yu, L.' 1 'Lee, S.-J.' 2 'Yee, V.' 3 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Biochemistry _citation.journal_id_ASTM BICHAW _citation.journal_id_CSD 0033 _citation.journal_id_ISSN 0006-2960 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 54 _citation.language ? _citation.page_first 3640 _citation.page_last 3648 _citation.title 'Crystal Structures of Polymorphic Prion Protein beta 1 Peptides Reveal Variable Steric Zipper Conformations.' _citation.year 2015 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/acs.biochem.5b00425 _citation.pdbx_database_id_PubMed 25978088 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Yu, L.' 1 ? primary 'Lee, S.J.' 2 ? primary 'Yee, V.C.' 3 ? # 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 syn 'PrP peptide' 683.776 2 ? ? ? ? 2 non-polymer syn '(4S)-2-METHYL-2,4-PENTANEDIOL' 118.174 1 ? ? ? ? 3 water nat water 18.015 4 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code GGYMLGS _entity_poly.pdbx_seq_one_letter_code_can GGYMLGS _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 '(4S)-2-METHYL-2,4-PENTANEDIOL' MPD 3 water HOH # 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 GLY n 1 3 TYR n 1 4 MET n 1 5 LEU n 1 6 GLY n 1 7 SER n # _pdbx_entity_src_syn.entity_id 1 _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 7 _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details synthetic # 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 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HOH non-polymer . WATER ? 'H2 O' 18.015 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 MPD non-polymer . '(4S)-2-METHYL-2,4-PENTANEDIOL' ? 'C6 H14 O2' 118.174 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 # 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 1 126 126 GLY GLY A . n A 1 2 GLY 2 127 127 GLY GLY A . n A 1 3 TYR 3 128 128 TYR TYR A . n A 1 4 MET 4 129 129 MET MET A . n A 1 5 LEU 5 130 130 LEU LEU A . n A 1 6 GLY 6 131 131 GLY GLY A . n A 1 7 SER 7 132 132 SER SER A . n B 1 1 GLY 1 126 126 GLY GLY B . n B 1 2 GLY 2 127 127 GLY GLY B . n B 1 3 TYR 3 128 128 TYR TYR B . n B 1 4 MET 4 129 129 MET MET B . n B 1 5 LEU 5 130 130 LEU LEU B . n B 1 6 GLY 6 131 131 GLY GLY B . n B 1 7 SER 7 132 132 SER SER 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 2 MPD 1 201 1 MPD MPD B . D 3 HOH 1 201 2 HOH HOH A . E 3 HOH 1 301 4 HOH HOH B . E 3 HOH 2 302 3 HOH HOH B . E 3 HOH 3 303 1 HOH HOH B . # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 1 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 2 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.14 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? SHELX ? ? ? . 4 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? '(phenix.refine: 1.9_1692)' 5 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? DENZO ? ? ? . 6 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? SCALEPACK ? ? ? . 7 # _cell.length_a 47.481 _cell.length_b 9.437 _cell.length_c 22.621 _cell.angle_alpha 90.000 _cell.angle_beta 95.180 _cell.angle_gamma 90.000 _cell.entry_id 4W5M _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4W5M _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 4W5M _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 1.85 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 33.35 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 5.5 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '0.1 M Bis-tris, 2% 2-methyl-2,4-pentanediol (MPD), and 1.1 M ammonium sulfate' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? # _diffrn_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'ADSC QUANTUM 315r' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2009-08-23 # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97940 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'APS BEAMLINE 19-ID' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.97940 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 19-ID _diffrn_source.pdbx_synchrotron_site APS # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 4W5M _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.200 _reflns.d_resolution_low 50.000 _reflns.details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.number_all ? _reflns.number_obs 2911 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 86.900 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 2.400 _reflns.pdbx_Rmerge_I_obs 0.071 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI 12.776 _reflns.pdbx_netI_over_sigmaI 11.100 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 1.026 _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all 7028 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_R_split ? # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.meanI_over_sigI_all _reflns_shell.meanI_over_sigI_obs _reflns_shell.number_measured_all _reflns_shell.number_measured_obs _reflns_shell.number_possible _reflns_shell.number_unique_all _reflns_shell.number_unique_obs _reflns_shell.percent_possible_all _reflns_shell.percent_possible_obs _reflns_shell.Rmerge_F_all _reflns_shell.Rmerge_F_obs _reflns_shell.Rmerge_I_all _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_gt _reflns_shell.meanI_over_uI_all _reflns_shell.meanI_over_uI_gt _reflns_shell.number_measured_gt _reflns_shell.number_unique_gt _reflns_shell.percent_possible_gt _reflns_shell.Rmerge_F_gt _reflns_shell.Rmerge_I_gt _reflns_shell.pdbx_redundancy _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_netI_over_sigmaI_all _reflns_shell.pdbx_netI_over_sigmaI_obs _reflns_shell.pdbx_Rrim_I_all _reflns_shell.pdbx_Rpim_I_all _reflns_shell.pdbx_rejects _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_CC_half _reflns_shell.pdbx_R_split 1.200 1.240 ? ? ? ? ? 154 ? 49.200 ? ? ? ? 0.099 ? ? ? ? ? ? ? ? 1.500 ? 0.952 ? ? ? ? 0 1 1 ? ? 1.240 1.290 ? ? ? ? ? 245 ? 72.300 ? ? ? ? 0.097 ? ? ? ? ? ? ? ? 1.800 ? 1.059 ? ? ? ? 0 2 1 ? ? 1.290 1.350 ? ? ? ? ? 265 ? 77.900 ? ? ? ? 0.102 ? ? ? ? ? ? ? ? 2.000 ? 1.039 ? ? ? ? 0 3 1 ? ? 1.350 1.420 ? ? ? ? ? 291 ? 92.100 ? ? ? ? 0.101 ? ? ? ? ? ? ? ? 2.300 ? 1.031 ? ? ? ? 0 4 1 ? ? 1.420 1.510 ? ? ? ? ? 328 ? 96.200 ? ? ? ? 0.092 ? ? ? ? ? ? ? ? 2.400 ? 1.124 ? ? ? ? 0 5 1 ? ? 1.510 1.630 ? ? ? ? ? 320 ? 98.200 ? ? ? ? 0.086 ? ? ? ? ? ? ? ? 2.600 ? 1.001 ? ? ? ? 0 6 1 ? ? 1.630 1.790 ? ? ? ? ? 311 ? 98.100 ? ? ? ? 0.079 ? ? ? ? ? ? ? ? 2.800 ? 1.012 ? ? ? ? 0 7 1 ? ? 1.790 2.050 ? ? ? ? ? 343 ? 99.100 ? ? ? ? 0.073 ? ? ? ? ? ? ? ? 2.800 ? 0.951 ? ? ? ? 0 8 1 ? ? 2.050 2.590 ? ? ? ? ? 337 ? 98.800 ? ? ? ? 0.065 ? ? ? ? ? ? ? ? 2.800 ? 1.053 ? ? ? ? 0 9 1 ? ? 2.590 50.000 ? ? ? ? ? 317 ? 85.200 ? ? ? ? 0.065 ? ? ? ? ? ? ? ? 2.500 ? 1.030 ? ? ? ? 0 10 1 ? ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max 44.550 _refine.B_iso_mean 17.1338 _refine.B_iso_min 6.020 _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 4W5M _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 1.2000 _refine.ls_d_res_low 23.6440 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 2884 _refine.ls_number_reflns_R_free 119 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 86.0100 _refine.ls_percent_reflns_R_free 4.1300 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1955 _refine.ls_R_factor_R_free 0.2564 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1934 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.400 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 30.5300 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.1400 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? # _refine_hist.cycle_id final _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.d_res_high 1.2000 _refine_hist.d_res_low 23.6440 _refine_hist.pdbx_number_atoms_ligand 8 _refine_hist.number_atoms_solvent 4 _refine_hist.number_atoms_total 106 _refine_hist.pdbx_number_residues_total 14 _refine_hist.pdbx_B_iso_mean_ligand 34.37 _refine_hist.pdbx_B_iso_mean_solvent 34.24 _refine_hist.pdbx_number_atoms_protein 94 _refine_hist.pdbx_number_atoms_nucleic_acid 0 # _struct.entry_id 4W5M _struct.title 'Prp peptide' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag ? # _struct_keywords.entry_id 4W5M _struct_keywords.text 'prion peptide, de novo protein, membrane protein' _struct_keywords.pdbx_keywords 'de novo protein, membrane protein' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 3 ? E N N 3 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 4W5M _struct_ref.pdbx_db_accession 4W5M _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # 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 4W5M A 1 ? 7 ? 4W5M 126 ? 132 ? 126 132 2 1 4W5M B 1 ? 7 ? 4W5M 126 ? 132 ? 126 132 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details decameric _pdbx_struct_assembly.oligomeric_count 10 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 4_555 -x+1/2,y+1/2,-z -1.0000000000 0.0000000000 0.0000000000 23.7405000000 0.0000000000 1.0000000000 0.0000000000 4.7185000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 3 'crystal symmetry operation' 4_556 -x+1/2,y+1/2,-z+1 -1.0000000000 0.0000000000 0.0000000000 21.6981642490 0.0000000000 1.0000000000 0.0000000000 4.7185000000 0.0000000000 0.0000000000 -1.0000000000 22.5286152633 4 'crystal symmetry operation' 4_546 -x+1/2,y-1/2,-z+1 -1.0000000000 0.0000000000 0.0000000000 21.6981642490 0.0000000000 1.0000000000 0.0000000000 -4.7185000000 0.0000000000 0.0000000000 -1.0000000000 22.5286152633 5 'crystal symmetry operation' 4_545 -x+1/2,y-1/2,-z -1.0000000000 0.0000000000 0.0000000000 23.7405000000 0.0000000000 1.0000000000 0.0000000000 -4.7185000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 # _struct_biol.details ;BIOLOGICAL UNIT DISPLAYS ONLY A PORTION OF THE CRYSTAL LATTICE TO DEMONSTRATE THE CRYSTAL PACKING CONTENT. THE CRYSTAL PACKING IS FORMED BY A REPETITION IN BOTH DIRECTIONS OF THE PORTION INDICATED IN REMARK 350. ; _struct_biol.id 1 _struct_biol.pdbx_parent_biol_id ? _struct_biol.pdbx_formula_weight ? _struct_biol.pdbx_formula_weight_method ? _struct_biol.pdbx_aggregation_state ? _struct_biol.pdbx_assembly_method ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id B _struct_site.pdbx_auth_comp_id MPD _struct_site.pdbx_auth_seq_id 201 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 5 _struct_site.details 'binding site for residue MPD B 201' # 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 5 GLY B 1 ? GLY B 126 . ? 4_546 ? 2 AC1 5 GLY B 2 ? GLY B 127 . ? 4_546 ? 3 AC1 5 MET B 4 ? MET B 129 . ? 4_546 ? 4 AC1 5 GLY B 6 ? GLY B 131 . ? 1_545 ? 5 AC1 5 SER B 7 ? SER B 132 . ? 1_555 ? # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id B _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 301 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id E _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal GLY N N N N 1 GLY CA C N N 2 GLY C C N N 3 GLY O O N N 4 GLY OXT O N N 5 GLY H H N N 6 GLY H2 H N N 7 GLY HA2 H N N 8 GLY HA3 H N N 9 GLY HXT H N N 10 HOH O O N N 11 HOH H1 H N N 12 HOH H2 H N N 13 LEU N N N N 14 LEU CA C N S 15 LEU C C N N 16 LEU O O N N 17 LEU CB C N N 18 LEU CG C N N 19 LEU CD1 C N N 20 LEU CD2 C N N 21 LEU OXT O N N 22 LEU H H N N 23 LEU H2 H N N 24 LEU HA H N N 25 LEU HB2 H N N 26 LEU HB3 H N N 27 LEU HG H N N 28 LEU HD11 H N N 29 LEU HD12 H N N 30 LEU HD13 H N N 31 LEU HD21 H N N 32 LEU HD22 H N N 33 LEU HD23 H N N 34 LEU HXT H N N 35 MET N N N N 36 MET CA C N S 37 MET C C N N 38 MET O O N N 39 MET CB C N N 40 MET CG C N N 41 MET SD S N N 42 MET CE C N N 43 MET OXT O N N 44 MET H H N N 45 MET H2 H N N 46 MET HA H N N 47 MET HB2 H N N 48 MET HB3 H N N 49 MET HG2 H N N 50 MET HG3 H N N 51 MET HE1 H N N 52 MET HE2 H N N 53 MET HE3 H N N 54 MET HXT H N N 55 MPD C1 C N N 56 MPD C2 C N N 57 MPD O2 O N N 58 MPD CM C N N 59 MPD C3 C N N 60 MPD C4 C N S 61 MPD O4 O N N 62 MPD C5 C N N 63 MPD H11 H N N 64 MPD H12 H N N 65 MPD H13 H N N 66 MPD HO2 H N N 67 MPD HM1 H N N 68 MPD HM2 H N N 69 MPD HM3 H N N 70 MPD H31 H N N 71 MPD H32 H N N 72 MPD H4 H N N 73 MPD HO4 H N N 74 MPD H51 H N N 75 MPD H52 H N N 76 MPD H53 H N N 77 SER N N N N 78 SER CA C N S 79 SER C C N N 80 SER O O N N 81 SER CB C N N 82 SER OG O N N 83 SER OXT O N N 84 SER H H N N 85 SER H2 H N N 86 SER HA H N N 87 SER HB2 H N N 88 SER HB3 H N N 89 SER HG H N N 90 SER HXT H N N 91 TYR N N N N 92 TYR CA C N S 93 TYR C C N N 94 TYR O O N N 95 TYR CB C N N 96 TYR CG C Y N 97 TYR CD1 C Y N 98 TYR CD2 C Y N 99 TYR CE1 C Y N 100 TYR CE2 C Y N 101 TYR CZ C Y N 102 TYR OH O N N 103 TYR OXT O N N 104 TYR H H N N 105 TYR H2 H N N 106 TYR HA H N N 107 TYR HB2 H N N 108 TYR HB3 H N N 109 TYR HD1 H N N 110 TYR HD2 H N N 111 TYR HE1 H N N 112 TYR HE2 H N N 113 TYR HH H N N 114 TYR HXT H N N 115 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal GLY N CA sing N N 1 GLY N H sing N N 2 GLY N H2 sing N N 3 GLY CA C sing N N 4 GLY CA HA2 sing N N 5 GLY CA HA3 sing N N 6 GLY C O doub N N 7 GLY C OXT sing N N 8 GLY OXT HXT sing N N 9 HOH O H1 sing N N 10 HOH O H2 sing N N 11 LEU N CA sing N N 12 LEU N H sing N N 13 LEU N H2 sing N N 14 LEU CA C sing N N 15 LEU CA CB sing N N 16 LEU CA HA sing N N 17 LEU C O doub N N 18 LEU C OXT sing N N 19 LEU CB CG sing N N 20 LEU CB HB2 sing N N 21 LEU CB HB3 sing N N 22 LEU CG CD1 sing N N 23 LEU CG CD2 sing N N 24 LEU CG HG sing N N 25 LEU CD1 HD11 sing N N 26 LEU CD1 HD12 sing N N 27 LEU CD1 HD13 sing N N 28 LEU CD2 HD21 sing N N 29 LEU CD2 HD22 sing N N 30 LEU CD2 HD23 sing N N 31 LEU OXT HXT sing N N 32 MET N CA sing N N 33 MET N H sing N N 34 MET N H2 sing N N 35 MET CA C sing N N 36 MET CA CB sing N N 37 MET CA HA sing N N 38 MET C O doub N N 39 MET C OXT sing N N 40 MET CB CG sing N N 41 MET CB HB2 sing N N 42 MET CB HB3 sing N N 43 MET CG SD sing N N 44 MET CG HG2 sing N N 45 MET CG HG3 sing N N 46 MET SD CE sing N N 47 MET CE HE1 sing N N 48 MET CE HE2 sing N N 49 MET CE HE3 sing N N 50 MET OXT HXT sing N N 51 MPD C1 C2 sing N N 52 MPD C1 H11 sing N N 53 MPD C1 H12 sing N N 54 MPD C1 H13 sing N N 55 MPD C2 O2 sing N N 56 MPD C2 CM sing N N 57 MPD C2 C3 sing N N 58 MPD O2 HO2 sing N N 59 MPD CM HM1 sing N N 60 MPD CM HM2 sing N N 61 MPD CM HM3 sing N N 62 MPD C3 C4 sing N N 63 MPD C3 H31 sing N N 64 MPD C3 H32 sing N N 65 MPD C4 O4 sing N N 66 MPD C4 C5 sing N N 67 MPD C4 H4 sing N N 68 MPD O4 HO4 sing N N 69 MPD C5 H51 sing N N 70 MPD C5 H52 sing N N 71 MPD C5 H53 sing N N 72 SER N CA sing N N 73 SER N H sing N N 74 SER N H2 sing N N 75 SER CA C sing N N 76 SER CA CB sing N N 77 SER CA HA sing N N 78 SER C O doub N N 79 SER C OXT sing N N 80 SER CB OG sing N N 81 SER CB HB2 sing N N 82 SER CB HB3 sing N N 83 SER OG HG sing N N 84 SER OXT HXT sing N N 85 TYR N CA sing N N 86 TYR N H sing N N 87 TYR N H2 sing N N 88 TYR CA C sing N N 89 TYR CA CB sing N N 90 TYR CA HA sing N N 91 TYR C O doub N N 92 TYR C OXT sing N N 93 TYR CB CG sing N N 94 TYR CB HB2 sing N N 95 TYR CB HB3 sing N N 96 TYR CG CD1 doub Y N 97 TYR CG CD2 sing Y N 98 TYR CD1 CE1 sing Y N 99 TYR CD1 HD1 sing N N 100 TYR CD2 CE2 doub Y N 101 TYR CD2 HD2 sing N N 102 TYR CE1 CZ doub Y N 103 TYR CE1 HE1 sing N N 104 TYR CE2 CZ sing Y N 105 TYR CE2 HE2 sing N N 106 TYR CZ OH sing N N 107 TYR OH HH sing N N 108 TYR OXT HXT sing N N 109 # _atom_sites.entry_id 4W5M _atom_sites.fract_transf_matrix[1][1] 0.021061 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.001909 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.105966 _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] 0.044388 _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_