data_5WHP # _entry.id 5WHP # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 5WHP pdb_00005whp 10.2210/pdb5whp/pdb WWPDB D_1000229046 ? ? # 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 2018-05-23 2 'Structure model' 1 1 2018-05-30 3 'Structure model' 1 2 2018-06-06 4 'Structure model' 1 3 2018-06-20 5 'Structure model' 1 4 2019-12-18 6 'Structure model' 1 5 2020-01-15 7 'Structure model' 1 6 2024-03-13 # _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' 'Data collection' 2 2 'Structure model' 'Database references' 3 3 'Structure model' 'Data collection' 4 3 'Structure model' 'Database references' 5 4 'Structure model' 'Data collection' 6 4 'Structure model' 'Database references' 7 5 'Structure model' 'Author supporting evidence' 8 6 'Structure model' 'Data collection' 9 7 'Structure model' 'Data collection' 10 7 '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 2 'Structure model' citation 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_audit_support 7 6 'Structure model' reflns_shell 8 7 'Structure model' chem_comp_atom 9 7 'Structure model' chem_comp_bond 10 7 'Structure model' database_2 # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_CSD' 4 2 'Structure model' '_citation.journal_id_ISSN' 5 2 'Structure model' '_citation.pdbx_database_id_DOI' 6 2 'Structure model' '_citation.title' 7 2 'Structure model' '_citation.year' 8 3 'Structure model' '_citation.journal_abbrev' 9 3 'Structure model' '_citation.pdbx_database_id_PubMed' 10 3 'Structure model' '_citation.title' 11 3 'Structure model' '_citation_author.name' 12 4 'Structure model' '_citation.journal_volume' 13 4 'Structure model' '_citation.page_first' 14 4 'Structure model' '_citation.page_last' 15 5 'Structure model' '_pdbx_audit_support.funding_organization' 16 6 'Structure model' '_reflns_shell.percent_possible_all' 17 7 'Structure model' '_database_2.pdbx_DOI' 18 7 '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 5WHP _pdbx_database_status.recvd_initial_deposition_date 2017-07-17 _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_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Guenther, E.L.' 1 ? 'Sawaya, M.R.' 2 0000-0003-0874-9043 'Eisenberg, D.S.' 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 'Nat. Struct. Mol. Biol.' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 1545-9985 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 25 _citation.language ? _citation.page_first 463 _citation.page_last 471 _citation.title 'Atomic structures of TDP-43 LCD segments and insights into reversible or pathogenic aggregation.' _citation.year 2018 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1038/s41594-018-0064-2 _citation.pdbx_database_id_PubMed 29786080 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Guenther, E.L.' 1 ? primary 'Cao, Q.' 2 ? primary 'Trinh, H.' 3 ? primary 'Lu, J.' 4 ? primary 'Sawaya, M.R.' 5 ? primary 'Cascio, D.' 6 ? primary 'Boyer, D.R.' 7 ? primary 'Rodriguez, J.A.' 8 ? primary 'Hughes, M.P.' 9 ? primary 'Eisenberg, D.S.' 10 ? # 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 'Segment of TAR DNA-binding protein 43' 671.699 1 ? A315T 'UNP residues 312-317' ? 2 water nat water 18.015 3 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name TDP-43 # _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 NFGTFS _entity_poly.pdbx_seq_one_letter_code_can NFGTFS _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ASN n 1 2 PHE n 1 3 GLY n 1 4 THR n 1 5 PHE n 1 6 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 6 _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 'Synthetic peptide NFGTFS corresponding tosegment 312-317 of TDP-43' # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HOH non-polymer . WATER ? 'H2 O' 18.015 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 # 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 ASN 1 312 1 ASN ASN A . n A 1 2 PHE 2 313 2 PHE PHE A . n A 1 3 GLY 3 314 3 GLY GLY A . n A 1 4 THR 4 315 4 THR THR A . n A 1 5 PHE 5 316 5 PHE PHE A . n A 1 6 SER 6 317 6 SER SER A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 HOH 1 101 1 HOH HOH A . B 2 HOH 2 102 3 HOH HOH A . B 2 HOH 3 103 2 HOH HOH A . # 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 scaling' ? ? ? ? ? ? ? ? ? ? ? XSCALE ? ? ? . 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.7.0032 2 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.22 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? SHELXD ? ? ? . 4 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 5 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 96.910 _cell.angle_beta_esd ? _cell.angle_gamma 90.000 _cell.angle_gamma_esd ? _cell.entry_id 5WHP _cell.details ? _cell.formula_units_Z ? _cell.length_a 15.330 _cell.length_a_esd ? _cell.length_b 4.840 _cell.length_b_esd ? _cell.length_c 23.570 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 2 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 5WHP _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 5WHP _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 ? _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol ? _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, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 4.6 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '100mM sodium acetate 4.6, 200mM ammonium acetate, 30% PEG 4000' _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 315' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2014-10-16 # _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 0.9791 _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 24-ID-E' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.9791 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 24-ID-E _diffrn_source.pdbx_synchrotron_site APS # _reflns.B_iso_Wilson_estimate 4.863 _reflns.entry_id 5WHP _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.000 _reflns.d_resolution_low 15.220 _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 1823 _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 -3.000 _reflns.percent_possible_obs 87.600 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 4.918 _reflns.pdbx_Rmerge_I_obs 0.086 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 14.970 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.959 _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 0.096 _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.993 _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 1.000 1.030 ? 7.590 ? ? ? ? 57 37.000 ? ? ? ? 0.104 ? ? ? ? ? ? ? ? 2.842 ? ? ? ? 0.125 ? ? 1 1 0.980 ? 1.030 1.060 ? 8.940 ? ? ? ? 90 56.600 ? ? ? ? 0.091 ? ? ? ? ? ? ? ? 3.278 ? ? ? ? 0.108 ? ? 2 1 0.991 ? 1.060 1.100 ? 10.820 ? ? ? ? 106 71.100 ? ? ? ? 0.087 ? ? ? ? ? ? ? ? 3.387 ? ? ? ? 0.103 ? ? 3 1 0.989 ? 1.100 1.140 ? 12.570 ? ? ? ? 149 95.500 ? ? ? ? 0.104 ? ? ? ? ? ? ? ? 4.262 ? ? ? ? 0.118 ? ? 4 1 0.989 ? 1.140 1.180 ? 13.840 ? ? ? ? 157 99.400 ? ? ? ? 0.106 ? ? ? ? ? ? ? ? 4.866 ? ? ? ? 0.119 ? ? 5 1 0.988 ? 1.180 1.230 ? 14.650 ? ? ? ? 131 92.900 ? ? ? ? 0.097 ? ? ? ? ? ? ? ? 5.366 ? ? ? ? 0.106 ? ? 6 1 0.993 ? 1.230 1.280 ? 15.400 ? ? ? ? 127 100.000 ? ? ? ? 0.094 ? ? ? ? ? ? ? ? 5.591 ? ? ? ? 0.103 ? ? 7 1 0.990 ? 1.280 1.340 ? 16.090 ? ? ? ? 127 100.000 ? ? ? ? 0.088 ? ? ? ? ? ? ? ? 5.591 ? ? ? ? 0.098 ? ? 8 1 0.991 ? 1.340 1.420 ? 15.000 ? ? ? ? 128 99.200 ? ? ? ? 0.086 ? ? ? ? ? ? ? ? 5.422 ? ? ? ? 0.096 ? ? 9 1 0.995 ? 1.420 1.500 ? 16.680 ? ? ? ? 124 100.000 ? ? ? ? 0.087 ? ? ? ? ? ? ? ? 5.484 ? ? ? ? 0.097 ? ? 10 1 0.992 ? 1.500 1.610 ? 16.730 ? ? ? ? 122 100.000 ? ? ? ? 0.077 ? ? ? ? ? ? ? ? 5.262 ? ? ? ? 0.086 ? ? 11 1 0.993 ? 1.610 1.730 ? 17.470 ? ? ? ? 91 98.900 ? ? ? ? 0.088 ? ? ? ? ? ? ? ? 5.582 ? ? ? ? 0.097 ? ? 12 1 0.995 ? 1.730 1.900 ? 17.930 ? ? ? ? 96 100.000 ? ? ? ? 0.085 ? ? ? ? ? ? ? ? 5.573 ? ? ? ? 0.093 ? ? 13 1 0.994 ? 1.900 2.120 ? 17.980 ? ? ? ? 90 100.000 ? ? ? ? 0.087 ? ? ? ? ? ? ? ? 5.422 ? ? ? ? 0.095 ? ? 14 1 0.989 ? 2.120 2.450 ? 17.970 ? ? ? ? 91 97.800 ? ? ? ? 0.085 ? ? ? ? ? ? ? ? 5.088 ? ? ? ? 0.095 ? ? 15 1 0.987 ? 2.450 3.000 ? 18.000 ? ? ? ? 65 97.000 ? ? ? ? 0.072 ? ? ? ? ? ? ? ? 4.938 ? ? ? ? 0.082 ? ? 16 1 0.992 ? 3.000 4.250 ? 17.040 ? ? ? ? 49 81.700 ? ? ? ? 0.075 ? ? ? ? ? ? ? ? 4.490 ? ? ? ? 0.085 ? ? 17 1 0.989 ? 4.250 15.220 ? 14.570 ? ? ? ? 23 62.200 ? ? ? ? 0.068 ? ? ? ? ? ? ? ? 3.348 ? ? ? ? 0.083 ? ? 18 1 0.989 ? # _refine.aniso_B[1][1] 0.1900 _refine.aniso_B[1][2] -0.0000 _refine.aniso_B[1][3] -0.1700 _refine.aniso_B[2][2] 0.0700 _refine.aniso_B[2][3] 0.0000 _refine.aniso_B[3][3] -0.2300 _refine.B_iso_max 36.250 _refine.B_iso_mean 2.6260 _refine.B_iso_min 2.000 _refine.correlation_coeff_Fo_to_Fc 0.9860 _refine.correlation_coeff_Fo_to_Fc_free 0.9830 _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : REFINED INDIVIDUALLY' _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 5WHP _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 1.0000 _refine.ls_d_res_low 15.2200 _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 1639 _refine.ls_number_reflns_R_free 183 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 87.6800 _refine.ls_percent_reflns_R_free 10.0000 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.0873 _refine.ls_R_factor_R_free 0.0929 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.0866 _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 ? _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 0.000 _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 THROUGHOUT _refine.pdbx_method_to_determine_struct 'AB INITIO PHASING' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.0200 _refine.pdbx_overall_ESU_R_Free 0.0180 _refine.pdbx_solvent_vdw_probe_radii 1.2000 _refine.pdbx_solvent_ion_probe_radii 0.8000 _refine.pdbx_solvent_shrinkage_radii 0.8000 _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 ? _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 0.4360 _refine.overall_SU_ML 0.0100 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.cycle_id final _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.d_res_high 1.0000 _refine_hist.d_res_low 15.2200 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 3 _refine_hist.number_atoms_total 51 _refine_hist.pdbx_number_residues_total 6 _refine_hist.pdbx_B_iso_mean_solvent 14.75 _refine_hist.pdbx_number_atoms_protein 48 _refine_hist.pdbx_number_atoms_nucleic_acid 0 # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.019 0.020 49 ? r_bond_refined_d ? ? 'X-RAY DIFFRACTION' ? 0.001 0.020 39 ? r_bond_other_d ? ? 'X-RAY DIFFRACTION' ? 1.790 1.874 65 ? r_angle_refined_deg ? ? 'X-RAY DIFFRACTION' ? 0.687 3.000 88 ? r_angle_other_deg ? ? 'X-RAY DIFFRACTION' ? 4.212 5.000 5 ? r_dihedral_angle_1_deg ? ? 'X-RAY DIFFRACTION' ? 14.007 23.333 3 ? r_dihedral_angle_2_deg ? ? 'X-RAY DIFFRACTION' ? 8.865 15.000 5 ? r_dihedral_angle_3_deg ? ? 'X-RAY DIFFRACTION' ? 0.132 0.200 6 ? r_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.009 0.020 59 ? r_gen_planes_refined ? ? 'X-RAY DIFFRACTION' ? 0.001 0.020 17 ? r_gen_planes_other ? ? 'X-RAY DIFFRACTION' ? 5.773 3.000 88 ? r_rigid_bond_restr ? ? 'X-RAY DIFFRACTION' ? 2.030 5.000 90 ? r_sphericity_bonded ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 1.0020 _refine_ls_shell.d_res_low 1.0280 _refine_ls_shell.number_reflns_all 47 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 5 _refine_ls_shell.number_reflns_R_work 42 _refine_ls_shell.percent_reflns_obs 35.0700 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_obs ? _refine_ls_shell.R_factor_R_free 0.1870 _refine_ls_shell.R_factor_R_free_error 0.0000 _refine_ls_shell.R_factor_R_work 0.1320 _refine_ls_shell.redundancy_reflns_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.wR_factor_all ? _refine_ls_shell.wR_factor_obs ? _refine_ls_shell.wR_factor_R_free ? _refine_ls_shell.wR_factor_R_work ? _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? # _struct.entry_id 5WHP _struct.title 'Crystal structure of the segment, NFGTFS, from the A315T familial variant of the low complexity domain of TDP-43, residues 312-317' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 5WHP _struct_keywords.text 'Amyloid, LARKS, TDP-43, PROTEIN FIBRIL' _struct_keywords.pdbx_keywords 'PROTEIN FIBRIL' # 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 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code TADBP_HUMAN _struct_ref.pdbx_db_accession Q13148 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code NFGAFS _struct_ref.pdbx_align_begin 312 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 5WHP _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 6 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q13148 _struct_ref_seq.db_align_beg 312 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 317 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 312 _struct_ref_seq.pdbx_auth_seq_align_end 317 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 5WHP _struct_ref_seq_dif.mon_id THR _struct_ref_seq_dif.pdbx_pdb_strand_id A _struct_ref_seq_dif.seq_num 4 _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 Q13148 _struct_ref_seq_dif.db_mon_id ALA _struct_ref_seq_dif.pdbx_seq_db_seq_num 315 _struct_ref_seq_dif.details 'engineered mutation' _struct_ref_seq_dif.pdbx_auth_seq_num 315 _struct_ref_seq_dif.pdbx_ordinal 1 # _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 1,2,3,4,5,6,7,8,9,10 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? # 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' 1_535 x,y-2,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 -9.6800000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 1_545 x,y-1,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 -4.8400000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 4 'crystal symmetry operation' 1_565 x,y+1,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 4.8400000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 5 'crystal symmetry operation' 1_575 x,y+2,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 9.6800000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 6 'crystal symmetry operation' 2_625 -x+1,y-5/2,-z -1.0000000000 0.0000000000 0.0000000000 15.3300000000 0.0000000000 1.0000000000 0.0000000000 -12.1000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 7 'crystal symmetry operation' 2_635 -x+1,y-3/2,-z -1.0000000000 0.0000000000 0.0000000000 15.3300000000 0.0000000000 1.0000000000 0.0000000000 -7.2600000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 8 'crystal symmetry operation' 2_645 -x+1,y-1/2,-z -1.0000000000 0.0000000000 0.0000000000 15.3300000000 0.0000000000 1.0000000000 0.0000000000 -2.4200000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 9 'crystal symmetry operation' 2_655 -x+1,y+1/2,-z -1.0000000000 0.0000000000 0.0000000000 15.3300000000 0.0000000000 1.0000000000 0.0000000000 2.4200000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 10 'crystal symmetry operation' 2_665 -x+1,y+3/2,-z -1.0000000000 0.0000000000 0.0000000000 15.3300000000 0.0000000000 1.0000000000 0.0000000000 7.2600000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 # 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 ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 ASN N N N N 14 ASN CA C N S 15 ASN C C N N 16 ASN O O N N 17 ASN CB C N N 18 ASN CG C N N 19 ASN OD1 O N N 20 ASN ND2 N N N 21 ASN OXT O N N 22 ASN H H N N 23 ASN H2 H N N 24 ASN HA H N N 25 ASN HB2 H N N 26 ASN HB3 H N N 27 ASN HD21 H N N 28 ASN HD22 H N N 29 ASN HXT H N N 30 GLY N N N N 31 GLY CA C N N 32 GLY C C N N 33 GLY O O N N 34 GLY OXT O N N 35 GLY H H N N 36 GLY H2 H N N 37 GLY HA2 H N N 38 GLY HA3 H N N 39 GLY HXT H N N 40 HOH O O N N 41 HOH H1 H N N 42 HOH H2 H N N 43 PHE N N N N 44 PHE CA C N S 45 PHE C C N N 46 PHE O O N N 47 PHE CB C N N 48 PHE CG C Y N 49 PHE CD1 C Y N 50 PHE CD2 C Y N 51 PHE CE1 C Y N 52 PHE CE2 C Y N 53 PHE CZ C Y N 54 PHE OXT O N N 55 PHE H H N N 56 PHE H2 H N N 57 PHE HA H N N 58 PHE HB2 H N N 59 PHE HB3 H N N 60 PHE HD1 H N N 61 PHE HD2 H N N 62 PHE HE1 H N N 63 PHE HE2 H N N 64 PHE HZ H N N 65 PHE HXT H N N 66 SER N N N N 67 SER CA C N S 68 SER C C N N 69 SER O O N N 70 SER CB C N N 71 SER OG O N N 72 SER OXT O N N 73 SER H H N N 74 SER H2 H N N 75 SER HA H N N 76 SER HB2 H N N 77 SER HB3 H N N 78 SER HG H N N 79 SER HXT H N N 80 THR N N N N 81 THR CA C N S 82 THR C C N N 83 THR O O N N 84 THR CB C N R 85 THR OG1 O N N 86 THR CG2 C N N 87 THR OXT O N N 88 THR H H N N 89 THR H2 H N N 90 THR HA H N N 91 THR HB H N N 92 THR HG1 H N N 93 THR HG21 H N N 94 THR HG22 H N N 95 THR HG23 H N N 96 THR HXT H N N 97 # 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 ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 ASN N CA sing N N 13 ASN N H sing N N 14 ASN N H2 sing N N 15 ASN CA C sing N N 16 ASN CA CB sing N N 17 ASN CA HA sing N N 18 ASN C O doub N N 19 ASN C OXT sing N N 20 ASN CB CG sing N N 21 ASN CB HB2 sing N N 22 ASN CB HB3 sing N N 23 ASN CG OD1 doub N N 24 ASN CG ND2 sing N N 25 ASN ND2 HD21 sing N N 26 ASN ND2 HD22 sing N N 27 ASN OXT HXT sing N N 28 GLY N CA sing N N 29 GLY N H sing N N 30 GLY N H2 sing N N 31 GLY CA C sing N N 32 GLY CA HA2 sing N N 33 GLY CA HA3 sing N N 34 GLY C O doub N N 35 GLY C OXT sing N N 36 GLY OXT HXT sing N N 37 HOH O H1 sing N N 38 HOH O H2 sing N N 39 PHE N CA sing N N 40 PHE N H sing N N 41 PHE N H2 sing N N 42 PHE CA C sing N N 43 PHE CA CB sing N N 44 PHE CA HA sing N N 45 PHE C O doub N N 46 PHE C OXT sing N N 47 PHE CB CG sing N N 48 PHE CB HB2 sing N N 49 PHE CB HB3 sing N N 50 PHE CG CD1 doub Y N 51 PHE CG CD2 sing Y N 52 PHE CD1 CE1 sing Y N 53 PHE CD1 HD1 sing N N 54 PHE CD2 CE2 doub Y N 55 PHE CD2 HD2 sing N N 56 PHE CE1 CZ doub Y N 57 PHE CE1 HE1 sing N N 58 PHE CE2 CZ sing Y N 59 PHE CE2 HE2 sing N N 60 PHE CZ HZ sing N N 61 PHE OXT HXT sing N N 62 SER N CA sing N N 63 SER N H sing N N 64 SER N H2 sing N N 65 SER CA C sing N N 66 SER CA CB sing N N 67 SER CA HA sing N N 68 SER C O doub N N 69 SER C OXT sing N N 70 SER CB OG sing N N 71 SER CB HB2 sing N N 72 SER CB HB3 sing N N 73 SER OG HG sing N N 74 SER OXT HXT sing N N 75 THR N CA sing N N 76 THR N H sing N N 77 THR N H2 sing N N 78 THR CA C sing N N 79 THR CA CB sing N N 80 THR CA HA sing N N 81 THR C O doub N N 82 THR C OXT sing N N 83 THR CB OG1 sing N N 84 THR CB CG2 sing N N 85 THR CB HB sing N N 86 THR OG1 HG1 sing N N 87 THR CG2 HG21 sing N N 88 THR CG2 HG22 sing N N 89 THR CG2 HG23 sing N N 90 THR OXT HXT sing N N 91 # _pdbx_audit_support.funding_organization 'National Institutes of Health/National Institute on Aging (NIH/NIA)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number 'NIH NIA AG029430' _pdbx_audit_support.ordinal 1 # _atom_sites.entry_id 5WHP _atom_sites.fract_transf_matrix[1][1] 0.065232 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.007904 _atom_sites.fract_transf_matrix[2][1] -0.000000 _atom_sites.fract_transf_matrix[2][2] 0.206612 _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] 0.042737 _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 # loop_