data_9JBL # _entry.id 9JBL # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.403 _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 9JBL pdb_00009jbl 10.2210/pdb9jbl/pdb WWPDB D_1300050799 ? ? # 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 _pdbx_audit_revision_history.part_number 1 'Structure model' 1 0 2025-04-09 ? 2 'Structure model' 1 1 2025-04-16 ? # _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 ? # _pdbx_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Database references' # _pdbx_audit_revision_category.ordinal 1 _pdbx_audit_revision_category.revision_ordinal 2 _pdbx_audit_revision_category.data_content_type 'Structure model' _pdbx_audit_revision_category.category citation # 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.journal_volume' 6 2 'Structure model' '_citation.page_first' 7 2 'Structure model' '_citation.page_last' 8 2 'Structure model' '_citation.pdbx_database_id_DOI' 9 2 'Structure model' '_citation.pdbx_database_id_PubMed' 10 2 'Structure model' '_citation.title' 11 2 'Structure model' '_citation.year' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 9JBL _pdbx_database_status.recvd_initial_deposition_date 2024-08-27 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible N # _pdbx_contact_author.id 2 _pdbx_contact_author.email ysohma@wakayama-med.ac.jp _pdbx_contact_author.name_first Youhei _pdbx_contact_author.name_last Sohma _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-1154-3903 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Sawazaki, T.' 1 0000-0001-5650-998X 'Murai, F.' 2 ? 'Yamamoto, K.' 3 ? 'Sasaki, D.' 4 0000-0002-2224-1900 'Sohma, Y.' 5 0000-0002-1154-3903 # _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 UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nat Commun' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2041-1723 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 16 _citation.language ? _citation.page_first 3164 _citation.page_last 3164 _citation.title 'Amyloid-reoriented enzyme catalysis.' _citation.year 2025 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1038/s41467-025-58536-5 _citation.pdbx_database_id_PubMed 40175427 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Sawazaki, T.' 1 0000-0001-5650-998X primary 'Murai, F.' 2 ? primary 'Yamamoto, K.' 3 ? primary 'Sasaki, D.' 4 0000-0002-2224-1900 primary 'Sohma, Y.' 5 0000-0002-1154-3903 # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description 'Amyloidogenic peptide' _entity.formula_weight 782.948 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details 'The sequence is based on NFGAIL from UNP P10997.' # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(A1L4D)FAALL(NH2)' _entity_poly.pdbx_seq_one_letter_code_can FFAALLX _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 A1L4D n 1 2 PHE n 1 3 ALA n 1 4 ALA n 1 5 LEU n 1 6 LEU n 1 7 NH2 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 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _pdbx_entity_src_syn.details ? # 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 A1L4D 'L-peptide linking' n '(2~{S})-2-benzamido-3-phenyl-propanoic acid' ? 'C16 H15 N O3' 269.295 ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 NH2 non-polymer . 'AMINO GROUP' ? 'H2 N' 16.023 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 # 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 A1L4D 1 1 1 A1L4D PHE A . n A 1 2 PHE 2 2 2 PHE PHE A . n A 1 3 ALA 3 3 3 ALA ALA A . n A 1 4 ALA 4 4 4 ALA ALA A . n A 1 5 LEU 5 5 5 LEU LEU A . n A 1 6 LEU 6 6 6 LEU LEU A . n A 1 7 NH2 7 7 102 NH2 NH2 A . n # loop_ _pdbx_entity_instance_feature.ordinal _pdbx_entity_instance_feature.comp_id _pdbx_entity_instance_feature.asym_id _pdbx_entity_instance_feature.seq_num _pdbx_entity_instance_feature.auth_comp_id _pdbx_entity_instance_feature.auth_asym_id _pdbx_entity_instance_feature.auth_seq_num _pdbx_entity_instance_feature.feature_type _pdbx_entity_instance_feature.details 1 A1L4D ? ? A1L4D ? ? 'SUBJECT OF INVESTIGATION' ? 2 NH2 ? ? NH2 ? ? 'SUBJECT OF INVESTIGATION' ? # 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' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? 'Jun 30, 2023 BUILT=20230630' 1 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? 'Jun 30, 2023 BUILT=20230630' 2 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? 2.8.3 3 ? 'model building' ? ? ? ? ? ? ? ? ? ? ? Coot ? ? ? 0.9.6 4 ? refinement ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.8.0267 5 # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 99.24 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 9JBL _cell.details ? _cell.formula_units_Z ? _cell.length_a 4.813 _cell.length_a_esd ? _cell.length_b 32.067 _cell.length_b_esd ? _cell.length_c 13.478 _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 ? _cell.pdbx_esd_method ? # _symmetry.entry_id 9JBL _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 9JBL _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 1.52 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 19.18 _exptl_crystal.description Needle _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.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method EVAPORATION _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details 'Formic acid' _exptl_crystal_grow.pdbx_pH_range 2.0-3.0 _exptl_crystal_grow.temp 298 # _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.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER X 4M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2023-07-14 _diffrn_detector.pdbx_frequency ? _diffrn_detector.id ? _diffrn_detector.number_of_axes ? # _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 1.000 _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 'SPRING-8 BEAMLINE BL26B1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.000 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL26B1 _diffrn_source.pdbx_synchrotron_site SPring-8 # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 9JBL _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.00 _reflns.d_resolution_low 32.07 _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 2196 _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 99.2 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 6.3 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 25.6 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _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 0.062 _reflns.pdbx_Rpim_I_all 0.033 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.999 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs 0.052 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_CC_split_method ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? # _reflns_shell.d_res_high 1.00 _reflns_shell.d_res_low 1.05 _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 303 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_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 5.3 _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 0.078 _reflns_shell.pdbx_Rpim_I_all 0.045 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.995 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.percent_possible_all 97.9 _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.063 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _refine.aniso_B[1][1] -0.41 _refine.aniso_B[1][2] -0.00 _refine.aniso_B[1][3] 0.49 _refine.aniso_B[2][2] 0.07 _refine.aniso_B[2][3] -0.00 _refine.aniso_B[3][3] 0.17 _refine.B_iso_max ? _refine.B_iso_mean 2.970 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.998 _refine.correlation_coeff_Fo_to_Fc_free 0.999 _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 9JBL _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 1.00 _refine.ls_d_res_low 16.03 _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 2055 _refine.ls_number_reflns_R_free 125 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.09 _refine.ls_percent_reflns_R_free 5.7 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.03653 _refine.ls_R_factor_R_free 0.04439 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.03602 _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 MASK _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _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 ? _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 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.007 _refine.pdbx_overall_ESU_R_Free 0.008 _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_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 0.196 _refine.overall_SU_ML 0.005 _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.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id 1 _refine_hist.details ? _refine_hist.d_res_high 1.00 _refine_hist.d_res_low 16.03 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 57 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 49 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 8 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # 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' ? 0.013 0.012 59 ? r_bond_refined_d ? ? 'X-RAY DIFFRACTION' ? 0.002 0.017 57 ? r_bond_other_d ? ? 'X-RAY DIFFRACTION' ? 1.555 1.567 79 ? r_angle_refined_deg ? ? 'X-RAY DIFFRACTION' ? 1.322 1.563 125 ? r_angle_other_deg ? ? 'X-RAY DIFFRACTION' ? 4.421 5.000 5 ? r_dihedral_angle_1_deg ? ? 'X-RAY DIFFRACTION' ? 9.520 20.000 2 ? r_dihedral_angle_2_deg ? ? 'X-RAY DIFFRACTION' ? 7.779 15.000 6 ? r_dihedral_angle_3_deg ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_dihedral_angle_4_deg ? ? 'X-RAY DIFFRACTION' ? 0.063 0.200 6 ? r_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.008 0.020 67 ? r_gen_planes_refined ? ? 'X-RAY DIFFRACTION' ? 0.001 0.020 21 ? r_gen_planes_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbd_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbd_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbtor_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbtor_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_xyhbond_nbd_refined ? ? '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 ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_vdw_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_hbond_refined ? ? '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' ? 0.506 0.220 24 ? r_mcbond_it ? ? 'X-RAY DIFFRACTION' ? 0.482 0.214 22 ? r_mcbond_other ? ? 'X-RAY DIFFRACTION' ? 0.500 0.334 28 ? r_mcangle_it ? ? 'X-RAY DIFFRACTION' ? 0.497 0.329 28 ? r_mcangle_other ? ? 'X-RAY DIFFRACTION' ? 0.474 0.332 35 ? r_scbond_it ? ? 'X-RAY DIFFRACTION' ? 0.469 0.331 36 ? r_scbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_scangle_it ? ? 'X-RAY DIFFRACTION' ? 0.559 ? 51 ? r_scangle_other ? ? 'X-RAY DIFFRACTION' ? 0.641 2.842 51 ? r_long_range_B_refined ? ? 'X-RAY DIFFRACTION' ? 0.636 2.829 52 ? r_long_range_B_other ? ? 'X-RAY DIFFRACTION' ? 5.399 3.000 115 ? r_rigid_bond_restr ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_sphericity_free ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_sphericity_bonded ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 1.000 _refine_ls_shell.d_res_low 1.026 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 6 _refine_ls_shell.number_reflns_R_work 146 _refine_ls_shell.percent_reflns_obs 95.60 _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_error ? _refine_ls_shell.R_factor_R_work 0.045 _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_R_complete ? _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 ? _refine_ls_shell.R_factor_R_free 0.033 # _struct.entry_id 9JBL _struct.title 'Crystal structure of amyloidogenic peptide Bz-FFAALL-NH2' _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 9JBL _struct_keywords.text 'Amyloid, Amyloid-reoriented enzyme catalysis, PROTEIN FIBRIL' _struct_keywords.pdbx_keywords 'PROTEIN FIBRIL' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 9JBL _struct_ref.pdbx_db_accession 9JBL _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 9JBL _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 7 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 9JBL _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 7 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 7 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A # _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 ? # _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_ _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 _struct_conn.pdbx_role covale1 covale both ? A A1L4D 1 C ? ? ? 1_555 A PHE 2 N ? ? A A1L4D 1 A PHE 2 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale2 covale both ? A LEU 6 C ? ? ? 1_555 A NH2 7 N ? ? A LEU 6 A NH2 7 1_555 ? ? ? ? ? ? ? 1.319 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _pdbx_modification_feature.ordinal _pdbx_modification_feature.label_comp_id _pdbx_modification_feature.label_asym_id _pdbx_modification_feature.label_seq_id _pdbx_modification_feature.label_alt_id _pdbx_modification_feature.modified_residue_label_comp_id _pdbx_modification_feature.modified_residue_label_asym_id _pdbx_modification_feature.modified_residue_label_seq_id _pdbx_modification_feature.modified_residue_label_alt_id _pdbx_modification_feature.auth_comp_id _pdbx_modification_feature.auth_asym_id _pdbx_modification_feature.auth_seq_id _pdbx_modification_feature.PDB_ins_code _pdbx_modification_feature.symmetry _pdbx_modification_feature.modified_residue_auth_comp_id _pdbx_modification_feature.modified_residue_auth_asym_id _pdbx_modification_feature.modified_residue_auth_seq_id _pdbx_modification_feature.modified_residue_PDB_ins_code _pdbx_modification_feature.modified_residue_symmetry _pdbx_modification_feature.comp_id_linking_atom _pdbx_modification_feature.modified_residue_id_linking_atom _pdbx_modification_feature.modified_residue_id _pdbx_modification_feature.ref_pcm_id _pdbx_modification_feature.ref_comp_id _pdbx_modification_feature.type _pdbx_modification_feature.category 1 A1L4D A 1 ? . . . . A1L4D A 1 ? 1_555 . . . . . . . PHE 1 A1L4D Benzoylation 'Named protein modification' 2 NH2 A 7 ? LEU A 6 ? NH2 A 7 ? 1_555 LEU A 6 ? 1_555 . . LEU 14 NH2 None 'Terminal amidation' # _pdbx_entry_details.entry_id 9JBL _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.has_protein_modification Y # 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 A1L4D C C N N 1 A1L4D O O N N 2 A1L4D CA C N S 3 A1L4D CB C N N 4 A1L4D CG C Y N 5 A1L4D CD1 C Y N 6 A1L4D CE1 C Y N 7 A1L4D CZ C Y N 8 A1L4D CE2 C Y N 9 A1L4D CD2 C Y N 10 A1L4D N N N N 11 A1L4D C10 C N N 12 A1L4D O4 O N N 13 A1L4D C11 C Y N 14 A1L4D C12 C Y N 15 A1L4D C13 C Y N 16 A1L4D C14 C Y N 17 A1L4D C15 C Y N 18 A1L4D C16 C Y N 19 A1L4D HA H N N 20 A1L4D HB2 H N N 21 A1L4D HB3 H N N 22 A1L4D HD1 H N N 23 A1L4D HE1 H N N 24 A1L4D HZ H N N 25 A1L4D HE2 H N N 26 A1L4D HD2 H N N 27 A1L4D H H N N 28 A1L4D H11 H N N 29 A1L4D H12 H N N 30 A1L4D H13 H N N 31 A1L4D H14 H N N 32 A1L4D H15 H N N 33 A1L4D OXT O N N 34 A1L4D HXT H N N 35 ALA N N N N 36 ALA CA C N S 37 ALA C C N N 38 ALA O O N N 39 ALA CB C N N 40 ALA OXT O N N 41 ALA H H N N 42 ALA H2 H N N 43 ALA HA H N N 44 ALA HB1 H N N 45 ALA HB2 H N N 46 ALA HB3 H N N 47 ALA HXT H N N 48 LEU N N N N 49 LEU CA C N S 50 LEU C C N N 51 LEU O O N N 52 LEU CB C N N 53 LEU CG C N N 54 LEU CD1 C N N 55 LEU CD2 C N N 56 LEU OXT O N N 57 LEU H H N N 58 LEU H2 H N N 59 LEU HA H N N 60 LEU HB2 H N N 61 LEU HB3 H N N 62 LEU HG H N N 63 LEU HD11 H N N 64 LEU HD12 H N N 65 LEU HD13 H N N 66 LEU HD21 H N N 67 LEU HD22 H N N 68 LEU HD23 H N N 69 LEU HXT H N N 70 NH2 N N N N 71 NH2 HN1 H N N 72 NH2 HN2 H N N 73 PHE N N N N 74 PHE CA C N S 75 PHE C C N N 76 PHE O O N N 77 PHE CB C N N 78 PHE CG C Y N 79 PHE CD1 C Y N 80 PHE CD2 C Y N 81 PHE CE1 C Y N 82 PHE CE2 C Y N 83 PHE CZ C Y N 84 PHE OXT O N N 85 PHE H H N N 86 PHE H2 H N N 87 PHE HA H N N 88 PHE HB2 H N N 89 PHE HB3 H N N 90 PHE HD1 H N N 91 PHE HD2 H N N 92 PHE HE1 H N N 93 PHE HE2 H N N 94 PHE HZ H N N 95 PHE HXT H N N 96 # 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 A1L4D C13 C12 doub Y N 1 A1L4D C13 C14 sing Y N 2 A1L4D CE2 CD2 doub Y N 3 A1L4D CE2 CZ sing Y N 4 A1L4D CD2 CG sing Y N 5 A1L4D C12 C11 sing Y N 6 A1L4D C14 C15 doub Y N 7 A1L4D CB CG sing N N 8 A1L4D CB CA sing N N 9 A1L4D CG CD1 doub Y N 10 A1L4D CZ CE1 doub Y N 11 A1L4D C11 C10 sing N N 12 A1L4D C11 C16 doub Y N 13 A1L4D O4 C10 doub N N 14 A1L4D C10 N sing N N 15 A1L4D C15 C16 sing Y N 16 A1L4D CD1 CE1 sing Y N 17 A1L4D N CA sing N N 18 A1L4D CA C sing N N 19 A1L4D C O doub N N 20 A1L4D CA HA sing N N 21 A1L4D CB HB2 sing N N 22 A1L4D CB HB3 sing N N 23 A1L4D CD1 HD1 sing N N 24 A1L4D CE1 HE1 sing N N 25 A1L4D CZ HZ sing N N 26 A1L4D CE2 HE2 sing N N 27 A1L4D CD2 HD2 sing N N 28 A1L4D N H sing N N 29 A1L4D C12 H11 sing N N 30 A1L4D C13 H12 sing N N 31 A1L4D C14 H13 sing N N 32 A1L4D C15 H14 sing N N 33 A1L4D C16 H15 sing N N 34 A1L4D C OXT sing N N 35 A1L4D OXT HXT sing N N 36 ALA N CA sing N N 37 ALA N H sing N N 38 ALA N H2 sing N N 39 ALA CA C sing N N 40 ALA CA CB sing N N 41 ALA CA HA sing N N 42 ALA C O doub N N 43 ALA C OXT sing N N 44 ALA CB HB1 sing N N 45 ALA CB HB2 sing N N 46 ALA CB HB3 sing N N 47 ALA OXT HXT sing N N 48 LEU N CA sing N N 49 LEU N H sing N N 50 LEU N H2 sing N N 51 LEU CA C sing N N 52 LEU CA CB sing N N 53 LEU CA HA sing N N 54 LEU C O doub N N 55 LEU C OXT sing N N 56 LEU CB CG sing N N 57 LEU CB HB2 sing N N 58 LEU CB HB3 sing N N 59 LEU CG CD1 sing N N 60 LEU CG CD2 sing N N 61 LEU CG HG sing N N 62 LEU CD1 HD11 sing N N 63 LEU CD1 HD12 sing N N 64 LEU CD1 HD13 sing N N 65 LEU CD2 HD21 sing N N 66 LEU CD2 HD22 sing N N 67 LEU CD2 HD23 sing N N 68 LEU OXT HXT sing N N 69 NH2 N HN1 sing N N 70 NH2 N HN2 sing N N 71 PHE N CA sing N N 72 PHE N H sing N N 73 PHE N H2 sing N N 74 PHE CA C sing N N 75 PHE CA CB sing N N 76 PHE CA HA sing N N 77 PHE C O doub N N 78 PHE C OXT sing N N 79 PHE CB CG sing N N 80 PHE CB HB2 sing N N 81 PHE CB HB3 sing N N 82 PHE CG CD1 doub Y N 83 PHE CG CD2 sing Y N 84 PHE CD1 CE1 sing Y N 85 PHE CD1 HD1 sing N N 86 PHE CD2 CE2 doub Y N 87 PHE CD2 HD2 sing N N 88 PHE CE1 CZ doub Y N 89 PHE CE1 HE1 sing N N 90 PHE CE2 CZ sing Y N 91 PHE CE2 HE2 sing N N 92 PHE CZ HZ sing N N 93 PHE OXT HXT sing N N 94 # _pdbx_audit_support.funding_organization 'Japan Agency for Medical Research and Development (AMED)' _pdbx_audit_support.country Japan _pdbx_audit_support.grant_number JP23ama121001 _pdbx_audit_support.ordinal 1 # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 7N8R _pdbx_initial_refinement_model.details 'Polyalanine model' # _atom_sites.entry_id 9JBL _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.Cartn_transform_axes ? _atom_sites.fract_transf_matrix[1][1] 0.207771 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.033804 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.031185 _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] 0.075171 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C N O # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_alt_id _atom_site.label_comp_id _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.label_seq_id _atom_site.pdbx_PDB_ins_code _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_seq_id _atom_site.auth_comp_id _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.pdbx_PDB_model_num HETATM 1 C C . A1L4D A 1 1 ? -0.054 -2.710 0.136 1.00 1.95 ? 1 A1L4D A C 1 HETATM 2 O O . A1L4D A 1 1 ? -1.232 -2.868 0.466 1.00 2.23 ? 1 A1L4D A O 1 HETATM 3 C CA . A1L4D A 1 1 ? 0.436 -3.152 -1.242 1.00 2.34 ? 1 A1L4D A CA 1 HETATM 4 C CB . A1L4D A 1 1 ? -0.331 -2.412 -2.338 1.00 2.63 ? 1 A1L4D A CB 1 HETATM 5 C CG . A1L4D A 1 1 ? -0.204 -0.908 -2.292 1.00 2.70 ? 1 A1L4D A CG 1 HETATM 6 C CD1 . A1L4D A 1 1 ? -0.969 -0.147 -1.435 1.00 4.08 ? 1 A1L4D A CD1 1 HETATM 7 C CE1 . A1L4D A 1 1 ? -0.870 1.233 -1.406 1.00 4.93 ? 1 A1L4D A CE1 1 HETATM 8 C CZ . A1L4D A 1 1 ? -0.003 1.870 -2.271 1.00 4.85 ? 1 A1L4D A CZ 1 HETATM 9 C CE2 . A1L4D A 1 1 ? 0.793 1.124 -3.104 1.00 5.41 ? 1 A1L4D A CE2 1 HETATM 10 C CD2 . A1L4D A 1 1 ? 0.687 -0.251 -3.103 1.00 4.48 ? 1 A1L4D A CD2 1 HETATM 11 N N . A1L4D A 1 1 ? 0.243 -4.591 -1.385 1.00 2.32 ? 1 A1L4D A N 1 HETATM 12 C C10 . A1L4D A 1 1 ? 1.219 -5.385 -1.808 1.00 2.50 ? 1 A1L4D A C10 1 HETATM 13 O O4 . A1L4D A 1 1 ? 2.358 -4.974 -2.019 1.00 3.66 ? 1 A1L4D A O4 1 HETATM 14 C C11 . A1L4D A 1 1 ? 0.892 -6.822 -2.073 1.00 2.39 ? 1 A1L4D A C11 1 HETATM 15 C C12 . A1L4D A 1 1 ? 1.652 -7.493 -3.009 1.00 2.94 ? 1 A1L4D A C12 1 HETATM 16 C C13 . A1L4D A 1 1 ? 1.388 -8.823 -3.311 1.00 3.29 ? 1 A1L4D A C13 1 HETATM 17 C C14 . A1L4D A 1 1 ? 0.379 -9.472 -2.667 1.00 3.45 ? 1 A1L4D A C14 1 HETATM 18 C C15 . A1L4D A 1 1 ? -0.380 -8.808 -1.724 1.00 3.69 ? 1 A1L4D A C15 1 HETATM 19 C C16 . A1L4D A 1 1 ? -0.139 -7.484 -1.420 1.00 2.92 ? 1 A1L4D A C16 1 ATOM 20 N N . PHE A 1 2 ? 0.860 -2.125 0.895 1.00 1.98 ? 2 PHE A N 1 ATOM 21 C CA . PHE A 1 2 ? 0.576 -1.539 2.197 1.00 2.10 ? 2 PHE A CA 1 ATOM 22 C C . PHE A 1 2 ? 1.164 -0.134 2.216 1.00 2.05 ? 2 PHE A C 1 ATOM 23 O O . PHE A 1 2 ? 2.364 0.032 1.970 1.00 2.40 ? 2 PHE A O 1 ATOM 24 C CB . PHE A 1 2 ? 1.231 -2.370 3.309 1.00 2.53 ? 2 PHE A CB 1 ATOM 25 C CG . PHE A 1 2 ? 1.115 -1.786 4.696 1.00 2.64 ? 2 PHE A CG 1 ATOM 26 C CD1 . PHE A 1 2 ? 1.957 -0.766 5.123 1.00 3.17 ? 2 PHE A CD1 1 ATOM 27 C CD2 . PHE A 1 2 ? 0.174 -2.244 5.570 1.00 3.65 ? 2 PHE A CD2 1 ATOM 28 C CE1 . PHE A 1 2 ? 1.846 -0.255 6.402 1.00 3.93 ? 2 PHE A CE1 1 ATOM 29 C CE2 . PHE A 1 2 ? 0.071 -1.742 6.855 1.00 4.38 ? 2 PHE A CE2 1 ATOM 30 C CZ . PHE A 1 2 ? 0.925 -0.733 7.271 1.00 4.04 ? 2 PHE A CZ 1 ATOM 31 N N . ALA A 1 3 ? 0.335 0.841 2.564 1.00 2.03 ? 3 ALA A N 1 ATOM 32 C CA . ALA A 1 3 ? 0.819 2.206 2.737 1.00 2.47 ? 3 ALA A CA 1 ATOM 33 C C . ALA A 1 3 ? 0.114 2.827 3.930 1.00 2.29 ? 3 ALA A C 1 ATOM 34 O O . ALA A 1 3 ? -1.117 2.742 4.044 1.00 3.46 ? 3 ALA A O 1 ATOM 35 C CB . ALA A 1 3 ? 0.568 3.031 1.506 1.00 3.77 ? 3 ALA A CB 1 ATOM 36 N N . ALA A 1 4 ? 0.873 3.500 4.779 1.00 1.98 ? 4 ALA A N 1 ATOM 37 C CA . ALA A 1 4 ? 0.280 4.122 5.963 1.00 2.33 ? 4 ALA A CA 1 ATOM 38 C C . ALA A 1 4 ? 0.967 5.461 6.238 1.00 2.05 ? 4 ALA A C 1 ATOM 39 O O . ALA A 1 4 ? 2.183 5.577 6.139 1.00 2.41 ? 4 ALA A O 1 ATOM 40 C CB . ALA A 1 4 ? 0.400 3.232 7.175 1.00 3.70 ? 4 ALA A CB 1 ATOM 41 N N . LEU A 1 5 ? 0.144 6.427 6.640 1.00 1.81 ? 5 LEU A N 1 ATOM 42 C CA . LEU A 1 5 ? 0.595 7.743 7.086 1.00 2.01 ? 5 LEU A CA 1 ATOM 43 C C . LEU A 1 5 ? -0.041 7.951 8.456 1.00 1.89 ? 5 LEU A C 1 ATOM 44 O O . LEU A 1 5 ? -1.276 7.934 8.561 1.00 2.42 ? 5 LEU A O 1 ATOM 45 C CB . LEU A 1 5 ? 0.200 8.811 6.090 1.00 2.28 ? 5 LEU A CB 1 ATOM 46 C CG . LEU A 1 5 ? 0.717 10.227 6.352 1.00 2.89 ? 5 LEU A CG 1 ATOM 47 C CD1 . LEU A 1 5 ? 0.450 11.096 5.139 1.00 4.36 ? 5 LEU A CD1 1 ATOM 48 C CD2 . LEU A 1 5 ? 0.136 10.884 7.581 1.00 4.23 ? 5 LEU A CD2 1 ATOM 49 N N . LEU A 1 6 ? 0.781 8.118 9.485 1.00 1.95 ? 6 LEU A N 1 ATOM 50 C CA . LEU A 1 6 ? 0.321 8.316 10.844 1.00 2.21 ? 6 LEU A CA 1 ATOM 51 C C . LEU A 1 6 ? 0.794 9.698 11.318 1.00 2.44 ? 6 LEU A C 1 ATOM 52 O O . LEU A 1 6 ? 1.987 9.965 11.310 1.00 3.65 ? 6 LEU A O 1 ATOM 53 C CB . LEU A 1 6 ? 0.873 7.259 11.795 1.00 2.57 ? 6 LEU A CB 1 ATOM 54 C CG . LEU A 1 6 ? 0.254 5.870 11.742 1.00 3.79 ? 6 LEU A CG 1 ATOM 55 C CD1 . LEU A 1 6 ? 0.265 5.213 10.400 1.00 5.39 ? 6 LEU A CD1 1 ATOM 56 C CD2 . LEU A 1 6 ? 0.890 4.972 12.765 1.00 4.01 ? 6 LEU A CD2 1 HETATM 57 N N . NH2 A 1 7 ? -0.141 10.507 11.776 1.00 2.97 ? 7 NH2 A N 1 # loop_ _atom_site_anisotrop.id _atom_site_anisotrop.type_symbol _atom_site_anisotrop.pdbx_label_atom_id _atom_site_anisotrop.pdbx_label_alt_id _atom_site_anisotrop.pdbx_label_comp_id _atom_site_anisotrop.pdbx_label_asym_id _atom_site_anisotrop.pdbx_label_seq_id _atom_site_anisotrop.pdbx_PDB_ins_code _atom_site_anisotrop.U[1][1] _atom_site_anisotrop.U[2][2] _atom_site_anisotrop.U[3][3] _atom_site_anisotrop.U[1][2] _atom_site_anisotrop.U[1][3] _atom_site_anisotrop.U[2][3] _atom_site_anisotrop.pdbx_auth_seq_id _atom_site_anisotrop.pdbx_auth_comp_id _atom_site_anisotrop.pdbx_auth_asym_id _atom_site_anisotrop.pdbx_auth_atom_id 1 C C . A1L4D A 1 ? 0.0474 0.0065 0.0199 0.0005 -0.0233 -0.0006 1 A1L4D A C 2 O O . A1L4D A 1 ? 0.0437 0.0161 0.0246 -0.0016 -0.0198 -0.0055 1 A1L4D A O 3 C CA . A1L4D A 1 ? 0.0513 0.0157 0.0218 -0.0033 -0.0190 -0.0068 1 A1L4D A CA 4 C CB . A1L4D A 1 ? 0.0611 0.0175 0.0212 -0.0055 -0.0186 -0.0046 1 A1L4D A CB 5 C CG . A1L4D A 1 ? 0.0649 0.0165 0.0211 -0.0018 -0.0247 -0.0015 1 A1L4D A CG 6 C CD1 . A1L4D A 1 ? 0.0800 0.0252 0.0498 0.0021 -0.0043 0.0021 1 A1L4D A CD1 7 C CE1 . A1L4D A 1 ? 0.0965 0.0210 0.0699 0.0055 -0.0077 -0.0059 1 A1L4D A CE1 8 C CZ . A1L4D A 1 ? 0.1061 0.0178 0.0603 -0.0060 -0.0201 0.0074 1 A1L4D A CZ 9 C CE2 . A1L4D A 1 ? 0.1230 0.0320 0.0506 -0.0245 0.0019 0.0070 1 A1L4D A CE2 10 C CD2 . A1L4D A 1 ? 0.1064 0.0307 0.0330 -0.0070 0.0023 -0.0063 1 A1L4D A CD2 11 N N . A1L4D A 1 ? 0.0485 0.0139 0.0255 -0.0023 -0.0161 -0.0089 1 A1L4D A N 12 C C10 . A1L4D A 1 ? 0.0503 0.0199 0.0246 0.0010 -0.0260 -0.0069 1 A1L4D A C10 13 O O4 . A1L4D A 1 ? 0.0529 0.0225 0.0634 0.0014 -0.0202 -0.0143 1 A1L4D A O4 14 C C11 . A1L4D A 1 ? 0.0528 0.0169 0.0209 0.0022 -0.0253 -0.0041 1 A1L4D A C11 15 C C12 . A1L4D A 1 ? 0.0605 0.0209 0.0300 0.0009 -0.0178 -0.0066 1 A1L4D A C12 16 C C13 . A1L4D A 1 ? 0.0779 0.0192 0.0277 0.0094 -0.0294 -0.0117 1 A1L4D A C13 17 C C14 . A1L4D A 1 ? 0.0882 0.0089 0.0339 -0.0017 -0.0292 -0.0012 1 A1L4D A C14 18 C C15 . A1L4D A 1 ? 0.0842 0.0178 0.0380 -0.0064 -0.0220 0.0051 1 A1L4D A C15 19 C C16 . A1L4D A 1 ? 0.0632 0.0202 0.0272 0.0014 -0.0250 -0.0032 1 A1L4D A C16 20 N N . PHE A 2 ? 0.0420 0.0103 0.0228 0.0005 -0.0191 -0.0052 2 PHE A N 21 C CA . PHE A 2 ? 0.0461 0.0142 0.0193 0.0013 -0.0195 -0.0058 2 PHE A CA 22 C C . PHE A 2 ? 0.0443 0.0141 0.0195 0.0008 -0.0219 -0.0024 2 PHE A C 23 O O . PHE A 2 ? 0.0402 0.0186 0.0321 -0.0014 -0.0213 -0.0087 2 PHE A O 24 C CB . PHE A 2 ? 0.0529 0.0141 0.0288 0.0027 -0.0199 0.0000 2 PHE A CB 25 C CG . PHE A 2 ? 0.0579 0.0191 0.0231 0.0064 -0.0220 0.0040 2 PHE A CG 26 C CD1 . PHE A 2 ? 0.0575 0.0369 0.0260 -0.0011 -0.0223 -0.0061 2 PHE A CD1 27 C CD2 . PHE A 2 ? 0.0741 0.0317 0.0326 0.0023 -0.0189 0.0065 2 PHE A CD2 28 C CE1 . PHE A 2 ? 0.0685 0.0510 0.0297 0.0018 -0.0282 -0.0099 2 PHE A CE1 29 C CE2 . PHE A 2 ? 0.0825 0.0518 0.0320 0.0025 -0.0063 0.0044 2 PHE A CE2 30 C CZ . PHE A 2 ? 0.0725 0.0557 0.0251 0.0126 -0.0192 -0.0047 2 PHE A CZ 31 N N . ALA A 3 ? 0.0436 0.0111 0.0222 0.0000 -0.0206 -0.0046 3 ALA A N 32 C CA . ALA A 3 ? 0.0473 0.0136 0.0330 -0.0034 -0.0191 -0.0095 3 ALA A CA 33 C C . ALA A 3 ? 0.0458 0.0117 0.0293 0.0004 -0.0247 -0.0066 3 ALA A C 34 O O . ALA A 3 ? 0.0395 0.0467 0.0450 -0.0013 -0.0226 -0.0278 3 ALA A O 35 C CB . ALA A 3 ? 0.0927 0.0186 0.0318 -0.0021 -0.0079 -0.0045 3 ALA A CB 36 N N . ALA A 4 ? 0.0373 0.0126 0.0253 -0.0006 -0.0204 -0.0054 4 ALA A N 37 C CA . ALA A 4 ? 0.0466 0.0174 0.0242 -0.0009 -0.0182 -0.0099 4 ALA A CA 38 C C . ALA A 4 ? 0.0444 0.0143 0.0190 0.0018 -0.0212 -0.0037 4 ALA A C 39 O O . ALA A 4 ? 0.0383 0.0162 0.0369 -0.0016 -0.0185 -0.0121 4 ALA A O 40 C CB . ALA A 4 ? 0.0908 0.0170 0.0326 -0.0091 -0.0105 -0.0035 4 ALA A CB 41 N N . LEU A 5 ? 0.0365 0.0119 0.0202 0.0001 -0.0203 -0.0013 5 LEU A N 42 C CA . LEU A 5 ? 0.0430 0.0124 0.0207 0.0013 -0.0219 -0.0036 5 LEU A CA 43 C C . LEU A 5 ? 0.0463 0.0066 0.0186 0.0018 -0.0221 -0.0011 5 LEU A C 44 O O . LEU A 5 ? 0.0408 0.0303 0.0207 0.0010 -0.0207 -0.0074 5 LEU A O 45 C CB . LEU A 5 ? 0.0491 0.0187 0.0187 -0.0005 -0.0225 -0.0024 5 LEU A CB 46 C CG . LEU A 5 ? 0.0653 0.0153 0.0291 0.0005 -0.0295 0.0002 5 LEU A CG 47 C CD1 . LEU A 5 ? 0.1060 0.0216 0.0379 -0.0038 -0.0232 0.0064 5 LEU A CD1 48 C CD2 . LEU A 5 ? 0.0984 0.0201 0.0421 -0.0052 -0.0234 -0.0004 5 LEU A CD2 49 N N . LEU A 6 ? 0.0408 0.0151 0.0180 0.0013 -0.0196 -0.0027 6 LEU A N 50 C CA . LEU A 6 ? 0.0484 0.0190 0.0163 0.0007 -0.0192 -0.0042 6 LEU A CA 51 C C . LEU A 6 ? 0.0563 0.0198 0.0165 0.0004 -0.0216 -0.0036 6 LEU A C 52 O O . LEU A 6 ? 0.0563 0.0325 0.0497 -0.0055 -0.0226 -0.0142 6 LEU A O 53 C CB . LEU A 6 ? 0.0516 0.0247 0.0211 0.0013 -0.0235 -0.0020 6 LEU A CB 54 C CG . LEU A 6 ? 0.0825 0.0244 0.0370 -0.0029 -0.0304 0.0013 6 LEU A CG 55 C CD1 . LEU A 6 ? 0.1386 0.0250 0.0410 -0.0203 -0.0402 0.0077 6 LEU A CD1 56 C CD2 . LEU A 6 ? 0.0889 0.0234 0.0399 0.0014 -0.0274 0.0037 6 LEU A CD2 57 N N . NH2 A 7 ? 0.0634 0.0201 0.0293 0.0023 -0.0223 -0.0109 7 NH2 A N #